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  <front>
    <journal-meta><journal-id journal-id-type="publisher">BG</journal-id><journal-title-group>
    <journal-title>Biogeosciences</journal-title>
    <abbrev-journal-title abbrev-type="publisher">BG</abbrev-journal-title><abbrev-journal-title abbrev-type="nlm-ta">Biogeosciences</abbrev-journal-title>
  </journal-title-group><issn pub-type="epub">1726-4189</issn><publisher>
    <publisher-name>Copernicus Publications</publisher-name>
    <publisher-loc>Göttingen, Germany</publisher-loc>
  </publisher></journal-meta>
    <article-meta>
      <article-id pub-id-type="doi">10.5194/bg-17-2745-2020</article-id><title-group><article-title>Removal of phosphorus and nitrogen in sediments of the eutrophic Stockholm
archipelago, Baltic Sea</article-title><alt-title>Removal of phosphorus and nitrogen</alt-title>
      </title-group><?xmltex \runningtitle{Removal of phosphorus and nitrogen}?><?xmltex \runningauthor{N.~A.~G.~M.~van Helmond et al.}?>
      <contrib-group>
        <contrib contrib-type="author" equal-contrib="yes" corresp="yes" rid="aff1 aff2 aff3">
          <name><surname>van Helmond</surname><given-names>Niels A. G. M.</given-names></name>
          <email>n.vanhelmond@uu.nl</email>
        </contrib>
        <contrib contrib-type="author" equal-contrib="yes" corresp="no" rid="aff2 aff4">
          <name><surname>Robertson</surname><given-names>Elizabeth K.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0003-4440-873X</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2">
          <name><surname>Conley</surname><given-names>Daniel J.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-9668-9284</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Hermans</surname><given-names>Martijn</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff5">
          <name><surname>Humborg</surname><given-names>Christoph</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1 aff6">
          <name><surname>Kubeneck</surname><given-names>L. Joëlle</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Lenstra</surname><given-names>Wytze K.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0003-0979-5594</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Slomp</surname><given-names>Caroline P.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-7272-0109</ext-link></contrib>
        <aff id="aff1"><label>1</label><institution>Department of Earth Sciences, Faculty of Geosciences, Utrecht
University, Princetonlaan 8a, <?xmltex \hack{\break}?>3584 CB Utrecht, the Netherlands</institution>
        </aff>
        <aff id="aff2"><label>2</label><institution>Department of Geology, Lund University, Sölvegatan 12, 223 62
Lund, Sweden</institution>
        </aff>
        <aff id="aff3"><label>3</label><institution>Department of Microbiology, Institute for Water and Wetland Research,
Radboud University, Heyendaalseweg 135, <?xmltex \hack{\break}?>6525 AJ Nijmegen, the Netherlands</institution>
        </aff>
        <aff id="aff4"><label>4</label><institution>Department of Marine Sciences, University of Gothenburg, Box 461,
40530 Gothenburg, Sweden</institution>
        </aff>
        <aff id="aff5"><label>5</label><institution>Baltic Sea Centre, Stockholm University, 106 91 Stockholm, Sweden</institution>
        </aff>
        <aff id="aff6"><label>a</label><institution>now at: Institute of Biogeochemistry and Pollutant Dynamics,
Department of Environmental Systems Science, <?xmltex \hack{\break}?>ETH Zürich,
Universitätstrasse 16, 8092 Zürich, Switzerland</institution>
        </aff><author-comment content-type="econtrib"><p>These authors contributed equally to this work.</p></author-comment>
      </contrib-group>
      <author-notes><corresp id="corr1">Niels A. G. M. van Helmond (n.vanhelmond@uu.nl)</corresp></author-notes><pub-date><day>24</day><month>May</month><year>2020</year></pub-date>
      
      <volume>17</volume>
      <issue>10</issue>
      <fpage>2745</fpage><lpage>2766</lpage>
      <history>
        <date date-type="received"><day>19</day><month>September</month><year>2019</year></date>
           <date date-type="rev-request"><day>7</day><month>October</month><year>2019</year></date>
           <date date-type="rev-recd"><day>20</day><month>April</month><year>2020</year></date>
           <date date-type="accepted"><day>21</day><month>April</month><year>2020</year></date>
      </history>
      <permissions>
        <copyright-statement>Copyright: © 2020 Niels A. G. M. van Helmond et al.</copyright-statement>
        <copyright-year>2020</copyright-year>
      <license license-type="open-access"><license-p>This work is licensed under the Creative Commons Attribution 4.0 International License. To view a copy of this licence, visit <ext-link ext-link-type="uri" xlink:href="https://creativecommons.org/licenses/by/4.0/">https://creativecommons.org/licenses/by/4.0/</ext-link></license-p></license></permissions><self-uri xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020.html">This article is available from https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020.html</self-uri><self-uri xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020.pdf">The full text article is available as a PDF file from https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020.pdf</self-uri>
      <abstract><title>Abstract</title>
    <p id="d1e187">Coastal systems can act as filters for anthropogenic
nutrient input into marine environments. Here, we assess the processes
controlling the removal of phosphorus (P) and nitrogen (N) for four sites in
the eutrophic Stockholm archipelago. Bottom water concentrations of oxygen
(<inline-formula><mml:math id="M1" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>) and P are inversely correlated. This is attributed to the seasonal
release of P from iron-oxide-bound (Fe-oxide-bound) P in surface sediments and from
degrading organic matter. The abundant presence of sulfide in the pore water
and its high upward flux towards the sediment surface (<inline-formula><mml:math id="M2" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">4</mml:mn></mml:mrow></mml:math></inline-formula> to
8 mmol m<inline-formula><mml:math id="M3" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M4" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>), linked to prior deposition of organic-rich
sediments in a low-<inline-formula><mml:math id="M5" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> setting (“legacy of hypoxia”), hinder the
formation of a larger Fe-oxide-bound P pool in winter. This is most
pronounced at sites where water column mixing is naturally relatively low
and where low bottom water <inline-formula><mml:math id="M6" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> concentrations prevail in summer. Burial rates
of P are high at all sites (0.03–0.3 mol m<inline-formula><mml:math id="M7" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> yr<inline-formula><mml:math id="M8" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>), a combined
result of high sedimentation rates (0.5 to 3.5 cm yr<inline-formula><mml:math id="M9" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) and high
sedimentary P at depth (<inline-formula><mml:math id="M10" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">30</mml:mn></mml:mrow></mml:math></inline-formula> to 50 <inline-formula><mml:math id="M11" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol g<inline-formula><mml:math id="M12" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>).
Sedimentary P is dominated by Fe-bound P and organic P at the sediment
surface and by organic P, authigenic Ca-P and detrital P at depth. Apart
from one site in the inner archipelago, where a vivianite-type Fe(II)-P
mineral is likely present at depth, there is little evidence for
sink switching of organic or Fe-oxide-bound P to authigenic P minerals.
Denitrification is the major benthic nitrate-reducing process at all sites
(0.09 to 1.7 mmol m<inline-formula><mml:math id="M13" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M14" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) with rates decreasing seaward from the
inner to outer archipelago. Our results explain how sediments in this
eutrophic coastal system can remove P through burial at a relatively high
rate, regardless of whether the bottom waters are oxic or (frequently)
hypoxic. Our results suggest that benthic N processes undergo annual cycles
of removal and recycling in response to hypoxic conditions. Further nutrient
load reductions are expected to contribute to the recovery of the eutrophic
Stockholm archipelago from hypoxia. Based on the dominant pathways of P and
N removal identified in this study, it is expected that the sediments will
continue to remove part of the P and N loads.</p>
  </abstract>
    </article-meta>
  </front>
<body>
      

<sec id="Ch1.S1" sec-type="intro">
  <label>1</label><title>Introduction</title>
      <p id="d1e358">Anthropogenic activities are altering coastal marine ecosystems worldwide
(Jackson et al., 2001; Halpern et al., 2008; Diaz and Rosenberg, 2008).
Excessive inputs of the nutrients phosphorus (P) and nitrogen (N), primarily
derived from<?pagebreak page2746?> agricultural activities and wastewater, have led to widespread
eutrophication, particularly in coastal areas (e.g., Nixon et al., 1996; Smith,
2003; Rabalais et al., 2009). Besides increased marine primary productivity,
often in the form of harmful algal blooms (Anderson et al., 2003),
eutrophication results in depletion of bottom water oxygen (<inline-formula><mml:math id="M15" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>), as a
result of increased <inline-formula><mml:math id="M16" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> consumption upon degradation of organic material
(Diaz and Rosenberg, 2008; Rabalais et al., 2010).</p>
      <p id="d1e383">Restoration of coastal ecosystems requires a reduction in eutrophication
(e.g., Boesch, 2002). However, simply decreasing nutrient loading often does
not render the desired effect because of nonlinearities in the response of
coastal ecosystems to changes in nutrient loading (Duarte et al., 2009; Kemp
et al., 2009; Carstensen et al., 2011). Much of this behavior is due to
recycling of nutrients from the seafloor and the <inline-formula><mml:math id="M17" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> demand created by
the historical deposition of organic-rich sediments (“legacy of hypoxia”;
Conley et al., 2002; Turner et al., 2008; Hermans et al., 2019a). In
addition, cyanobacteria, which are frequently present in eutrophic systems,
can biologically fix atmospheric N (<inline-formula><mml:math id="M18" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>), thereby sustaining
eutrophication (e.g., Paerl and Otten, 2013).</p>
      <p id="d1e408">Coastal systems also act as temporary and permanent sinks for nutrients and
as filters for adjacent marine environments (e.g., Cloern, 2001; McGlathery
et al., 2007; Bouwman et al., 2013). In brief, coastal environments can lead
to the following: (1) transformation of nutrients, changing their chemical form, e.g., from
dissolved to particulate and from inorganic to organic; (2) the retention of
nutrients, i.e., delaying the nutrient flow from terrestrial to marine
environments by incorporating nutrients into biomass or abiotic particles; and
(3) the removal of nutrients, i.e., the permanent direction of nutrients out of
the ecosystem (Asmala et al., 2017). The filtering capacity of coastal
systems depends on a variety of biological, physical and chemical
parameters, such as the concentrations of nutrients and dissolved <inline-formula><mml:math id="M19" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
(McGlathery et al., 2007), the presence and type of flora and fauna (Norkko
et al., 2012; Krause-Jensen and Duarte, 2016), the type of coastal system
and underlying sediment (Asmala et al., 2017), wind, tides, and the water
residence time (Nixon et al., 1996; Josefson and Rasmussen, 2000). This can
lead to a wide variety of removal rates for P and N in different types of
coastal environments (Asmala et al., 2017, 2019).</p>
      <p id="d1e422">Most removal of P in coastal systems takes place through burial in
fine-grained sediments. The main P burial phases are as follows: (1) P associated with
organic matter, (2) P bound to iron (Fe) (oxyhydr)oxides (henceforth termed
Fe oxides) and (3) P in authigenic carbonate fluorapatite (Ruttenberg and
Berner, 1993; Slomp et al., 1996). Recent work has shown that P may also be
sequestered in the form of vivianite-type Fe(II)-phosphate minerals,
particularly in low-salinity environments with high inputs of Fe oxides
(e.g., Egger et al., 2015). Burial of P is redox sensitive, with retention of
P bound to Fe oxides and in organic matter decreasing upon increased hypoxia
and anoxia (e.g., Van Cappellen and Ingall, 1994). However, a more limited
exposure to <inline-formula><mml:math id="M20" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> also enhances the preservation of organic matter and
may allow organic P to become the dominant form of P in the sediment
(Lukkari et al., 2009; Mort et al., 2010; Slomp, 2011).</p>
      <p id="d1e437">Fixed N can be removed via multiple pathways: (1) denitrification, (2) anaerobic ammonium (<inline-formula><mml:math id="M21" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>) oxidation (anammox) and (3) burial in
sediments. Burial of N generally only represents a small fraction of the
total N removed (e.g., Gustafsson et al., 2012; Almroth-Rosell et al., 2016).
In coastal systems, benthic denitrification is generally the dominant
pathway for N removal (e.g., Seitzinger, 1990; Dalsgaard et al., 2005).
However, dissimilatory nitrate (<inline-formula><mml:math id="M22" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>) reduction to ammonium
(DNRA) also competes for <inline-formula><mml:math id="M23" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> in sediments and reduces
<inline-formula><mml:math id="M24" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> to <inline-formula><mml:math id="M25" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>, thereby potentially contributing to
internal N recycling (Thamdrup, 2012; Giblin et al., 2013). Field,
laboratory and modeling studies have indicated that DNRA may dominate over
N removal when <inline-formula><mml:math id="M26" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> is limited (e.g., Algar and Vallino, 2014;
Kraft et al., 2014; Kessler et al., 2018), which frequently occurs during
bottom water hypoxia (e.g., Christensen et al., 2000; Nizzoli et al., 2010;
Jäntti and Hietanen, 2012). Thus, the partitioning between N removal (as
<inline-formula><mml:math id="M27" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>) from the ecosystem and transformation of organic N to
<inline-formula><mml:math id="M28" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>, which can be retained in the ecosystem, may be strongly
influenced by eutrophic conditions.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F1" specific-use="star"><?xmltex \currentcnt{1}?><label>Figure 1</label><caption><p id="d1e545">The Baltic Sea (Ning et al., 2016), with the study area
in the Stockholm archipelago indicated by the red box <bold>(a)</bold>. Detailed map of
the southwestern part of the inner and intermediate Stockholm archipelago
(see Almroth-Rosell et al., 2016). Red stars indicate the locations of the
study sites: Strömmen, Baggensfjärden, Erstaviken and
Ingaröfjärden. Yellow dots indicate the locations of the water
quality monitoring stations (SMHI, 2019) most proximate to the sites in this
study <bold>(b)</bold>.</p></caption>
        <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020-f01.png"/>

      </fig>

      <p id="d1e560">Predictions of the response of coastal areas to decreased nutrient inputs
and/or natural or artificial reoxygenation require insight into the processes
responsible for P and N cycling and whether P and N are transformed,
retained or removed. This is of particular relevance to the coastal zone of
the Baltic Sea because of its highly eutrophic and frequently low-<inline-formula><mml:math id="M29" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
state (Conley et al., 2011). Active nutrient reductions from the 1980s
onward (Gustafsson et al., 2012) are now leading to the first signs of
recovery in the region (Andersen et al., 2017), although not yet in the
Baltic Proper (e.g., Hansson et al., 2019). A good example of a recovering
coastal system within the Baltic Sea is the Stockholm archipelago (Karlsson
et al., 2010), where, based on modeling, recovery from hypoxia was suggested
to be potentially associated with the buildup of a pool of Fe-oxide-bound P
in surface sediments driven by increased macrofaunal activity (Norkko et
al., 2012). However, this mechanism would not lead to increased permanent P
burial and hence, by itself, would not lead to long-term recovery of the system
(<inline-formula><mml:math id="M30" display="inline"><mml:mrow><mml:mo>&gt;</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula>–10 years). Based on coupled physical and biogeochemical
models it was recently suggested that the Stockholm archipelago was very
efficient in removing P and N for the period 1990–2012, accounting for a loss
of 65 % of the land-derived P input and 75 % of the land-derived and
atmospheric N input (Almroth-Rosell et al., 2016). The area-specific P and N
retention was highest in the inner part of the Stockholm archipelago. Based
on the high <inline-formula><mml:math id="M31" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations in the bottom water, and high
organic carbon contents in the sediment in the archipelago, benthic
denitrification is expected to dominate N removal (Almroth-Rosell et al.,
2016; Asmala et al., 2017). Recent mass balance modeling for the<?pagebreak page2747?> inner
archipelago suggests that sediments are a P sink in winter and a source in
summer and autumn, with low annual net retention in the sediments (Walve et
al., 2018). These apparently conflicting results between different modeling
approaches emphasize the need to better understand and quantify P removal,
i.e., permanent burial of P in the sediment.</p>
      <p id="d1e597">The objectives of this study are to identify and quantify the main P burial
phases and the processes controlling removal of N in sediments of the
Stockholm archipelago. We present geochemical depth profiles for a range of
sediment components (P, Fe, organic carbon) and rate measurements of benthic
N cycling processes for four sites along a gradient from the inner
archipelago towards the open Baltic Sea. These sites capture a range of
bottom water <inline-formula><mml:math id="M32" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> concentrations from seasonally hypoxic and occasionally
euxinic to oxic. Our results highlight the key processes in sediments in
eutrophic coastal systems that lead to removal of P and N and that may
prevent their further transport to the marine environment.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F2" specific-use="star"><?xmltex \currentcnt{2}?><label>Figure 2</label><caption><p id="d1e613">Ranges in bottom water oxygen and sulfide <bold>(a)</bold>,
temperature <bold>(b)</bold> and salinity <bold>(c)</bold> over the last 20 years (1998–2017) at water
quality monitoring stations (SMHI, 2019; Fig. 1) most proximate to the
study sites. The solid line between the boxes is the median, and the
boxes represent the second and third quartiles. The error bars indicate the
minimum and maximum value recorded for the displayed period. The dashed red
line (located at 1.4 mL L<inline-formula><mml:math id="M33" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>; Fig. 2a) indicates the hypoxic boundary.</p></caption>
        <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020-f02.png"/>

      </fig>

</sec>
<sec id="Ch1.S2">
  <label>2</label><title>Materials and methods</title>
<sec id="Ch1.S2.SS1">
  <label>2.1</label><title>Study area</title>
      <p id="d1e658">The Stockholm archipelago covers <inline-formula><mml:math id="M34" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">5000</mml:mn></mml:mrow></mml:math></inline-formula> km<inline-formula><mml:math id="M35" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula>; is
formed by (post)glacial processes; and consists of approximately 30 000
mostly rocky islands that are surrounded by a network of basins and straits
of different shapes, sizes and depths (Hill and Wallström, 2008). Based
on the connections and rates of water exchange between the different basins
and the open Baltic Sea, the Stockholm archipelago can be divided into an
inner, intermediate and outer archipelago (Almroth-Rosell et al., 2016). The
Norrström river connects the Stockholm archipelago to its main
freshwater source, Lake Mälaren, which, on average, discharges about 160 m<inline-formula><mml:math id="M36" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msup></mml:math></inline-formula> s<inline-formula><mml:math id="M37" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> of freshwater into the most western part of the archipelago
in central Stockholm (Lindh, 2013). As a consequence, surface waters in this
part of the archipelago are nearly freshwater, whereas those in the outer
archipelago have an average salinity of <inline-formula><mml:math id="M38" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">7</mml:mn></mml:mrow></mml:math></inline-formula> because of input
of brackish water from the open Baltic Sea (Engqvist and Andrejev, 2003;
Hill and Wallström, 2008). Particularly in the inshore parts of the
archipelago, a (weak) halocline develops due to the differences in salinity
between the (nearly) fresh surface water and the underlying more saline
water. In the summer, water column stratification is more pronounced and
widespread due to the development of a thermocline. However, in the more
open parts of the archipelago, wind-driven mixing may interrupt
stratification (Gidhagen, 1987).</p>
      <p id="d1e711">The average annual nutrient input into the Stockholm archipelago was 217 t P
and 8288 t N for the period 1990–2012, of which approximately 174 t P and
5846 t N entered the inner archipelago via the Norrström river
(Almroth-Rosell et al., 2016). This high nutrient load mostly originates
from wastewater treatment facilities of Stockholm (Johansson and
Wallström, 2001) and, in combination with (seasonal) stratification of
the water column, has led to widespread eutrophication in the past. As a result,
large parts of the Stockholm archipelago are or have been (seasonally)
hypoxic to euxinic over the past century (Jonsson et al., 1990; Conley et
al., 2011). Studies have shown decreases in dissolved inorganic P and total
P due to reductions in nutrient inputs from sewage treatment plants (Walve
et al., 2018), and indications of environmental recovery have been<?pagebreak page2748?> deduced
from visual observations of sediment cores (Karlsson et al., 2010).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F3" specific-use="star"><?xmltex \currentcnt{3}?><label>Figure 3</label><caption><p id="d1e716">Bottom water dissolved oxygen plotted against total P,
with the black line depicting the inverse linear relationship between the
two <bold>(a)</bold> and total N <inline-formula><mml:math id="M39" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> total P <bold>(b)</bold> for the water quality monitoring stations
(SMHI, 2019; Fig. 1) most proximate to the study sites. Bottom water
dissolved oxygen and bottom water P <bold>(c)</bold> and N <bold>(d)</bold> for Baggensfjärden
from 2013 until 2017. The dashed red line (located at 1.4 mL L<inline-formula><mml:math id="M40" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)
indicates the hypoxic boundary in all panels.</p></caption>
          <?xmltex \igopts{width=398.338583pt}?><graphic xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020-f03.png"/>

        </fig>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T1" specific-use="star"><?xmltex \currentcnt{1}?><label>Table 1</label><caption><p id="d1e761">General study site characteristics.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="left"/>
     <oasis:colspec colnum="4" colname="col4" align="left"/>
     <oasis:colspec colnum="5" colname="col5" align="left"/>
     <oasis:thead>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">Strömmen</oasis:entry>
         <oasis:entry colname="col3">Baggensfjärden</oasis:entry>
         <oasis:entry colname="col4">Erstaviken</oasis:entry>
         <oasis:entry colname="col5">Ingaröfjärden</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">Coordinates</oasis:entry>
         <oasis:entry colname="col2">59<inline-formula><mml:math id="M43" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>19<inline-formula><mml:math id="M44" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula>09<inline-formula><mml:math id="M45" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>′</mml:mo><mml:mo>′</mml:mo></mml:mrow></mml:msup></mml:math></inline-formula> N</oasis:entry>
         <oasis:entry colname="col3">59<inline-formula><mml:math id="M46" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>18<inline-formula><mml:math id="M47" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula>36<inline-formula><mml:math id="M48" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>′</mml:mo><mml:mo>′</mml:mo></mml:mrow></mml:msup></mml:math></inline-formula> N</oasis:entry>
         <oasis:entry colname="col4">59<inline-formula><mml:math id="M49" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>13<inline-formula><mml:math id="M50" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula>06<inline-formula><mml:math id="M51" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>′</mml:mo><mml:mo>′</mml:mo></mml:mrow></mml:msup></mml:math></inline-formula> N</oasis:entry>
         <oasis:entry colname="col5">59<inline-formula><mml:math id="M52" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>13<inline-formula><mml:math id="M53" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula>20<inline-formula><mml:math id="M54" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>′</mml:mo><mml:mo>′</mml:mo></mml:mrow></mml:msup></mml:math></inline-formula> N</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">(DD<inline-formula><mml:math id="M55" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>MM<inline-formula><mml:math id="M56" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula>SS<inline-formula><mml:math id="M57" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>′</mml:mo><mml:mo>′</mml:mo></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">18<inline-formula><mml:math id="M58" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>07<inline-formula><mml:math id="M59" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula>09<inline-formula><mml:math id="M60" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>′</mml:mo><mml:mo>′</mml:mo></mml:mrow></mml:msup></mml:math></inline-formula> E</oasis:entry>
         <oasis:entry colname="col3">18<inline-formula><mml:math id="M61" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>19<inline-formula><mml:math id="M62" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula>24<inline-formula><mml:math id="M63" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>′</mml:mo><mml:mo>′</mml:mo></mml:mrow></mml:msup></mml:math></inline-formula> E</oasis:entry>
         <oasis:entry colname="col4">18<inline-formula><mml:math id="M64" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>23<inline-formula><mml:math id="M65" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula>42<inline-formula><mml:math id="M66" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>′</mml:mo><mml:mo>′</mml:mo></mml:mrow></mml:msup></mml:math></inline-formula> E</oasis:entry>
         <oasis:entry colname="col5">18<inline-formula><mml:math id="M67" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>27<inline-formula><mml:math id="M68" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula>01<inline-formula><mml:math id="M69" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>′</mml:mo><mml:mo>′</mml:mo></mml:mrow></mml:msup></mml:math></inline-formula> E</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Water depth (m)</oasis:entry>
         <oasis:entry colname="col2">30</oasis:entry>
         <oasis:entry colname="col3">40</oasis:entry>
         <oasis:entry colname="col4">68</oasis:entry>
         <oasis:entry colname="col5">37</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Bottom water</oasis:entry>
         <oasis:entry colname="col2">Seasonally</oasis:entry>
         <oasis:entry colname="col3">Seasonally hypoxic</oasis:entry>
         <oasis:entry colname="col4">Sporadically</oasis:entry>
         <oasis:entry colname="col5">Oxic</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">redox conditions<inline-formula><mml:math id="M70" display="inline"><mml:msup><mml:mi/><mml:mtext>a</mml:mtext></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col2">hypoxic</oasis:entry>
         <oasis:entry colname="col3">Sometimes euxinic</oasis:entry>
         <oasis:entry colname="col4">hypoxic</oasis:entry>
         <oasis:entry colname="col5"/>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Location in the</oasis:entry>
         <oasis:entry colname="col2">Inner</oasis:entry>
         <oasis:entry colname="col3">Intermediate</oasis:entry>
         <oasis:entry colname="col4">Intermediate</oasis:entry>
         <oasis:entry colname="col5">Intermediate</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">archipelago<inline-formula><mml:math id="M71" display="inline"><mml:msup><mml:mi/><mml:mtext>b</mml:mtext></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col2"/>
         <oasis:entry colname="col3"/>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5"/>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table><table-wrap-foot><p id="d1e764"><inline-formula><mml:math id="M41" display="inline"><mml:msup><mml:mi/><mml:mtext>a</mml:mtext></mml:msup></mml:math></inline-formula> Bottom water redox conditions based on monitoring data (SMHI, 2019).
<inline-formula><mml:math id="M42" display="inline"><mml:msup><mml:mi/><mml:mtext>b</mml:mtext></mml:msup></mml:math></inline-formula> Following the classification by Almroth-Rosell et al. (2016).</p></table-wrap-foot></table-wrap>

<sec id="Ch1.S2.SS1.SSS1">
  <label>2.1.1</label><title>Study sites</title>
      <p id="d1e1238">For this study, sediments and bottom water from four different locations in
the inner and intermediate part of the Stockholm archipelago (see Almroth-Rosell et al., 2016; Fig. 1) were collected. The study sites are
located in the basins Strömmen (central Stockholm), Baggensfjärden,
Erstaviken and Ingaröfjärden and are characterized by a range of
water depths and bottom water redox conditions (Figs. 2, S1 (in the Supplement); Table 1). Strömmen is located most proximately to the outlets of the sewage
treatment plants close to the center of Stockholm, which presumably
contributes to the relatively high total P concentrations in the bottom
water (Fig. 3a). Baggensfjärden is the most restricted basin in this
study (i.e., landlocked with narrow and relatively shallow connections to
adjacent basins), leading to reduced water column mixing, culminating in low-<inline-formula><mml:math id="M72" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> bottom waters annually in summer. Erstaviken and
Ingaröfjärden have a more open connection with the Baltic Proper,
leading to better water column mixing. Ingaröfjärden is the least
restricted basin in this study and subsequently the most consistently
well-oxygenated basin throughout the year. Extensive water quality
monitoring of the study area (obtained from the SHARK database at
<uri>http://www.smhi.se/klimatdata/oceanografi/havsmiljodata/marina-miljoovervakningsdata</uri>, last access: 10 April 2019;
Swedish Meteorological and Hydrological Institute – SMHI, 2019) shows a
clear inverse correlation between bottom water <inline-formula><mml:math id="M73" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> concentrations and P
and a positive correlation between bottom water <inline-formula><mml:math id="M74" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M75" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">N</mml:mi><mml:mo>/</mml:mo><mml:mi mathvariant="normal">P</mml:mi></mml:mrow></mml:math></inline-formula> ratios
(Fig. 3a, b). Bottom water <inline-formula><mml:math id="M76" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and nutrient concentrations follow a
distinct annual pattern, with maximum <inline-formula><mml:math id="M77" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and minimum nutrient
concentrations in winter. After winter, <inline-formula><mml:math id="M78" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> gradually drops and nutrient
concentrations gradually increase, reaching minimum and maximum values at the end of summer and in autumn, respectively, followed by a reset of the
system (Fig. 3c, d). The difference in amplitude of the changes in
<inline-formula><mml:math id="M79" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and total P concentrations between sites is likely the combined effect
of differences in water column mixing and in recycling of P from the
sediment associated with changes in bottom water <inline-formula><mml:math id="M80" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T2" specific-use="star"><?xmltex \currentcnt{2}?><label>Table 2</label><caption><p id="d1e1348">Key site characteristics at time of sampling (March 2017).</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="right"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:thead>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">Strömmen</oasis:entry>
         <oasis:entry colname="col3">Baggensfjärden</oasis:entry>
         <oasis:entry colname="col4">Erstaviken</oasis:entry>
         <oasis:entry colname="col5">Ingaröfjärden</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">Bottom water <inline-formula><mml:math id="M82" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>  (mL L<inline-formula><mml:math id="M83" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">7.6</oasis:entry>
         <oasis:entry colname="col3">7</oasis:entry>
         <oasis:entry colname="col4">6.7</oasis:entry>
         <oasis:entry colname="col5">8.5</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"><inline-formula><mml:math id="M84" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> penetration depth<inline-formula><mml:math id="M85" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula> (mm)</oasis:entry>
         <oasis:entry colname="col2">2.1</oasis:entry>
         <oasis:entry colname="col3">1.9</oasis:entry>
         <oasis:entry colname="col4">3.6</oasis:entry>
         <oasis:entry colname="col5">18</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Diffusive uptake of <inline-formula><mml:math id="M86" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>  (mmol m<inline-formula><mml:math id="M87" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M88" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">13.4</oasis:entry>
         <oasis:entry colname="col3">13.8</oasis:entry>
         <oasis:entry colname="col4">7.3</oasis:entry>
         <oasis:entry colname="col5">3.1</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Bottom water salinity</oasis:entry>
         <oasis:entry colname="col2">5.2</oasis:entry>
         <oasis:entry colname="col3">6.2</oasis:entry>
         <oasis:entry colname="col4">6.4</oasis:entry>
         <oasis:entry colname="col5">6.2</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Bottom water temperature (<inline-formula><mml:math id="M89" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C)</oasis:entry>
         <oasis:entry colname="col2">1.5</oasis:entry>
         <oasis:entry colname="col3">2.4</oasis:entry>
         <oasis:entry colname="col4">2.2</oasis:entry>
         <oasis:entry colname="col5">1.3</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Sediment type</oasis:entry>
         <oasis:entry colname="col2">Mud</oasis:entry>
         <oasis:entry colname="col3">Mud</oasis:entry>
         <oasis:entry colname="col4">Mud</oasis:entry>
         <oasis:entry colname="col5">Bioturbated mud</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Suboxic zone<inline-formula><mml:math id="M90" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula>  (mm)</oasis:entry>
         <oasis:entry colname="col2">4</oasis:entry>
         <oasis:entry colname="col3">–</oasis:entry>
         <oasis:entry colname="col4">15</oasis:entry>
         <oasis:entry colname="col5">25</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Macrofauna</oasis:entry>
         <oasis:entry colname="col2">None</oasis:entry>
         <oasis:entry colname="col3">None</oasis:entry>
         <oasis:entry colname="col4">None</oasis:entry>
         <oasis:entry colname="col5"><italic>Marenzelleria</italic></oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table><table-wrap-foot><p id="d1e1351"><inline-formula><mml:math id="M81" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula> Derived from high-resolution microelectrode profiling (Fig. S3).</p></table-wrap-foot></table-wrap>

</sec>
</sec>
<sec id="Ch1.S2.SS2">
  <label>2.2</label><title>Sampling</title>
      <p id="d1e1651">Sediment cores were collected with R/V <italic>Electra</italic> in March 2017. Prior to coring, a CTD
(Sea-Bird 911plus), equipped with a circular rosette of Niskin bottles (<inline-formula><mml:math id="M91" display="inline"><mml:mrow><mml:mn mathvariant="normal">12</mml:mn><mml:mo>×</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula> L), was deployed to determine key water column characteristics at the time
of sampling, such as dissolved <inline-formula><mml:math id="M92" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> concentrations, temperature and
salinity (Table 2), and to collect bottom water. At each site,
<inline-formula><mml:math id="M93" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:math></inline-formula> Gemini cores (two cores per cast; Ø <inline-formula><mml:math id="M94" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 8 cm; between 40
and 60 cm of sediment and <inline-formula><mml:math id="M95" display="inline"><mml:mrow><mml:mo>&gt;</mml:mo><mml:mn mathvariant="normal">10</mml:mn></mml:mrow></mml:math></inline-formula> cm of overlying water) were
collected for analysis of methane (<inline-formula><mml:math id="M96" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CH</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>), high-resolution
microelectrode depth profiling, (anoxic) sediment and pore water
collection, <inline-formula><mml:math id="M97" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> slurry<?pagebreak page2749?> and incubation experiments, and sieving for
macrofauna (Table 2).</p>
      <p id="d1e1730">Samples for <inline-formula><mml:math id="M98" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CH</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> analysis were taken directly after coring via
predrilled holes (taped prior to coring) in the Gemini core liner with a
depth spacing of 2.5 cm as described in Lenstra et al. (2018).</p>
      <p id="d1e1744">High-resolution (50 <inline-formula><mml:math id="M99" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>m) depth profiles of dissolved <inline-formula><mml:math id="M100" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> were
obtained from one core per site, using microelectrodes (Unisense A/S,
Denmark), as described in Hermans et al. (2019b). The diffusive uptake of
<inline-formula><mml:math id="M101" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> was determined by numerical modeling with PROFILE (Berg et al.,
1998) using the high-resolution <inline-formula><mml:math id="M102" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> measurements.</p>
      <p id="d1e1788">For anoxic sediment and pore water collection, one core was sliced in a
<inline-formula><mml:math id="M103" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>-filled glove bag. Two bottom water samples were taken from the
overlying water after which the core<?pagebreak page2750?> was sliced at a resolution of 0.5 cm (0
to 10 cm), 2 cm (10 to 20 cm), 4 cm (20 to 40 cm) and 5 cm until reaching the bottom
of the core. The sediment was centrifuged (in 50 mL tubes) at 3500 rpm for
20 min to extract pore water. The sediment remaining after
centrifugation was stored in <inline-formula><mml:math id="M104" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>-flushed gas-tight aluminum bags at <inline-formula><mml:math id="M105" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M106" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C until further analysis. Bottom and pore water samples were
filtered over a 0.45 <inline-formula><mml:math id="M107" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>m filter in a <inline-formula><mml:math id="M108" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>-filled glove bag.
Subsamples were taken for (1) <inline-formula><mml:math id="M109" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> analysis (0.5 mL was added to 2 mL of 2 % zinc (Zn) acetate); (2) analysis of dissolved Fe and P (1 mL was
acidified with 10 <inline-formula><mml:math id="M110" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>L of 30 % Suprapur HCl); and (3) analysis of sulfate
(<inline-formula><mml:math id="M111" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">SO</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula>; 0.5 mL), and stored at 4 <inline-formula><mml:math id="M112" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C. Subsamples for
N oxides (<inline-formula><mml:math id="M113" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">NO</mml:mi><mml:mi>x</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M114" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> <inline-formula><mml:math id="M115" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M116" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> nitrite (<inline-formula><mml:math id="M117" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>); 1 mL)
and <inline-formula><mml:math id="M118" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> (1 mL) were stored at <inline-formula><mml:math id="M119" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M120" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C.</p>
      <p id="d1e1984">At Strömmen, one core was sliced at the same resolution as described
above to determine porosity and <inline-formula><mml:math id="M121" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb. Data for porosity and <inline-formula><mml:math id="M122" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb
for the other three study sites were taken from van Helmond et al. (2020).</p>
</sec>
<sec id="Ch1.S2.SS3">
  <label>2.3</label><title>Bottom and pore water analysis</title>
      <p id="d1e2013">Concentrations of <inline-formula><mml:math id="M123" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CH</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> were determined with a Thermo Finnigan trace gas
chromatograph equipped with a flame ionization detector as described by
Lenstra et al. (2018). The average analytical uncertainty based on
duplicates and triplicates was <inline-formula><mml:math id="M124" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula> %. Pore water <inline-formula><mml:math id="M125" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> was
determined spectrophotometrically using phenylenediamine and ferric chloride
(Cline, 1969). Upward fluxes of <inline-formula><mml:math id="M126" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> in the pore water towards the
sediment surface were calculated as detailed in Hermans et al. (2019a).
Dissolved Fe and P (assumed to be present as <inline-formula><mml:math id="M127" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M128" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">HPO</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula>)
were measured by inductively coupled plasma optimal emission spectroscopy
(ICP-OES; SPECTRO ARCOS). Nitrogen oxides (Schnetger and
Lehners, 2014) and <inline-formula><mml:math id="M129" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> (Grasshoff et al., 1999) were determined
colorimetrically. Concentrations of <inline-formula><mml:math id="M130" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> were calculated from the
difference between <inline-formula><mml:math id="M131" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">NO</mml:mi><mml:mi>x</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M132" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations. Ammonium was
determined colorimetrically using indophenol blue (Solorzano, 1969).
Concentrations of <inline-formula><mml:math id="M133" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">SO</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula> were determined by ion chromatography. The
average analytical uncertainty based on duplicates was <inline-formula><mml:math id="M134" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> %.</p><?xmltex \hack{\newpage}?>
</sec>
<sec id="Ch1.S2.SS4">
  <label>2.4</label><title>Solid-phase analysis</title>
      <p id="d1e2180">All sediment samples were freeze-dried, powdered and homogenized using an
agate mortar and pestle in an argon-filled glove box. Prior to analysis,
samples were split into oxic and anoxic fractions (i.e., samples stored open
to air and in a <inline-formula><mml:math id="M135" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> or argon atmosphere).</p>
<sec id="Ch1.S2.SS4.SSS1">
  <label>2.4.1</label><title>Total elemental composition</title>
      <p id="d1e2201">Approximately 125 mg of the oxic sediment split was digested in a mixture of
strong acids as described by van Helmond et al. (2018). The residues were
dissolved in 1 M <inline-formula><mml:math id="M136" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">HNO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and analyzed for their elemental composition by
ICP-OES. Average analytical uncertainty based on duplicates and triplicates
was <inline-formula><mml:math id="M137" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula> % for calcium (Ca) and <inline-formula><mml:math id="M138" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:math></inline-formula> % for P. The
calcium carbonate content (<inline-formula><mml:math id="M139" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CaCO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> wt %) was calculated based on the
Ca content measured by ICP-OES, assuming that all Ca was in the form of
<inline-formula><mml:math id="M140" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CaCO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>.</p>
</sec>
<sec id="Ch1.S2.SS4.SSS2">
  <label>2.4.2</label><title>Organic carbon and nitrogen</title>
      <p id="d1e2265">Between 200 and 300 mg of the oxic sediment split was decalcified using 1 M
HCl as described by van Helmond et al. (2018), after which dried and
repowdered residues were analyzed for their carbon and nitrogen content
with a Fisons Instruments NA 1500 NCS analyzer. Average analytical
uncertainty based on duplicates was <inline-formula><mml:math id="M141" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:math></inline-formula> % for carbon and
<inline-formula><mml:math id="M142" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:math></inline-formula> % for nitrogen. Organic carbon (C<inline-formula><mml:math id="M143" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula>) and organic nitrogen
(N<inline-formula><mml:math id="M144" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula>) contents were calculated after a correction for the weight loss
upon decalcification and the salt content of the freeze-dried sediment. For
Baggensfjärden, Erstaviken and Ingaröfjarden, C and N contents were
taken from van Helmond et al. (2020).</p>
</sec>
<sec id="Ch1.S2.SS4.SSS3">
  <label>2.4.3</label><title>Sequential extraction of iron</title>
      <?pagebreak page2751?><p id="d1e2314">Between 50 and 100 mg of the anoxic sediment split was subjected to a
sequential extraction procedure based on a combination of the procedures by
Poulton and Canfield (2005) and Claff et al. (2010) to determine the
different phases of sedimentary Fe (Kraal et al., 2017). Briefly, under
<inline-formula><mml:math id="M145" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>-free conditions (1) 10 mL of 1 M HCl, pH 0, was added to extract (4 h)
Fe(II) and Fe(III) minerals such as easily reducible Fe oxides (e.g., ferrihydrite and lepidocrocite), Fe carbonates and Fe monosulfides; (2) 10 mL of 0.35 M acetic acid, 0.2 M <inline-formula><mml:math id="M146" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Na</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> citrate and 50 g L<inline-formula><mml:math id="M147" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> Na dithionite, pH 4.8, was added to extract (4 h) crystalline Fe-oxide minerals such as
goethite and hematite; (3) 10 mL of 0.17 M ammonium oxalate and 0.2 M oxalic acid,
pH 3.2, was added to extract (6 h) recalcitrant oxide minerals such as
magnetite; and (4) 10 mL of 65 % <inline-formula><mml:math id="M148" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">HNO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> was added to extract (2 h) pyrite
(<inline-formula><mml:math id="M149" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">FeS</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>). For all extracts, Fe concentrations were determined
colorimetrically with the phenanthroline method, adding
hydroxylamine hydrochloride as a reducing agent to convert all <inline-formula><mml:math id="M150" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mn mathvariant="normal">3</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula>
into <inline-formula><mml:math id="M151" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> (APHA, 2005). For the first step the absorbance before and
after addition of the reducing agent was measured, in order to separate
<inline-formula><mml:math id="M152" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M153" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mn mathvariant="normal">3</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula>. The Fe concentrations of the <inline-formula><mml:math id="M154" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mn mathvariant="normal">3</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> fraction of
the first step and the second step were summed and are henceforth referred
to as Fe oxides. Average analytical uncertainty based on duplicates and
triplicates was <inline-formula><mml:math id="M155" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">10</mml:mn></mml:mrow></mml:math></inline-formula> % for all fractions.</p>
</sec>
<sec id="Ch1.S2.SS4.SSS4">
  <label>2.4.4</label><title>Sequential extraction of sulfur</title>
      <p id="d1e2463">Approximately 300 mg of the anoxic sediment split was subjected to a
sequential extraction procedure (Burton et al., 2008) to determine
sedimentary sulfur phases. Briefly, under <inline-formula><mml:math id="M156" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>-free conditions (1) 10 mL
of 6 M HCl and 2 mL of 0.1 M ascorbic acid were added to dissolve acid-volatile
sulfur (AVS, assumed to represent Fe monosulfides – FeS), and the released
<inline-formula><mml:math id="M157" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> was trapped in a tube filled with 7 mL of alkaline zinc acetate
solution (24 h) and (2) 10 mL of acidic chromium(II) chloride was added to dissolve
chromium-reducible sulfur (CRS, assumed to represent <inline-formula><mml:math id="M158" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">FeS</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>), and the
released <inline-formula><mml:math id="M159" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> was trapped in a tube filled with 7 mL of alkaline zinc
acetate solution (48 h). For both fractions, the amount of sulfur in the
zinc sulfide precipitates was determined by iodometric titration (APHA,
2005). Average analytical uncertainty, based on duplicates, was <inline-formula><mml:math id="M160" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">7</mml:mn></mml:mrow></mml:math></inline-formula> % for both AVS and CRS.</p>
</sec>
<sec id="Ch1.S2.SS4.SSS5">
  <label>2.4.5</label><title>Sequential extraction of phosphorus</title>
      <p id="d1e2532">Approximately 100 mg of the anoxic sediment split was subjected to a
sequential extraction procedure following the procedure of Ruttenberg
(1992), modified by Slomp et al. (1996), but including the exchangeable P
step. Briefly, under <inline-formula><mml:math id="M161" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>-free conditions (1) 10 mL of 1 M <inline-formula><mml:math id="M162" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">MgCl</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, pH 8,
was added to extract (0.5 h) exchangeable P (Exch. P); (2) 10 mL of 0.3 M <inline-formula><mml:math id="M163" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Na</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> citrate, 1 M <inline-formula><mml:math id="M164" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">NaHCO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and 25 g L<inline-formula><mml:math id="M165" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> Na dithionite (CDB), pH 7.6,
was added after which 10 mL of 1 M <inline-formula><mml:math id="M166" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">MgCl</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, pH 8, was added, together
extracting (8 and 0.5 h, respectively) the P-bound-to-Fe fraction, including
Fe-oxide-bound P and vivianite (Fe-bound P; Nembrini et al., 1983; Dijkstra et al., 2014); (3) 10 mL of 1 M Na acetate buffered to pH 4 with acetic acid was
added after which 10 mL of 1 M <inline-formula><mml:math id="M167" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">MgCl</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, pH 8, was added, together extracting
(6 and 0.5 h, respectively) authigenic Ca-P, including carbonate
fluorapatite, hydroxyapatite and carbonate-bound P (Auth. P); (4) 10 mL of 1 M HCl, pH 0, was added to extract (24 h) P in detrital minerals (Detr. P); and (5) ashing of the residue at 550 <inline-formula><mml:math id="M168" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C (2 h) after which 10 mL of 1 M HCl,
pH 0, was added to extract (24 h) P in organic matter (Org. P). The P content
in the citrate-dithionite-bicarbonate extract was analyzed by ICP-OES. All
other solutions were measured colorimetrically (Strickland and Parsons,
1972). Average analytical uncertainty, based on duplicates, was <inline-formula><mml:math id="M169" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">7</mml:mn></mml:mrow></mml:math></inline-formula> % for all fractions. Total P derived from acid digestion and subsequent
ICP-OES analyses was on average within 5 % of the summed P fractions
derived from the sequential extraction.</p>
</sec>
</sec>
<sec id="Ch1.S2.SS5">
  <label>2.5</label><title>Sediment nitrogen cycling</title>
<sec id="Ch1.S2.SS5.SSS1">
  <label>2.5.1</label><?xmltex \opttitle{Incubations of {$\protect\chem{{}^{{15}}N}$}}?><title>Incubations of <inline-formula><mml:math id="M170" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula></title>
      <p id="d1e2662">Rates of benthic <inline-formula><mml:math id="M171" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>-reducing pathways were determined using the
whole-core isotope pairing technique (IPT) and parallel slurry incubations
(Nielsen, 1992; Risgaard-Petersen et al., 2003). Bottom water from Niskin
bottles collected at each site was used to fill the incubation chamber
(approx. 30 L) and maintained at in situ <inline-formula><mml:math id="M172" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> concentrations using compressed
air and nitrogen gas mixtures. Small core liners (Ø 2.5 cm) were used to
take subcores from the Gemini cores and were immediately transferred to the
incubation tank so that all cores were submerged and stoppers were removed.
Sodium <inline-formula><mml:math id="M173" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula>-nitrate solution (<inline-formula><mml:math id="M174" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Na</mml:mi><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, 98 atom % <inline-formula><mml:math id="M175" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula>,
Sigma Aldrich, final concentration <inline-formula><mml:math id="M176" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">50</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M177" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol L<inline-formula><mml:math id="M178" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)
was added to the water of the incubation tank, and cores were preincubated
in the dark at the in situ temperature for 2 to 5 h. Three replicate cores were
sacrificed by slurrying the entire sediment volume at approximately 0, 2, 5
and 8 h following preincubation. Sediment was allowed to settle for 2 min before samples for gas (12 mL Exetainers, Labco, UK, killed with 250 <inline-formula><mml:math id="M179" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>L zinc chloride solution, 50 % <inline-formula><mml:math id="M180" display="inline"><mml:mrow><mml:mi>w</mml:mi><mml:mo>/</mml:mo><mml:mi>v</mml:mi></mml:mrow></mml:math></inline-formula>) and nutrients (10 mL, killed
with 250 <inline-formula><mml:math id="M181" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>L zinc chloride solution, frozen) were taken.</p>
      <p id="d1e2788">Sediment slurries were carried out in parallel to whole-core incubations.
Briefly, a glass bead (0.5 cm Ø) was added to each 12 mL Exetainer, which
was then filled with filtered (0.2 <inline-formula><mml:math id="M182" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>m) helium-purged bottom water.
Homogenized surface sediment (2 mL, 0–2 cm depth horizon) was added to each
Exetainer, and vials were sealed. Exetainers were incubated on a shaker table
in the dark at the in situ temperature for 8 to 12 h ensuring consumption of
background <inline-formula><mml:math id="M183" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M184" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> before addition of
<inline-formula><mml:math id="M185" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula>-substrates. Exetainers were divided into two treatments, amended
with sodium <inline-formula><mml:math id="M186" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula>-nitrate or with sodium <inline-formula><mml:math id="M187" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">14</mml:mn></mml:msup></mml:math></inline-formula>N-nitrite and
<inline-formula><mml:math id="M188" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula>-ammonium chloride (each 100 <inline-formula><mml:math id="M189" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol L<inline-formula><mml:math id="M190" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> final
concentration). Slurries were sacrificed at approximately 0, 5 and 10 h
after substrate addition by injection of 250 <inline-formula><mml:math id="M191" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>L of zinc chloride
solution through the septum of Exetainers.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T3" specific-use="star"><?xmltex \currentcnt{3}?><label>Table 3</label><caption><p id="d1e2900">Diffusive fluxes of pore water <inline-formula><mml:math id="M192" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula>.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="right"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:thead>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">Strömmen</oasis:entry>
         <oasis:entry colname="col3">Baggensfjärden</oasis:entry>
         <oasis:entry colname="col4">Erstaviken</oasis:entry>
         <oasis:entry colname="col5">Ingaröfjarden</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">Sediment top (cm)</oasis:entry>
         <oasis:entry colname="col2">0.75</oasis:entry>
         <oasis:entry colname="col3">0.75</oasis:entry>
         <oasis:entry colname="col4">1.75</oasis:entry>
         <oasis:entry colname="col5">8.25</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Sediment bottom (cm)</oasis:entry>
         <oasis:entry colname="col2">2.25</oasis:entry>
         <oasis:entry colname="col3">7.25</oasis:entry>
         <oasis:entry colname="col4">8.25</oasis:entry>
         <oasis:entry colname="col5">15</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"><inline-formula><mml:math id="M193" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> top (<inline-formula><mml:math id="M194" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol L<inline-formula><mml:math id="M195" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">2</oasis:entry>
         <oasis:entry colname="col3">3</oasis:entry>
         <oasis:entry colname="col4">7</oasis:entry>
         <oasis:entry colname="col5">36</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"><inline-formula><mml:math id="M196" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> bottom (<inline-formula><mml:math id="M197" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol L<inline-formula><mml:math id="M198" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">385</oasis:entry>
         <oasis:entry colname="col3">899</oasis:entry>
         <oasis:entry colname="col4">1111</oasis:entry>
         <oasis:entry colname="col5">1340</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Diffusive flux (mmol m<inline-formula><mml:math id="M199" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M200" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">7.6</oasis:entry>
         <oasis:entry colname="col3">4.2</oasis:entry>
         <oasis:entry colname="col4">5.2</oasis:entry>
         <oasis:entry colname="col5">6.5</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

<?xmltex \hack{\newpage}?>
</sec>
<?pagebreak page2752?><sec id="Ch1.S2.SS5.SSS2">
  <label>2.5.2</label><title>Analytical methods</title>
      <p id="d1e3143">Analysis of <inline-formula><mml:math id="M201" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula> composition of <inline-formula><mml:math id="M202" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> (and any nitrous oxide,
<inline-formula><mml:math id="M203" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>O) was determined by gas chromatography isotope ratio mass
spectrometry (GC-IRMS). A helium headspace was introduced to filled
Exetainers, and gas samples were manually injected as described in
Dalsgaard et al. (2013). Any <inline-formula><mml:math id="M204" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula>-<inline-formula><mml:math id="M205" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>O was
reduced in a reduction oven and measured as <inline-formula><mml:math id="M206" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula>-<inline-formula><mml:math id="M207" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>. Determination
of <inline-formula><mml:math id="M208" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula> in <inline-formula><mml:math id="M209" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> was carried out by conversion of
<inline-formula><mml:math id="M210" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> to <inline-formula><mml:math id="M211" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> with alkaline hypobromite iodine solution
(Risgaard-Petersen et
al., 1995; Füssel et al., 2012). Ammonium was extracted from sediment in
slurry and whole-core samples by shaking for 1 h with 2 M KCl (<inline-formula><mml:math id="M212" display="inline"><mml:mrow><mml:mn mathvariant="normal">1</mml:mn><mml:mo>:</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula>
sample KCl) before any NH<inline-formula><mml:math id="M213" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mo>+</mml:mo><mml:mspace width="0.125em" linebreak="nobreak"/></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula>analysis. The isotopic composition
of the produced <inline-formula><mml:math id="M214" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> was determined using a GC-IRMS as above. Recovery
efficiency of <inline-formula><mml:math id="M215" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> following the hypobromite conversion was
<inline-formula><mml:math id="M216" display="inline"><mml:mrow><mml:mo>&gt;</mml:mo><mml:mn mathvariant="normal">95</mml:mn></mml:mrow></mml:math></inline-formula> %.</p>
      <p id="d1e3341">Concentrations of <inline-formula><mml:math id="M217" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">NO</mml:mi><mml:mi>x</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> (<inline-formula><mml:math id="M218" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M219" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> <inline-formula><mml:math id="M220" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>) in
incubations were determined colorimetrically as described for pore water.
For determination of total <inline-formula><mml:math id="M221" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>, samples were extracted with KCl
as above and <inline-formula><mml:math id="M222" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations were analyzed colorimetrically
using the salicylate-hypochlorite method (Bower and Holm-Hansen,
1980).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F4" specific-use="star"><?xmltex \currentcnt{4}?><label>Figure 4</label><caption><p id="d1e3417">Pore water depth profiles of <inline-formula><mml:math id="M223" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">SO</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M224" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CH</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>,
<inline-formula><mml:math id="M225" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M226" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M227" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">HPO</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M228" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M229" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> at
the sites in the Stockholm archipelago: Strömmen, Baggensfjärden,
Erstaviken and Ingaröfjärden.</p></caption>
            <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020-f04.png"/>

          </fig>

</sec>
<sec id="Ch1.S2.SS5.SSS3">
  <label>2.5.3</label><title>Data calculations</title>
      <p id="d1e3531">Anammox and DNRA were detectable in slurry incubations, although both
processes only played a minor role in <inline-formula><mml:math id="M230" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> reduction at most
sites. However, they may have interfered to a minor degree with the IPT
calculations. Thus areal rates of benthic N cycling processes were
calculated according to Song et al. (2016) at all sites.
The relative contribution of anammox to <inline-formula><mml:math id="M231" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> production (<italic>ra</italic>) in slurries
was calculated as in Song et al. (2013) using the
average mole fraction of <inline-formula><mml:math id="M232" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> in the total <inline-formula><mml:math id="M233" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>
pool (<inline-formula><mml:math id="M234" display="inline"><mml:mrow><mml:msub><mml:mi>F</mml:mi><mml:mi>A</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) as this was demonstrated to increase linearly over time.</p>
      <p id="d1e3603">Fluxes of <inline-formula><mml:math id="M235" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M236" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> were calculated using gradients
(<inline-formula><mml:math id="M237" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">0</mml:mn></mml:mrow></mml:math></inline-formula>–1 cm and <inline-formula><mml:math id="M238" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">0</mml:mn></mml:mrow></mml:math></inline-formula>–5 cm, respectively) of
sediment pore water depth profiles and Fick's first law of diffusion.
Porosity values were taken from the average porosities of the integrated
depth horizons and diffusion coefficients from Schulz (2006).</p><?xmltex \hack{\newpage}?>
</sec>
</sec>
<sec id="Ch1.S2.SS6">
  <label>2.6</label><title>Sediment accumulation rates</title>
      <p id="d1e3662">Freeze-dried sediment samples for Strömmen were measured for <inline-formula><mml:math id="M239" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb
by direct gamma counting using a high-purity germanium detector (Ortec
GEM-FX8530P4-RB) at Lund University. <inline-formula><mml:math id="M240" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb was measured by its emission
at 46.5 keV. Self-absorption was measured directly, and the detector
efficiency was determined by counting a National Institute of Standards and
Technology sediment standard. Excess <inline-formula><mml:math id="M241" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb was calculated as the
difference between the total measured <inline-formula><mml:math id="M242" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb and the estimate of the
supported <inline-formula><mml:math id="M243" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb activity as given by <inline-formula><mml:math id="M244" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">214</mml:mn></mml:msup></mml:math></inline-formula>Pb (<inline-formula><mml:math id="M245" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb<inline-formula><mml:math id="M246" display="inline"><mml:msub><mml:mi/><mml:mtext>exc</mml:mtext></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M247" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> <inline-formula><mml:math id="M248" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb<inline-formula><mml:math id="M249" display="inline"><mml:msub><mml:mi/><mml:mtext>total</mml:mtext></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M250" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula> <inline-formula><mml:math id="M251" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">214</mml:mn></mml:msup></mml:math></inline-formula>Pb).</p>
      <p id="d1e3780">Sediment accumulation rates for the four study sites were estimated by
fitting a reactive transport model (Soetaert and Herman, 2009) to the
<inline-formula><mml:math id="M252" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb depth profiles accounting for depth-dependent changes in porosity
(Fig. S2).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F5" specific-use="star"><?xmltex \currentcnt{5}?><label>Figure 5</label><caption><p id="d1e3794">Solid-phase depth profiles of C<inline-formula><mml:math id="M253" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula>, <inline-formula><mml:math id="M254" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">C</mml:mi><mml:mo>/</mml:mo><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula>, P,
C<inline-formula><mml:math id="M255" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M256" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> P<inline-formula><mml:math id="M257" display="inline"><mml:msub><mml:mi/><mml:mtext>tot</mml:mtext></mml:msub></mml:math></inline-formula>, Fe oxides, FeS (AVS-derived) and <inline-formula><mml:math id="M258" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">FeS</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> (CRS-derived) for the study sites in the Stockholm archipelago:
Strömmen, Baggensfjärden, Erstaviken and Ingaröfjärden. Grey
triangles are data from van Helmond et al. (2020).</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020-f05.png"/>

        </fig>

</sec>
</sec>
<sec id="Ch1.S3">
  <label>3</label><title>Results</title>
<sec id="Ch1.S3.SS1">
  <label>3.1</label><title>Pore water profiles</title>
      <p id="d1e3877">The <inline-formula><mml:math id="M259" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> penetration depth is deepest (18 mm) at Ingaröfjärden,
while at the other three sites the <inline-formula><mml:math id="M260" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> penetration depth is relatively
shallow (<inline-formula><mml:math id="M261" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">4</mml:mn></mml:mrow></mml:math></inline-formula> mm; Table 2; Fig. S3). The diffusive uptake of
<inline-formula><mml:math id="M262" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> is high at Strömmen and Baggensfjärden (<inline-formula><mml:math id="M263" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">14</mml:mn></mml:mrow></mml:math></inline-formula> mmol m<inline-formula><mml:math id="M264" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M265" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) and low at Ingaröfjärden (3 mmol m<inline-formula><mml:math id="M266" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M267" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>; Table 2). All four sites are characterized by a shallow sulfate
methane transition zone (SMTZ), with near-complete <inline-formula><mml:math id="M268" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">SO</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula> removal
between 7 and 15 cm (Fig. 4). Concentrations of <inline-formula><mml:math id="M269" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CH</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> increase with depth
at all sites and are highest at Erstaviken (up to 8 mmol L<inline-formula><mml:math id="M270" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) and
lowest at Ingaröfjärden (max. <inline-formula><mml:math id="M271" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:math></inline-formula> mmol L<inline-formula><mml:math id="M272" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>). At
Strömmen, Baggensfjärden and Erstaviken, <inline-formula><mml:math id="M273" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> concentrations
increase rapidly with depths below 2 cm, while at Ingaröfjärden this
is observed below 10 cm. After a distinct maximum (of up to 1.3 mM in
Ingaröfjärden), <inline-formula><mml:math id="M274" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> concentrations decrease again with depth
and even reach values close to zero at Strömmen and Erstaviken (at
approximately 20 and 40 cm, respectively). The flux of <inline-formula><mml:math id="M275" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> towards the
sediment surface is high at all sites (<inline-formula><mml:math id="M276" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">4</mml:mn></mml:mrow></mml:math></inline-formula> to 8 mmol m<inline-formula><mml:math id="M277" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M278" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>).</p>
      <p id="d1e4118">Dissolved <inline-formula><mml:math id="M279" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> concentrations show a maximum directly below the
sediment–water interface at all sites, with the highest maximum values at
Strömmen (<inline-formula><mml:math id="M280" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">60</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M281" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol L<inline-formula><mml:math id="M282" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>), and a rapid decrease
to values around zero in the upper<?pagebreak page2753?> centimeters of the sediment. At
Strömmen and Erstaviken dissolved <inline-formula><mml:math id="M283" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> concentrations increase
again when <inline-formula><mml:math id="M284" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> is depleted at depth. At all sites, concentrations of
<inline-formula><mml:math id="M285" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">HPO</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M286" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> are low near the sediment–water
interface and then increase with depth, first quickly then more gradually.
Only at Strömmen does <inline-formula><mml:math id="M287" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">HPO</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula> decrease below <inline-formula><mml:math id="M288" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">15</mml:mn></mml:mrow></mml:math></inline-formula> cm.
Bottom water <inline-formula><mml:math id="M289" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations decrease from the inner
archipelago towards the outer archipelago, i.e., Strömmen <inline-formula><mml:math id="M290" display="inline"><mml:mo>&gt;</mml:mo></mml:math></inline-formula> Baggensfjärden <inline-formula><mml:math id="M291" display="inline"><mml:mo>&gt;</mml:mo></mml:math></inline-formula> Erstaviken <inline-formula><mml:math id="M292" display="inline"><mml:mo>&gt;</mml:mo></mml:math></inline-formula> Ingaröfjärden. For the three most inshore sites <inline-formula><mml:math id="M293" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>
concentrations in the bottom water are higher than <inline-formula><mml:math id="M294" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>
concentrations in the sediments. In contrast, at Ingaröfjärden
<inline-formula><mml:math id="M295" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations in the surface sediments are almost 4
times higher than <inline-formula><mml:math id="M296" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations in the bottom water.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F6" specific-use="star"><?xmltex \currentcnt{6}?><label>Figure 6</label><caption><p id="d1e4338">Depth profiles of the different fractions of solid-phase
P for the study sites in the Stockholm archipelago: Strömmen,
Baggensfjärden, Erstaviken and Ingaröfjärden. Total P is the sum
of the different sequentially extracted P phases (SEDEX; black dots) and the
P content derived from acid-digested sediment aliquots and subsequent
ICP-OES analysis for the sediment samples taken in March 2017 (grey
triangles).</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020-f06.png"/>

        </fig>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T4" specific-use="star"><?xmltex \currentcnt{4}?><label>Table 4</label><caption><p id="d1e4351">Sedimentary concentrations of organic carbon (C<inline-formula><mml:math id="M297" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula>),
nitrogen (N), phosphorus (P) and calcium carbonate (<inline-formula><mml:math id="M298" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CaCO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>) and <inline-formula><mml:math id="M299" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">C</mml:mi><mml:mo>/</mml:mo><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula> and
C<inline-formula><mml:math id="M300" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M301" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> P<inline-formula><mml:math id="M302" display="inline"><mml:msub><mml:mi/><mml:mtext>tot</mml:mtext></mml:msub></mml:math></inline-formula> ratios for the different study sites.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="6">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="right"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:colspec colnum="6" colname="col6" align="right"/>
     <oasis:thead>
       <oasis:row>
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">Depth</oasis:entry>
         <oasis:entry colname="col3">Strömmen</oasis:entry>
         <oasis:entry colname="col4">Baggensfjärden<inline-formula><mml:math id="M304" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">Erstaviken<inline-formula><mml:math id="M305" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col6">Ingaröfjärden<inline-formula><mml:math id="M306" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">interval (cm)</oasis:entry>
         <oasis:entry colname="col3"/>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5"/>
         <oasis:entry colname="col6"/>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">C<inline-formula><mml:math id="M307" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> avg. (wt %)</oasis:entry>
         <oasis:entry colname="col2">0–2</oasis:entry>
         <oasis:entry colname="col3">7.9</oasis:entry>
         <oasis:entry colname="col4">6.3</oasis:entry>
         <oasis:entry colname="col5">6.0</oasis:entry>
         <oasis:entry colname="col6">5.1</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">C<inline-formula><mml:math id="M308" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> avg. (wt %)</oasis:entry>
         <oasis:entry colname="col2">10–40</oasis:entry>
         <oasis:entry colname="col3">6.3</oasis:entry>
         <oasis:entry colname="col4">4.5</oasis:entry>
         <oasis:entry colname="col5">4.5</oasis:entry>
         <oasis:entry colname="col6">3.8</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"><inline-formula><mml:math id="M309" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CaCO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> avg. (wt %)</oasis:entry>
         <oasis:entry colname="col2">Entire core</oasis:entry>
         <oasis:entry colname="col3">2.5</oasis:entry>
         <oasis:entry colname="col4">2.3</oasis:entry>
         <oasis:entry colname="col5">2.4</oasis:entry>
         <oasis:entry colname="col6">2.9</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">N avg. (wt %)</oasis:entry>
         <oasis:entry colname="col2">0–2</oasis:entry>
         <oasis:entry colname="col3">0.99</oasis:entry>
         <oasis:entry colname="col4">0.83</oasis:entry>
         <oasis:entry colname="col5">0.78</oasis:entry>
         <oasis:entry colname="col6">0.69</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">N avg. (wt %)</oasis:entry>
         <oasis:entry colname="col2">10–40</oasis:entry>
         <oasis:entry colname="col3">0.59</oasis:entry>
         <oasis:entry colname="col4">0.54</oasis:entry>
         <oasis:entry colname="col5">0.54</oasis:entry>
         <oasis:entry colname="col6">0.48</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">P avg. (wt %)</oasis:entry>
         <oasis:entry colname="col2">0–2</oasis:entry>
         <oasis:entry colname="col3">0.36</oasis:entry>
         <oasis:entry colname="col4">0.17</oasis:entry>
         <oasis:entry colname="col5">0.19</oasis:entry>
         <oasis:entry colname="col6">0.25</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">P avg. (wt %)</oasis:entry>
         <oasis:entry colname="col2">10–40</oasis:entry>
         <oasis:entry colname="col3">0.14</oasis:entry>
         <oasis:entry colname="col4">0.10</oasis:entry>
         <oasis:entry colname="col5">0.11</oasis:entry>
         <oasis:entry colname="col6">0.11</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"><inline-formula><mml:math id="M310" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">C</mml:mi><mml:mo>/</mml:mo><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula> avg. (mol<inline-formula><mml:math id="M311" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> mol<inline-formula><mml:math id="M312" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">0–2</oasis:entry>
         <oasis:entry colname="col3">9.4</oasis:entry>
         <oasis:entry colname="col4">8.9</oasis:entry>
         <oasis:entry colname="col5">9.0</oasis:entry>
         <oasis:entry colname="col6">8.7</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"><inline-formula><mml:math id="M313" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">C</mml:mi><mml:mo>/</mml:mo><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula> avg. (mol<inline-formula><mml:math id="M314" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> mol<inline-formula><mml:math id="M315" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">10–40</oasis:entry>
         <oasis:entry colname="col3">12.4</oasis:entry>
         <oasis:entry colname="col4">9.6</oasis:entry>
         <oasis:entry colname="col5">9.8</oasis:entry>
         <oasis:entry colname="col6">9.1</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">C<inline-formula><mml:math id="M316" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M317" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> P<inline-formula><mml:math id="M318" display="inline"><mml:msub><mml:mi/><mml:mtext>tot</mml:mtext></mml:msub></mml:math></inline-formula> avg.  (mol<inline-formula><mml:math id="M319" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> mol<inline-formula><mml:math id="M320" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">0–2</oasis:entry>
         <oasis:entry colname="col3">69</oasis:entry>
         <oasis:entry colname="col4">96</oasis:entry>
         <oasis:entry colname="col5">95</oasis:entry>
         <oasis:entry colname="col6">53</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">C<inline-formula><mml:math id="M321" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M322" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> P<inline-formula><mml:math id="M323" display="inline"><mml:msub><mml:mi/><mml:mtext>tot</mml:mtext></mml:msub></mml:math></inline-formula> avg.  (mol<inline-formula><mml:math id="M324" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> mol<inline-formula><mml:math id="M325" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">10–40</oasis:entry>
         <oasis:entry colname="col3">116</oasis:entry>
         <oasis:entry colname="col4">116</oasis:entry>
         <oasis:entry colname="col5">108</oasis:entry>
         <oasis:entry colname="col6">88</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table><table-wrap-foot><p id="d1e4412"><inline-formula><mml:math id="M303" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula> Organic carbon and nitrogen concentrations for Baggensfjärden,
Erstaviken and Ingaröfjärden are derived from van Helmond et al. (2020).</p></table-wrap-foot></table-wrap>

</sec>
<sec id="Ch1.S3.SS2">
  <label>3.2</label><title>Solid-phase profiles</title>
      <p id="d1e4956">Sediment C<inline-formula><mml:math id="M326" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> concentrations are relatively high at all four sites
(Fig. 5), whereas <inline-formula><mml:math id="M327" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CaCO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> concentrations are low (<inline-formula><mml:math id="M328" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:math></inline-formula> wt %;
Table 4). Surface sediments are enriched in C<inline-formula><mml:math id="M329" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> by 1–2 wt % when
compared to sediments at depth. Concentrations of C<inline-formula><mml:math id="M330" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> are highest at
Strömmen and decrease from the inner archipelago towards the outer
archipelago (Table 4; Fig. S4). Sediment <inline-formula><mml:math id="M331" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">C</mml:mi><mml:mo>/</mml:mo><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula> ratios are somewhat lower
in the top centimeters and become constant with depth. Overall <inline-formula><mml:math id="M332" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">C</mml:mi><mml:mo>/</mml:mo><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula> values
decrease towards the outer archipelago. At all four<?pagebreak page2754?> sites, surface sediments
are enriched in P. The thickness of this enriched surface layer ranges from
2 to 4 cm. At Strömmen, surface P concentrations are twice as high
(ranging up to 165 <inline-formula><mml:math id="M333" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol g<inline-formula><mml:math id="M334" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) as those observed at the other
sites. Below this enriched surface layer, P concentrations are mostly rather
constant at all sites (ranging from 30 to 40 <inline-formula><mml:math id="M335" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol g<inline-formula><mml:math id="M336" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>). Similar
to the high concentrations in the surface layer at Strömmen, sedimentary
P concentrations are also high at depth (40 to 50 <inline-formula><mml:math id="M337" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol g<inline-formula><mml:math id="M338" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>), and
two additional enrichments in P are observed at depth.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F7"><?xmltex \currentcnt{7}?><label>Figure 7</label><caption><p id="d1e5095">Bar diagram showing the areal rates of benthic
<inline-formula><mml:math id="M339" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>-reducing processes, including error bars. Relative
contribution of anammox is indicated by the yellow dots.</p></caption>
          <?xmltex \igopts{width=236.157874pt}?><graphic xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020-f07.png"/>

        </fig>

      <p id="d1e5117">As a result of the relatively large enrichment in P in the surface
sediments, C<inline-formula><mml:math id="M340" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M341" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> P<inline-formula><mml:math id="M342" display="inline"><mml:msub><mml:mi/><mml:mtext>tot</mml:mtext></mml:msub></mml:math></inline-formula> is low in the surface sediment. At depth
C<inline-formula><mml:math id="M343" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M344" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> P<inline-formula><mml:math id="M345" display="inline"><mml:msub><mml:mi/><mml:mtext>tot</mml:mtext></mml:msub></mml:math></inline-formula> values are around the Redfield ratio (Table 4). With
the exception of Strömmen, surface sediments are enriched in Fe oxides.
This enrichment is most pronounced at Ingaröfjärden. At depth,
Fe-oxide concentrations are relatively constant and similar for all four
sites. Just below the surface, between <inline-formula><mml:math id="M346" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> to 10 cm, a
pronounced enrichment in FeS is observed. Only at Ingaröfjärden is such
a pronounced enrichment in FeS not observed, and FeS are entirely absent
above 2.5 cm. Pyrite concentrations are relatively low in the surface
sediments and gradually increase with depth. At Ingaröfjärden, a
peak in <inline-formula><mml:math id="M347" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">FeS</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> is observed between 5 and 10 cm, superimposed on the
gradual increase in <inline-formula><mml:math id="M348" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">FeS</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>.</p>
      <?pagebreak page2755?><p id="d1e5204">At all sites, Fe-bound P dominates the P in the surface sediments (Fig. 6).
At Strömmen, Fe-bound P remains an important fraction of solid-phase P,
also at depth, while for the other sites Fe-bound P only represents
<inline-formula><mml:math id="M349" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">10</mml:mn></mml:mrow></mml:math></inline-formula> %–20 % of total P. Exchangeable P shows trends similar
to those observed for Fe-bound P, but concentrations are low. Detrital P,
authigenic P and P in organic matter all show relatively constant
concentrations with depth. Only the P in organic matter is slightly enriched
in the surface sediments. Below the Fe-bound P-dominated surface sediments,
P in organic matter is the largest fraction, representing between
<inline-formula><mml:math id="M350" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">30</mml:mn></mml:mrow></mml:math></inline-formula> % and 40 % of the total P and between <inline-formula><mml:math id="M351" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">30</mml:mn></mml:mrow></mml:math></inline-formula> % and 50 % of reactive P (i.e., the sum of Fe-bound P, exchangeable P, P in
organic matter and authigenic Ca-P). Authigenic Ca-P represents
<inline-formula><mml:math id="M352" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">25</mml:mn></mml:mrow></mml:math></inline-formula> % to 30 % and detrital P <inline-formula><mml:math id="M353" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:math></inline-formula> % to 25 %
of total P.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F8" specific-use="star"><?xmltex \currentcnt{8}?><label>Figure 8</label><caption><p id="d1e5259">Relationship between total denitrification rates and
denitrification driven by <inline-formula><mml:math id="M354" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> from nitrification
(nitrification-denitrification) as process rates <bold>(a)</bold> and as a percentage
of total denitrification <bold>(b)</bold>.</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020-f08.png"/>

        </fig>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T5" specific-use="star"><?xmltex \currentcnt{5}?><label>Table 5</label><caption><p id="d1e5290">Areal rates of benthic <inline-formula><mml:math id="M355" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>-reducing processes,
including standard error (SE). Nitrification-denitrification indicates the
proportion of denitrification supported by <inline-formula><mml:math id="M356" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> from nitrification
(as opposed to water column <inline-formula><mml:math id="M357" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>). Bottom water <inline-formula><mml:math id="M358" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>
concentrations and <inline-formula><mml:math id="M359" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M360" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> fluxes from the surface
sediments into the water column (calculated from pore water profiles),
including standard error (SE), are shown.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="right"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:thead>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">Strömmen</oasis:entry>
         <oasis:entry colname="col3">Baggensfjärden</oasis:entry>
         <oasis:entry colname="col4">Erstaviken</oasis:entry>
         <oasis:entry colname="col5">Ingaröfjärden</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">Denitrification</oasis:entry>
         <oasis:entry colname="col2">1723</oasis:entry>
         <oasis:entry colname="col3">685</oasis:entry>
         <oasis:entry colname="col4">564</oasis:entry>
         <oasis:entry colname="col5">90</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">(<inline-formula><mml:math id="M361" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol N m<inline-formula><mml:math id="M362" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M363" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)  (SE)</oasis:entry>
         <oasis:entry colname="col2">(774)</oasis:entry>
         <oasis:entry colname="col3">(58)</oasis:entry>
         <oasis:entry colname="col4">(86)</oasis:entry>
         <oasis:entry colname="col5">(38)</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">DNRA</oasis:entry>
         <oasis:entry colname="col2">11.1</oasis:entry>
         <oasis:entry colname="col3">6.1</oasis:entry>
         <oasis:entry colname="col4">3.6</oasis:entry>
         <oasis:entry colname="col5">2.8</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">(<inline-formula><mml:math id="M364" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol N m<inline-formula><mml:math id="M365" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M366" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)  (SE)</oasis:entry>
         <oasis:entry colname="col2">(8.1)</oasis:entry>
         <oasis:entry colname="col3">(1.7)</oasis:entry>
         <oasis:entry colname="col4">(3.3)</oasis:entry>
         <oasis:entry colname="col5">(0.4)</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Nitrification-denitrification</oasis:entry>
         <oasis:entry colname="col2">1027</oasis:entry>
         <oasis:entry colname="col3">500</oasis:entry>
         <oasis:entry colname="col4">500</oasis:entry>
         <oasis:entry colname="col5">76</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">(<inline-formula><mml:math id="M367" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol N m<inline-formula><mml:math id="M368" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M369" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) (SE)</oasis:entry>
         <oasis:entry colname="col2">(461)</oasis:entry>
         <oasis:entry colname="col3">(42)</oasis:entry>
         <oasis:entry colname="col4">(76)</oasis:entry>
         <oasis:entry colname="col5">(32)</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Nitrification-denitrification (%)</oasis:entry>
         <oasis:entry colname="col2">59.6</oasis:entry>
         <oasis:entry colname="col3">73</oasis:entry>
         <oasis:entry colname="col4">88.6</oasis:entry>
         <oasis:entry colname="col5">84.4</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Anammox</oasis:entry>
         <oasis:entry colname="col2">0.27</oasis:entry>
         <oasis:entry colname="col3">0.76</oasis:entry>
         <oasis:entry colname="col4">3.11</oasis:entry>
         <oasis:entry colname="col5">44.12</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">(<inline-formula><mml:math id="M370" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol N m<inline-formula><mml:math id="M371" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M372" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)  (SE)</oasis:entry>
         <oasis:entry colname="col2">(0.1)</oasis:entry>
         <oasis:entry colname="col3">(0.1)</oasis:entry>
         <oasis:entry colname="col4">(0.5)</oasis:entry>
         <oasis:entry colname="col5">(18.4)</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"><inline-formula><mml:math id="M373" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> anammox (%)</oasis:entry>
         <oasis:entry colname="col2">0.02</oasis:entry>
         <oasis:entry colname="col3">0.11</oasis:entry>
         <oasis:entry colname="col4">0.55</oasis:entry>
         <oasis:entry colname="col5">32.93</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Bottom water <inline-formula><mml:math id="M374" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> (<inline-formula><mml:math id="M375" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol L<inline-formula><mml:math id="M376" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">17.8</oasis:entry>
         <oasis:entry colname="col3">12.1</oasis:entry>
         <oasis:entry colname="col4">9.0</oasis:entry>
         <oasis:entry colname="col5">5.6</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"><inline-formula><mml:math id="M377" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> flux</oasis:entry>
         <oasis:entry colname="col2">1399</oasis:entry>
         <oasis:entry colname="col3">629</oasis:entry>
         <oasis:entry colname="col4">600</oasis:entry>
         <oasis:entry colname="col5">0</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">(<inline-formula><mml:math id="M378" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol N m<inline-formula><mml:math id="M379" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M380" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)  (SE)</oasis:entry>
         <oasis:entry colname="col2">(122.4)</oasis:entry>
         <oasis:entry colname="col3">(88.8)</oasis:entry>
         <oasis:entry colname="col4">(76.8)</oasis:entry>
         <oasis:entry colname="col5">(0)</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"><inline-formula><mml:math id="M381" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> flux</oasis:entry>
         <oasis:entry colname="col2">4.1</oasis:entry>
         <oasis:entry colname="col3"><inline-formula><mml:math id="M382" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1.44</mml:mn></mml:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M383" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">7.68</mml:mn></mml:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M384" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">85.7</mml:mn></mml:mrow></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">(<inline-formula><mml:math id="M385" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol N m<inline-formula><mml:math id="M386" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M387" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>)  (SE)</oasis:entry>
         <oasis:entry colname="col2">(0.05)</oasis:entry>
         <oasis:entry colname="col3">(1.0)</oasis:entry>
         <oasis:entry colname="col4">(0.24)</oasis:entry>
         <oasis:entry colname="col5">(35.0)</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

</sec>
<sec id="Ch1.S3.SS3">
  <label>3.3</label><title>Benthic nitrogen cycling</title>
      <?pagebreak page2756?><p id="d1e5974">Bottom water <inline-formula><mml:math id="M388" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations decrease from Strömmen (17.8 <inline-formula><mml:math id="M389" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol L<inline-formula><mml:math id="M390" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) towards Ingaröfjärden (5.6 <inline-formula><mml:math id="M391" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol L<inline-formula><mml:math id="M392" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>; Table 5). The flux of <inline-formula><mml:math id="M393" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> out of the sediment also
decreases seaward. The sediment acts as a weak source of <inline-formula><mml:math id="M394" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> for
the overlying water at Strömmen, while it is a <inline-formula><mml:math id="M395" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> sink at the
other three sites (Table 5).</p>
      <p id="d1e6070">Denitrification is the major <inline-formula><mml:math id="M396" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>-reducing process at all sites
(Fig. 7; Table 5). Denitrification rates (Fig. 7) are highest at
Strömmen (<inline-formula><mml:math id="M397" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">1700</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M398" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol m<inline-formula><mml:math id="M399" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M400" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) and
decrease towards the outer archipelago with the lowest rates at
Ingaröfjärden (<inline-formula><mml:math id="M401" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">100</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M402" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol m<inline-formula><mml:math id="M403" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M404" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>).
Nitrous oxide is not an important end product of denitrification in whole-core incubations. Nitrification is the dominant source of <inline-formula><mml:math id="M405" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> for
denitrification in the sediments at all sites, accounting for 60 %–89 % of
all <inline-formula><mml:math id="M406" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> supply for denitrification in the sediments (Table 5;
Fig. 8). The importance of nitrification as a <inline-formula><mml:math id="M407" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> source relative
to water column <inline-formula><mml:math id="M408" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> increased towards the outer archipelago.
DNRA was measurable but is not a significant <inline-formula><mml:math id="M409" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>-reducing pathway
at any of the sites investigated, accounting for less than 1.5 % of total
<inline-formula><mml:math id="M410" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> reduced. Anammox plays only a minor role in overall N
removal (<inline-formula><mml:math id="M411" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % <inline-formula><mml:math id="M412" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> produced) at the three inner archipelago
sites but accounts for 33 % of <inline-formula><mml:math id="M413" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> production at Ingaröfjärden
(44.1 <inline-formula><mml:math id="M414" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol m<inline-formula><mml:math id="M415" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M416" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>), where overall <inline-formula><mml:math id="M417" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> production is
lowest and heterotrophic<?pagebreak page2757?> denitrification most limited in organic C
substrate. Rates of N removal by denitrification are positively correlated
with bottom water <inline-formula><mml:math id="M418" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations and with organic carbon
content (Fig. 9).</p>
</sec>
</sec>
<sec id="Ch1.S4">
  <label>4</label><title>Discussion</title>
<sec id="Ch1.S4.SS1">
  <label>4.1</label><title>Phosphorus dynamics in a eutrophic coastal system</title>
<sec id="Ch1.S4.SS1.SSS1">
  <label>4.1.1</label><title>Phosphorus recycling</title>
      <p id="d1e6362">At the end of autumn and during the winter dissolved <inline-formula><mml:math id="M419" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> concentrations
in the Stockholm archipelago peak, largely due to mixing of the water column
and subsequent ventilation (Figs. 3c, d, S1). After winter, <inline-formula><mml:math id="M420" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
concentrations decrease during spring and summer, following enhanced <inline-formula><mml:math id="M421" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
consumption by degrading organic matter after the spring bloom and reaching
minimum values at the end of summer and in autumn. The loss of <inline-formula><mml:math id="M422" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> from
the bottom water is further enhanced by reduced ventilation of deeper waters
following intensified water column stratification as a result of formation
or strengthening of the thermocline (Gidhagen, 1987), which at many
locations in the Stockholm archipelago leads to hypoxia (Karlsson et al.,
2010; Conley et al., 2011). In addition to nutrient availability, spring
bloom intensity and water depth, hydrological restriction may contribute to
low-<inline-formula><mml:math id="M423" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> conditions. This is also reflected at our study sites, with
Baggensfjärden being the most <inline-formula><mml:math id="M424" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>-depleted and restricted basin
(i.e., landlocked with narrow and relatively shallow connections to adjacent
basins) and Ingaröfjärden being the least restricted and,
subsequently, the most consistently well-oxygenated basin throughout the
year (Table 1; Figs. 1, 2, S1).</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T6" specific-use="star"><?xmltex \currentcnt{6}?><label>Table 6</label><caption><p id="d1e6435">Burial rates of total and reactive P.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="6">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:colspec colnum="6" colname="col6" align="right"/>
     <oasis:thead>
       <oasis:row>
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">Unit</oasis:entry>
         <oasis:entry colname="col3">Strömmen</oasis:entry>
         <oasis:entry colname="col4">Baggens-</oasis:entry>
         <oasis:entry colname="col5">Erstaviken</oasis:entry>
         <oasis:entry colname="col6">Ingarö-</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2"/>
         <oasis:entry colname="col3"/>
         <oasis:entry colname="col4">fjärden</oasis:entry>
         <oasis:entry colname="col5"/>
         <oasis:entry colname="col6">fjärden</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">Total P burial rates</oasis:entry>
         <oasis:entry colname="col2">mol m<inline-formula><mml:math id="M430" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> yr<inline-formula><mml:math id="M431" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">0.28</oasis:entry>
         <oasis:entry colname="col4">0.03</oasis:entry>
         <oasis:entry colname="col5">0.09</oasis:entry>
         <oasis:entry colname="col6">0.05</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">g m<inline-formula><mml:math id="M432" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> yr<inline-formula><mml:math id="M433" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">8.74</oasis:entry>
         <oasis:entry colname="col4">0.87</oasis:entry>
         <oasis:entry colname="col5">2.89</oasis:entry>
         <oasis:entry colname="col6">1.53</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Reactive P<inline-formula><mml:math id="M434" display="inline"><mml:msup><mml:mi/><mml:mtext>a</mml:mtext></mml:msup></mml:math></inline-formula>  burial rates</oasis:entry>
         <oasis:entry colname="col2">mol m<inline-formula><mml:math id="M435" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> yr<inline-formula><mml:math id="M436" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">0.24</oasis:entry>
         <oasis:entry colname="col4">0.02</oasis:entry>
         <oasis:entry colname="col5">0.07</oasis:entry>
         <oasis:entry colname="col6">0.03</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">g m<inline-formula><mml:math id="M437" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> yr<inline-formula><mml:math id="M438" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">7.47</oasis:entry>
         <oasis:entry colname="col4">0.70</oasis:entry>
         <oasis:entry colname="col5">2.22</oasis:entry>
         <oasis:entry colname="col6">1.03</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Thickness of enriched top layer<inline-formula><mml:math id="M439" display="inline"><mml:msup><mml:mi/><mml:mtext>b</mml:mtext></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col2">mm</oasis:entry>
         <oasis:entry colname="col3">30</oasis:entry>
         <oasis:entry colname="col4">20</oasis:entry>
         <oasis:entry colname="col5">20</oasis:entry>
         <oasis:entry colname="col6">40</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Total P burial in enriched top layer</oasis:entry>
         <oasis:entry colname="col2">mol m<inline-formula><mml:math id="M440" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">0.29</oasis:entry>
         <oasis:entry colname="col4">0.08</oasis:entry>
         <oasis:entry colname="col5">0.10</oasis:entry>
         <oasis:entry colname="col6">0.38</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">g m<inline-formula><mml:math id="M441" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">9.12</oasis:entry>
         <oasis:entry colname="col4">2.50</oasis:entry>
         <oasis:entry colname="col5">3.19</oasis:entry>
         <oasis:entry colname="col6">11.85</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Total P burial in enriched top layer – background</oasis:entry>
         <oasis:entry colname="col2">mol m<inline-formula><mml:math id="M442" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">0.160</oasis:entry>
         <oasis:entry colname="col4">0.036</oasis:entry>
         <oasis:entry colname="col5">0.047</oasis:entry>
         <oasis:entry colname="col6">0.172</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">g m<inline-formula><mml:math id="M443" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">4.96</oasis:entry>
         <oasis:entry colname="col4">1.11</oasis:entry>
         <oasis:entry colname="col5">1.47</oasis:entry>
         <oasis:entry colname="col6">5.33</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Reactive P burial in enriched top layer</oasis:entry>
         <oasis:entry colname="col2">mol m<inline-formula><mml:math id="M444" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">0.24</oasis:entry>
         <oasis:entry colname="col4">0.067</oasis:entry>
         <oasis:entry colname="col5">0.081</oasis:entry>
         <oasis:entry colname="col6">0.32</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">g m<inline-formula><mml:math id="M445" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">7.49</oasis:entry>
         <oasis:entry colname="col4">2.07</oasis:entry>
         <oasis:entry colname="col5">2.51</oasis:entry>
         <oasis:entry colname="col6">10.05</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">React. P burial in enriched top layer – background</oasis:entry>
         <oasis:entry colname="col2">mol m<inline-formula><mml:math id="M446" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">0.127</oasis:entry>
         <oasis:entry colname="col4">0.031</oasis:entry>
         <oasis:entry colname="col5">0.039</oasis:entry>
         <oasis:entry colname="col6">0.200</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">g m<inline-formula><mml:math id="M447" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">3.94</oasis:entry>
         <oasis:entry colname="col4">0.94</oasis:entry>
         <oasis:entry colname="col5">1.20</oasis:entry>
         <oasis:entry colname="col6">6.21</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Sediment accumulation rate<inline-formula><mml:math id="M448" display="inline"><mml:msup><mml:mi/><mml:mtext>c</mml:mtext></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col2">mm yr<inline-formula><mml:math id="M449" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">35</oasis:entry>
         <oasis:entry colname="col4">5</oasis:entry>
         <oasis:entry colname="col5">15</oasis:entry>
         <oasis:entry colname="col6">5</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">g DW m<inline-formula><mml:math id="M450" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> yr<inline-formula><mml:math id="M451" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col3">6300</oasis:entry>
         <oasis:entry colname="col4">865</oasis:entry>
         <oasis:entry colname="col5">2588</oasis:entry>
         <oasis:entry colname="col6">1353</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table><table-wrap-foot><p id="d1e6438"><inline-formula><mml:math id="M425" display="inline"><mml:msup><mml:mi/><mml:mtext>a</mml:mtext></mml:msup></mml:math></inline-formula> Reactive P is the sum of Fe-bound P, Exch. P, Org. P and Auth. P.
<inline-formula><mml:math id="M426" display="inline"><mml:msup><mml:mi/><mml:mtext>b</mml:mtext></mml:msup></mml:math></inline-formula> See Fig. 10 for definition of top layer (red) and background (dashed line). <inline-formula><mml:math id="M427" display="inline"><mml:msup><mml:mi/><mml:mtext>c</mml:mtext></mml:msup></mml:math></inline-formula> Sediment accumulation rates for Baggensfjärden, Erstaviken and
Ingaröfjärden are based on <inline-formula><mml:math id="M428" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">210</mml:mn></mml:msup></mml:math></inline-formula>Pb data from van Helmond et al. (2020); see Fig. S2. DW <inline-formula><mml:math id="M429" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> dry weight sediment.</p></table-wrap-foot></table-wrap>

      <?pagebreak page2758?><p id="d1e7110">High dissolved <inline-formula><mml:math id="M452" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> concentrations allow for the formation and presence of
Fe oxides (Fig. 5) in the surface sediments that bind P (e.g., Slomp et al.,
1996; Fig. 6). Low dissolved <inline-formula><mml:math id="M453" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> concentrations, however, lead to the
dissolution of Fe oxides in the surface sediments. The P associated with
these Fe oxides can then be released into the water column again. This
mechanism leads to P recycling in basins with strong (seasonal) contrasts in
bottom water redox conditions, such as Baggensfjärden, where the
sediments are a sink for P in the winter and a source of P in the spring
and the summer (Fig. 3c), as also described previously for other basins in
the Stockholm archipelago (Walve et al., 2018). Nevertheless, in year-round
well-oxygenated basins, such as Ingaröfjärden, this seasonal P
recycling is (nearly) absent (Fig. 3a). In such basins, deeper <inline-formula><mml:math id="M454" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
penetration, which might partly be related to the presence of macrofauna
(Fig. S3), leads to a thicker Fe-oxide-bearing layer (Fig. 5) and a
larger and stable Fe-bound P pool (Fig. 6) and hence a larger enrichment of P
in the surface sediments (Fig. 10). Besides Fe oxides, a major part of the
surface sediment P pool consists of P in organic matter (Fig. 6), which,
based on the <inline-formula><mml:math id="M455" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">C</mml:mi><mml:mo>/</mml:mo><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula> values close to the Redfield ratio (Fig. 5), is
predominantly of marine origin. Part of the organic matter (and the P
associated with it) is lost with depth (Fig. 6), because the most labile
organic matter is degraded in the upper centimeters of the sediment,
releasing the P associated with it into the pore water. For our study sites in
the Stockholm archipelago we calculated that this surface sediment P pool,
i.e., the P active in turnover as already suggested by Rydin et al. (2011), varies between 0.036 mol P m<inline-formula><mml:math id="M456" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> at Baggensfjärden and
0.172 mol P m<inline-formula><mml:math id="M457" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> at Ingaröfjärden (between <inline-formula><mml:math id="M458" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula>
and 5 g P m<inline-formula><mml:math id="M459" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>, respectively; Fig. 10; Table 6). This is comparable to
values found for previously studied sites in the Stockholm archipelago (1 to
7 g P m<inline-formula><mml:math id="M460" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>; Rydin et al., 2011; Rydin and Kumblad, 2019). The surface
sediment P pool could, however, have been much larger for Strömmen,
Baggensfjärden and Erstaviken if all of the FeS in the surface sediments
had seasonally transformed into Fe oxides. The lack of such a transformation
is likely linked to the high upward flux of <inline-formula><mml:math id="M461" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> to the surface sediment
(4.2 to 7.6 mmol m<inline-formula><mml:math id="M462" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M463" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>; Table 3). Besides the <inline-formula><mml:math id="M464" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> flux,
there is a relatively large efflux of <inline-formula><mml:math id="M465" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> from the sediments into
the bottom water (up to 1.4 mmol m<inline-formula><mml:math id="M466" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M467" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>; Table 5). Both the
<inline-formula><mml:math id="M468" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> and the <inline-formula><mml:math id="M469" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> flux originate from decomposing organic-rich
sediments at depth (Fig. 4). Upon aerobic oxidation, 2 mol of <inline-formula><mml:math id="M470" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
is consumed per mole of <inline-formula><mml:math id="M471" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> or <inline-formula><mml:math id="M472" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> (e.g., Reed et al.,
2011). Thus, the <inline-formula><mml:math id="M473" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> demand resulting from these <inline-formula><mml:math id="M474" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> and
<inline-formula><mml:math id="M475" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> fluxes is very high when compared to the diffusive flux of
<inline-formula><mml:math id="M476" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> into the sediment (3.1–13.8 mmol m<inline-formula><mml:math id="M477" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M478" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>; Table 2). As
a consequence of the presence of <inline-formula><mml:math id="M479" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> in the surface sediments and its
high upward flux, in combination with reduced water column mixing and/or
seasonally low-<inline-formula><mml:math id="M480" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> bottom water conditions, FeS are formed and/or
preserved (Fig. 5) and formation of a large(r) pool of Fe oxides and a
Fe-bound P pool is hindered at Strömmen, Baggensfjärden and
Erstaviken. At Ingaröfjärden, the well-mixed water column and
year-round well-oxygenated bottom water allow for a deeper <inline-formula><mml:math id="M481" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> penetration
(Fig. S3), preventing the presence of <inline-formula><mml:math id="M482" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> in the surface sediment
despite its high upward flux (Table 3) and leading to a thicker Fe-oxide-bearing layer (Fig. 5) and a larger Fe-bound P pool (Fig. 6).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F9" specific-use="star"><?xmltex \currentcnt{9}?><label>Figure 9</label><caption><p id="d1e7494">Relationship between denitrification and bottom water
<inline-formula><mml:math id="M483" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations on the one hand and upper sediment C<inline-formula><mml:math id="M484" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> content on the other for the
study sites in the Stockholm archipelago.</p></caption>
            <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020-f09.png"/>

          </fig>

</sec>
<sec id="Ch1.S4.SS1.SSS2">
  <label>4.1.2</label><title>Phosphorus burial</title>
      <p id="d1e7533">Absolute P concentrations in the sediments in the Stockholm archipelago
(Figs. 6 and 10 in this study and in Rydin et al., 2011) are high
(<inline-formula><mml:math id="M485" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">30</mml:mn></mml:mrow></mml:math></inline-formula> to 50 <inline-formula><mml:math id="M486" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol g<inline-formula><mml:math id="M487" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) in comparison with most other
studied sites in the coastal zone of the Baltic Sea (generally <inline-formula><mml:math id="M488" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">30</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M489" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol  g<inline-formula><mml:math id="M490" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>; Jensen et al., 1995; Carman et al., 1996; Lenstra et
al., 2018). The relatively low C<inline-formula><mml:math id="M491" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M492" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> P<inline-formula><mml:math id="M493" display="inline"><mml:msub><mml:mi/><mml:mtext>tot</mml:mtext></mml:msub></mml:math></inline-formula> values in the top
<inline-formula><mml:math id="M494" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:math></inline-formula> cm, which are around the Redfield ratio (Fig. 5), show
that the seasonal <inline-formula><mml:math id="M495" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> depletion of bottom waters in our study area is
not severe or long-lasting enough to cause substantial preferential regeneration of
P relative to C (Algeo and Ingall, 2007; Sulu-Gambari et al., 2018). The
combination of high absolute P concentrations and relatively high
sedimentation rates leads to relatively high rates of P burial (Table 6;
Fig. S5). Further research of P burial rates at additional locations in
the Stockholm archipelago, including the impact of anthropogenic activities
on sedimentation rates (e.g., near-shore construction and dredging) and of
redeposition of sediments that have already undergone one or multiple
diagenetic cycles (after resuspension due to, for example,<?pagebreak page2759?> land uplift;
Jonsson et al., 1990; Bryhn and Håkanson, 2011) is required before these
results can be extrapolated to the scale of the entire system. Furthermore,
it remains unclear what parts of the Stockholm archipelago represent areas
of net sediment accumulation (Karlsson et al., 2019; Asmala et al., 2019)
and how much (and in what form) P is buried in euxinic parts of the
Stockholm archipelago. Hence, our results cannot be directly used to resolve
the apparent discrepancy between the model results of Almroth-Rosell et al. (2016) and Walve et al. (2018).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F10"><?xmltex \currentcnt{10}?><label>Figure 10</label><caption><p id="d1e7645">Surface sedimentary P pools for the study sites in the
Stockholm archipelago. The red color indicates the enriched surface sediment
layer or “top layer” (Table 6). Dashed lines indicate “background”
sedimentary P.</p></caption>
            <?xmltex \igopts{width=236.157874pt}?><graphic xlink:href="https://bg.copernicus.org/articles/17/2745/2020/bg-17-2745-2020-f10.png"/>

          </fig>

      <p id="d1e7654">The constant concentrations of most P forms in the sediment below the
clearly enriched surface sediments suggest there is generally little to
no sink switching of sediment P forms (i.e., the transformation of relatively
labile P reservoirs such as Fe-oxide-bound P and organic P to authigenic P
minerals such as vivianite) in the Stockholm archipelago.
The curved shape of the pore water <inline-formula><mml:math id="M496" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">HPO</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula> profiles indicates,
however, that there is still some release of P into the pore water at depth,
and we attribute this to slow degradation of organic matter. Both the
detrital and authigenic (Ca-P) fractions are likely buried in the form in
which they reached the sediment–water interface. The general dominance of P
in organic matter and apatite (authigenic and detrital P; Fig. 6) at depth
(representing permanent P burial, since the release of P from organic P is
only minor) agrees with previous findings for organic-rich sediments in the
Baltic Sea (e.g., Jensen et al., 1995; Carman et al., 1996; Mort et al.,
2010; Rydin et al., 2011). By contrast, in the Bothnian Sea, Fe-bound P is a
much more important P pool at depth (e.g., Egger et al., 2015; Lenstra et
al., 2018). Evidence for potential sink switching is only found at
Strömmen, which is characterized by a larger Fe-bound P pool at depth
(Fig. 6). This larger Fe-bound P pool at depth contributes to the high P
burial rate at Strömmen (Table 6; Fig. S5). Coastal sediments with a
shallow SMTZ, relatively high inputs of Fe oxides and organic matter, and
high sediment accumulation rates are prime locations for formation of
vivianite-type minerals (e.g., Slomp et al., 2013; Egger et al., 2015). The
presence of dissolved <inline-formula><mml:math id="M497" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> and decreasing dissolved <inline-formula><mml:math id="M498" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">HPO</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>-</mml:mo></mml:mrow></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations at depth at Strömmen (Fig. 4) in combination with
elevated Fe-bound P in the lower part of the record (Fig. 6) may hence
result from the formation of a vivianite-type mineral.</p>
</sec>
</sec>
<sec id="Ch1.S4.SS2">
  <label>4.2</label><title>Nitrogen cycling in the Stockholm archipelago</title>
<sec id="Ch1.S4.SS2.SSS1">
  <label>4.2.1</label><title>Spatial differences in benthic N dynamics</title>
      <p id="d1e7719">Denitrification is by far the dominant pathway of <inline-formula><mml:math id="M499" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> reduction
at our study sites, accounting for <inline-formula><mml:math id="M500" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">80</mml:mn></mml:mrow></mml:math></inline-formula> % to 99 % of total
dissimilatory <inline-formula><mml:math id="M501" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> reduction (DNRA <inline-formula><mml:math id="M502" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> anammox <inline-formula><mml:math id="M503" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> (2 <inline-formula><mml:math id="M504" display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> denitrification)) at the time of sampling (Table 4).</p>
      <?pagebreak page2760?><p id="d1e7780">The dominant role of denitrification in removing N and the gradient from
inner to outer archipelago agrees well with regional models based on
long-term monitoring data, which show the highest N removal capacity in the
inner archipelago region
(Almroth-Rosell et al., 2016;
Edman et al., 2018). In the model of Almroth-Rosell et al. (2016), the inner
archipelago, where Strömmen is located, annually removes approximately
3–5 times more N (<inline-formula><mml:math id="M505" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">8</mml:mn></mml:mrow></mml:math></inline-formula>–12 t N km<inline-formula><mml:math id="M506" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> yr<inline-formula><mml:math id="M507" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) than the
intermediate and outer archipelago sites (<inline-formula><mml:math id="M508" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula>–3 t N km<inline-formula><mml:math id="M509" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> yr<inline-formula><mml:math id="M510" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>). Denitrification rates of both Baggensfjärden and
Erstaviken are within this range (<inline-formula><mml:math id="M511" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">2.5</mml:mn></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M512" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:math></inline-formula>
times lower than at Strömmen, respectively). However, despite
Ingaröfjärden being located in a basin adjacent to Erstaviken (Fig. 1) and modeled as having an almost identical area-specific N retention
capacity (Almroth-Rosell et al., 2016), denitrification rates were almost 20
times lower than those at Strömmen and <inline-formula><mml:math id="M513" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">8</mml:mn></mml:mrow></mml:math></inline-formula> to 6 times
lower than at Baggensfjärden and Erstaviken, respectively. As such, N
removal rates between adjacent basins may be more variable than assumed by
models. The differences in rates are likely related to lower organic matter
inputs and subsequent lower sediment respiration rates as indicated by
deeper <inline-formula><mml:math id="M514" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> penetration at Ingaröfjärden (Table 2; Fig. S3).
Suspended particulate organic matter may also be removed more quickly from
Ingaröfjärden due to its more direct connection to the open Baltic
Sea (Fig. 1), permitting more rapid water exchange and transport of
particulate organic matter out of the basin than at Baggensfjärden and
Erstaviken (Engqvist and Andrejev, 2003).</p>
</sec>
<sec id="Ch1.S4.SS2.SSS2">
  <label>4.2.2</label><?xmltex \opttitle{Controls on benthic NO${}_{{3}}{}^{{-}}$ reduction}?><title>Controls on benthic NO<inline-formula><mml:math id="M515" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> reduction</title>
      <p id="d1e7914">Given the minor contributions of anammox and DNRA in these sediments at the
time of sampling, we focus predominantly on the control of heterotrophic
denitrification in Stockholm archipelago sediments.
Heterotrophic denitrification in sediments is limited by both the
availability of <inline-formula><mml:math id="M516" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> and C<inline-formula><mml:math id="M517" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula>.</p>
      <p id="d1e7939">In sediments, <inline-formula><mml:math id="M518" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> is supplied from overlying water and/or from
nitrification in the surface layers (coupled nitrification–denitrification;
Seitzinger, 1988; Seitzinger et al., 2006). The relative importance of the
two <inline-formula><mml:math id="M519" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> sources to denitrification in coastal systems can be
highly variable between locations and seasons (e.g., Seitzinger et al., 2006;
Jäntti et al., 2011; Bonaglia et al., 2014). We observed a distinct
positive correlation between rates of denitrification and bottom water
<inline-formula><mml:math id="M520" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentration (Fig. 9), indicating a high capacity of the
sediments to reduce riverine <inline-formula><mml:math id="M521" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> loads along the seaward
gradient, as shown for other coastal systems of the Baltic Sea (Asmala et
al., 2017). We additionally demonstrate that benthic nitrification provided
the major proportion (<inline-formula><mml:math id="M522" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">55</mml:mn></mml:mrow></mml:math></inline-formula> %–90 %) of <inline-formula><mml:math id="M523" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> which
was reduced in the sediments at all four sites (Table 5; Fig. 8), as has
been demonstrated in previous studies and syntheses on coastal systems (e.g., see Seitzinger et al., 2006) and studies on the Baltic Sea (e.g., Silvennoinen et al., 2007; Bonaglia et al., 2014, 2017;
Hellemann et al., 2017). One of the highest contributions of nitrification
to <inline-formula><mml:math id="M524" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> production for denitrification (<inline-formula><mml:math id="M525" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">85</mml:mn></mml:mrow></mml:math></inline-formula> %)
was measured at Ingaröfjärden. At this site, the lowest overall
denitrification rates and bottom water <inline-formula><mml:math id="M526" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations were
measured, despite the deep (18 mm) <inline-formula><mml:math id="M527" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> penetration providing a large
sediment volume for nitrification to occur (Table 2). This high <inline-formula><mml:math id="M528" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
penetration may in part be due to fewer C<inline-formula><mml:math id="M529" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> inputs and thus a lower
C<inline-formula><mml:math id="M530" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> content (Table 2), discussed in Sect. 4.2.1 and further below.</p>
      <p id="d1e8095">Inputs of C<inline-formula><mml:math id="M531" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> provide both a C source for heterotrophic processes
(e.g., denitrification) as well as a source of <inline-formula><mml:math id="M532" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> (from
remineralization processes) for nitrification and subsequent <inline-formula><mml:math id="M533" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>
production. In coastal sediments C<inline-formula><mml:math id="M534" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> is not thought to limit
denitrification. However, in complex basin systems such as the Stockholm
archipelago, and in the Baltic Sea coastal zone in general, differences in
ventilation and retention times between basins (implying differences in
vertical and lateral exchange of water and <inline-formula><mml:math id="M535" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and, hence, variations in
bottom water <inline-formula><mml:math id="M536" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>) may mean that C<inline-formula><mml:math id="M537" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> inputs are more variable than
assumed (see Sect. 4.2.1). Available C<inline-formula><mml:math id="M538" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> in Ingaröfjärden
(Table 2) may be less labile than it is at other sites due to such variations in
hydrology and bottom water <inline-formula><mml:math id="M539" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, with the deep (18 mm) <inline-formula><mml:math id="M540" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
penetration indicating a lower organic matter reactivity and sediment
respiration compared to the other sites. Lower labile C<inline-formula><mml:math id="M541" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> availability
will limit heterotrophic denitrification and may explain why anammox, an
autotrophic process, is more dominant at this site (Table 5; Fig. 7). The
presence of the invasive polychaete <italic>Marenzelleria</italic> (Table 2) may also reduce N removal at
Ingaröfjärden and enhance the efflux and transport of <inline-formula><mml:math id="M542" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>
from sediments (e.g., Hietanen et al., 2007; Bonaglia et al., 2013), although
it should be noted that the impacts of infauna on N cycling are notoriously complex
(Robertson et al., 2019).</p>
</sec>
<sec id="Ch1.S4.SS2.SSS3">
  <label>4.2.3</label><title>Seasonal cycles of N processes</title>
      <p id="d1e8239">Sampling and experiments in this study were carried out in late winter
(March), a period in the Baltic Sea when the water column is well mixed,
with cold and well-oxygenated bottom waters and with persistently low
organic inputs to sediments. However, conditions are of course not static
throughout the annual cycle. Seasonal warming, stratification, phytoplankton
blooms, and consumption and release of nutrients as seen in year-round
monitoring data (Figs. 3d, S1) will have marked effects on sediment
nutrient cycling. Year-round bottom water monitoring data collected at
Bäggensfjärden show that <inline-formula><mml:math id="M543" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> accumulates annually in
bottom waters during the autumn and winter months before being consumed
during spring and summer by phytoplankton blooms (Fig. 3d). Hypoxic bottom
waters develop over summer following bloom collapse and subsequent enhanced
deposition of fresh organic matter and enhanced benthic respiration during
summer and early autumn. Bottom water total N concentrations increase during
summer in connection with the hypoxic events (Fig. 3d) due to enhanced
benthic remineralization and subsequent <inline-formula><mml:math id="M544" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> efflux from
sediments.</p>
      <p id="d1e8268">Increased organic inputs following the spring bloom are likely to lead to
increases in denitrification as the season progresses, as is commonly
observed in coastal sediments (e.g., Piña-Ochoa and Álvarez-Cobelas,
2006; Jäntti et al., 2011; Bonaglia et al., 2014). Thus, a scenario would be assumed for the Stockholm archipelago that is similar to those<?pagebreak page2761?> for other
estuaries, leading to higher rates of denitrification during spring and
early summer and a reduction in autumn and winter as organic inputs subside
(e.g., Bonaglia et al., 2014). Depending on the bloom intensity and organic
matter inputs during spring, increased benthic respiration may lead to more
reduced conditions in surface sediments as bottom water <inline-formula><mml:math id="M545" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> is depleted.
The availability of <inline-formula><mml:math id="M546" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> also declines under hypoxic–anoxic
conditions due to <inline-formula><mml:math id="M547" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> consumption in the water column, lower
<inline-formula><mml:math id="M548" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> penetration and thus a reduced volume of surface sediment where
nitrification can occur and due to the reduced efficiency of nitrification
under low-<inline-formula><mml:math id="M549" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> conditions. The resulting high <inline-formula><mml:math id="M550" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">C</mml:mi><mml:mo>/</mml:mo><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula> conditions may cause
process dominance to shift from N removal by denitrification (or anammox) to
retention by DNRA (e.g., An and Gardner, 2002; Burgin and Hamilton, 2007;
Giblin et al., 2013; Algar and Vallino, 2014; Kraft et al., 2014), as has
been repeatedly demonstrated in field, laboratory and model studies (An and
Gardner, 2002; Algar and Vallino, 2014; Kraft et al., 2014; van den Berg et
al., 2016; Kessler et al., 2018). Thus, under hypoxic conditions in
summer and autumn, DNRA may become the dominant <inline-formula><mml:math id="M551" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>-reducing process,
altering the role of sediments from a <inline-formula><mml:math id="M552" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> sink through <inline-formula><mml:math id="M553" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
production to a source via increased <inline-formula><mml:math id="M554" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> release by DNRA.</p>
      <p id="d1e8393">While we have not assessed the <inline-formula><mml:math id="M555" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>-reducing process over different
seasons at these four sites, we have demonstrated that the microbial metabolic
potential for DNRA is present through the detection of DNRA activity in
incubations at all four sites (Table 5). We suggest that it is highly likely
that DNRA contributes to <inline-formula><mml:math id="M556" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NH</mml:mi><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> efflux at sites during sporadic
bottom water hypoxia. Thus, the capacity for N removal by denitrification
may be reduced during bottom water hypoxia, while the likelihood of N
recycling by DNRA increases as shown in previous Baltic Sea studies (e.g., Jäntti et al., 2011; Jäntti and Hietanen, 2012; Bonaglia et al.,
2014).</p>
</sec>
</sec>
<sec id="Ch1.S4.SS3">
  <label>4.3</label><title>Implications for future water quality in the Stockholm
archipelago </title>
      <p id="d1e8431">Continued decreases in nutrient inputs to the Baltic Sea (Gustafsson et al.,
2012; Andersen et al., 2017) and the Stockholm archipelago (Karlsson et al.,
2010) are likely to reduce phytoplankton growth, leading to reduced organic
matter input into the sediments and, eventually, to higher <inline-formula><mml:math id="M557" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
concentrations in bottom waters.</p>
      <p id="d1e8445">Our results indicate that increases in bottom water <inline-formula><mml:math id="M558" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> would likely
impede the observed present-day P-recycling pattern at the seasonally
hypoxic sites (Fig. 3c), allowing for thicker Fe-oxide-bearing layers and a
larger Fe-bound P pool in the surface sediments (e.g., Slomp et al., 1996) and hence a larger (semipermanent) surface sedimentary P pool. This process
will, however, be delayed due to the prior deposition of organic-rich
sediments which results in a high upward flux of <inline-formula><mml:math id="M559" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> (Table 3), i.e., legacy of hypoxia hindering the formation of Fe  oxides that can bind P.
Because of this legacy effect, we expect that artificial reoxygenation of
bottom waters (e.g., Stigebrandt et al., 2015), if applied in the Stockholm
archipelago, is unlikely to be a long-term effective measure towards
improving the water quality since it does not stimulate permanent P burial
in these sediments and a large impact on the Fe-P pool is hindered by the
high upward <inline-formula><mml:math id="M560" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula> flux. Further nutrient reduction for the Stockholm
archipelago is expected to eventually lead to a reversal from export of P to
the open Baltic Sea to import of P from the open Baltic Sea (Savchuk, 2005;
Almroth-Rosell et al., 2016). This shows that improvement of the water
quality in the Stockholm archipelago is to a great extent coupled to
nutrient management strategies for the entire Baltic Sea.</p>
      <p id="d1e8485">Our results indicate that, in the Stockholm archipelago, N likely goes
through cycles of retention and removal throughout the year in relation to
bottom water hypoxia. N is removed by denitrification during colder months
when <inline-formula><mml:math id="M561" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> availability is high, while DNRA is likely to increase
during hypoxic, <inline-formula><mml:math id="M562" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>-depleted months. Reductions in the frequency
of hypoxic bottom waters will thus reduce the amount of time that sediments
potentially recycle bioavailable N via DNRA, and sediments may be more likely
to act as a net sink for<inline-formula><mml:math id="M563" display="inline"><mml:msub><mml:mi/><mml:mspace linebreak="nobreak" width="0.125em"/></mml:msub></mml:math></inline-formula>N through denitrification on an annual
basis.</p>
      <p id="d1e8522">Continued recovery of the Stockholm archipelago is also likely to lead to
(re)colonization by bioturbating macrofaunal populations that have been
driven out by hypoxic bottom waters (Diaz and Rosenberg, 2008; Voss et al.,
2011). This may enhance temporary P burial and denitrification by sediment
reworking and oxygenation (e.g., Pelegri and Blackburn, 1995; Laverock et
al., 2011; Norkko et al., 2012). While we still lack the predictive
capabilities required to allow us to assess how fauna may influence sediment
biogeochemistry (Griffiths et al., 2017; Robertson et al., 2019), reductions
in nutrient inputs and phytoplankton bloom intensities and eventual
recolonization by fauna at inner archipelago sites will likely sustain
active P and N removal processes. Thus, these coastal sediments are likely
to continue to contribute to removal of P and N as long as we continue to
actively reduce nutrient inputs.</p>
</sec>
</sec>
<sec id="Ch1.S5" sec-type="conclusions">
  <label>5</label><title>Conclusions</title>
      <p id="d1e8535">Seasonally hypoxic sites in the Stockholm archipelago are characterized by
active sedimentary P recycling, because low bottom water <inline-formula><mml:math id="M564" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
concentrations seasonally destabilize Fe oxides that bind P in the surface
sediments. A high upward flux of <inline-formula><mml:math id="M565" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">S</mml:mi></mml:mrow></mml:math></inline-formula>, due to prior deposition of
organic-rich sediments in a low-<inline-formula><mml:math id="M566" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> setting, leads to the formation and
preservation of <inline-formula><mml:math id="M567" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">FeS</mml:mi><mml:mi>x</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> instead of the burial of Fe oxides at these sites. At
the site where bottom waters are well-oxygenated year round, the surface
sedimentary P pool is mainly characterized by P bound to Fe oxides and
organic matter, in a pool that is 5 times larger than that at the most
hypoxic site (<inline-formula><mml:math id="M568" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">0.172</mml:mn></mml:mrow></mml:math></inline-formula> versus <inline-formula><mml:math id="M569" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">0.036</mml:mn></mml:mrow></mml:math></inline-formula> mol P m<inline-formula><mml:math id="M570" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>). At depth, sedimentary P is dominated by P in organic matter and
apatite. Only for the site<?pagebreak page2762?> in the inner archipelago (Strömmen) is there
an indication of sink switching, i.e., authigenic formation of a
vivianite-type Fe(II)-P mineral, at depth. Burial rates of P at our sites in
the Stockholm archipelago are high (0.03–0.3 mol m<inline-formula><mml:math id="M571" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> yr<inline-formula><mml:math id="M572" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) because
of the combined effect of high sediment accumulation rates and high
sedimentary concentrations of P. Benthic denitrification is the primary
<inline-formula><mml:math id="M573" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>-reducing pathway in the Stockholm archipelago, leading to
remediation of <inline-formula><mml:math id="M574" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> introduced from the water column and from
benthic nitrification. Decreases in denitrification rates follow the
gradient of bottom water <inline-formula><mml:math id="M575" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">NO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> and sedimentary C<inline-formula><mml:math id="M576" display="inline"><mml:msub><mml:mi/><mml:mi mathvariant="normal">org</mml:mi></mml:msub></mml:math></inline-formula> content
from the inner archipelago towards the open Baltic Sea from <inline-formula><mml:math id="M577" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">1700</mml:mn></mml:mrow></mml:math></inline-formula> to <inline-formula><mml:math id="M578" display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn mathvariant="normal">100</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M579" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>mol N m<inline-formula><mml:math id="M580" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M581" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>. Combining our
process measurements with available monitoring data, it is likely that N in
the Stockholm archipelago undergoes seasonal cycles of removal through
denitrification and anammox and recycling by DNRA. Further reductions in P and N
inputs are expected to reduce the frequency of hypoxic events. Our results
show that the permanent burial of P is largely independent of bottom water
redox conditions. Increased bottom water oxygen is expected to allow benthic
denitrification to be sustained. Hence, we expect that the sediments in the
Stockholm archipelago will continue to remove part of the P and N loads upon
reduction in such loads.</p>
</sec>

      
      </body>
    <back><notes notes-type="codeavailability"><title>Code availability</title>

      <p id="d1e8747">Monitoring data can be extracted from the SHARK database at
<uri>http://www.smhi.se/klimatdata/oceanografi/havsmiljodata/marina-miljoovervakningsdata</uri> (SMHI, 2019).
All other data, if not directly available from the tables and supplement,
will be made available in the PANGAEA database. In the meantime data are
available upon request to the authors.</p>
  </notes><app-group>
        <supplementary-material position="anchor"><p id="d1e8753">The supplement related to this article is available online at: <inline-supplementary-material xlink:href="https://doi.org/10.5194/bg-17-2745-2020-supplement" xlink:title="pdf">https://doi.org/10.5194/bg-17-2745-2020-supplement</inline-supplementary-material>.</p></supplementary-material>
        </app-group><notes notes-type="authorcontribution"><title>Author contributions</title>

      <p id="d1e8762">NAGMvH, EKR, DJC and CPS designed the research. NAGMvH, EKR, MH, CH, WKL and CPS
carried out the fieldwork. NAGMvH, EKR, MH, LJK and WKL performed the analyses.
All authors interpreted the data. NAGMvH, EKR and CPS wrote the paper with
comments provided by DJC, MH, CH, LJK and WKL.</p>
  </notes><notes notes-type="competinginterests"><title>Competing interests</title>

      <p id="d1e8768">The authors declare that they have no conflict of interest.</p>
  </notes><notes notes-type="sistatement"><title>Special issue statement</title>

      <p id="d1e8774">This article is part of the special issue “Ocean deoxygenation: drivers and consequences – past, present and future (BG/CP/OS inter-journal SI)”. It is not associated with a conference.</p>
  </notes><ack><title>Acknowledgements</title><p id="d1e8780">We thank the captain and crew of the R/V <italic>Electra</italic>, Laurine Burdorf, and Katharina Theopold for their help during the research cruise in the Stockholm
archipelago in March 2017. Arnold van Dijk, Coen Mulder, Thom Claessen,
Floor Wille, Alexander Dorgelo and Joyce Maine (Utrecht University) and
Rosine Cartier (Lund University) are thanked for analytical assistance. We
thank Volker Brüchert (Stockholm University) for lending the whole-core
incubation equipment, Morten Larsen and Bo Thamdrup (University of Southern
Denmark) for allowing us to borrow the gas mixer and for the use of the GC-IRMS
for <inline-formula><mml:math id="M582" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">15</mml:mn></mml:msup><mml:mi mathvariant="normal">N</mml:mi></mml:mrow></mml:math></inline-formula> isotope analyses.</p></ack><notes notes-type="financialsupport"><title>Financial support</title>

      <p id="d1e8800">This research has been supported by the Havs- och vattenmyndigheten (grant no. DNR 1960-2018); the European Research Council and FORMAS (BONUS COCOA project, grant no. 2112932-1); the Dutch Ministry of Education, Culture and Science (under the program of the Netherlands Earth System Science Centre); the Nederlandse Organisatie voor Wetenschappelijk Onderzoek (Vici grant, grant no. 865.13.005); and the European Research Council (Starting Grant, grant no. PHOXY (278364)), the last two grants being awarded to Caroline P. Slomp.</p>
  </notes><notes notes-type="reviewstatement"><title>Review statement</title>

      <p id="d1e8806">This paper was edited by Hermann Bange and reviewed by Emil Rydin, Anders Stigebrandt and one anonymous referee.</p>
  </notes><ref-list>
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    <!--<article-title-html>Removal of phosphorus and nitrogen in sediments of the eutrophic Stockholm archipelago, Baltic Sea</article-title-html>
<abstract-html><p>Coastal systems can act as filters for anthropogenic
nutrient input into marine environments. Here, we assess the processes
controlling the removal of phosphorus (P) and nitrogen (N) for four sites in
the eutrophic Stockholm archipelago. Bottom water concentrations of oxygen
(O<sub>2</sub>) and P are inversely correlated. This is attributed to the seasonal
release of P from iron-oxide-bound (Fe-oxide-bound) P in surface sediments and from
degrading organic matter. The abundant presence of sulfide in the pore water
and its high upward flux towards the sediment surface ( ∼ 4 to
8&thinsp;mmol&thinsp;m<sup>−2</sup>&thinsp;d<sup>−1</sup>), linked to prior deposition of organic-rich
sediments in a low-O<sub>2</sub> setting (<q>legacy of hypoxia</q>), hinder the
formation of a larger Fe-oxide-bound P pool in winter. This is most
pronounced at sites where water column mixing is naturally relatively low
and where low bottom water O<sub>2</sub> concentrations prevail in summer. Burial rates
of P are high at all sites (0.03–0.3&thinsp;mol&thinsp;m<sup>−2</sup>&thinsp;yr<sup>−1</sup>), a combined
result of high sedimentation rates (0.5 to 3.5&thinsp;cm&thinsp;yr<sup>−1</sup>) and high
sedimentary P at depth ( ∼ 30 to 50&thinsp;µmol&thinsp;g<sup>−1</sup>).
Sedimentary P is dominated by Fe-bound P and organic P at the sediment
surface and by organic P, authigenic Ca-P and detrital P at depth. Apart
from one site in the inner archipelago, where a vivianite-type Fe(II)-P
mineral is likely present at depth, there is little evidence for
sink switching of organic or Fe-oxide-bound P to authigenic P minerals.
Denitrification is the major benthic nitrate-reducing process at all sites
(0.09 to 1.7&thinsp;mmol&thinsp;m<sup>−2</sup>&thinsp;d<sup>−1</sup>) with rates decreasing seaward from the
inner to outer archipelago. Our results explain how sediments in this
eutrophic coastal system can remove P through burial at a relatively high
rate, regardless of whether the bottom waters are oxic or (frequently)
hypoxic. Our results suggest that benthic N processes undergo annual cycles
of removal and recycling in response to hypoxic conditions. Further nutrient
load reductions are expected to contribute to the recovery of the eutrophic
Stockholm archipelago from hypoxia. Based on the dominant pathways of P and
N removal identified in this study, it is expected that the sediments will
continue to remove part of the P and N loads.</p></abstract-html>
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