<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE article PUBLIC "-//NLM//DTD Journal Publishing with OASIS Tables v3.0 20080202//EN" "journalpub-oasis3.dtd">
<article xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:oasis="http://docs.oasis-open.org/ns/oasis-exchange/table" xml:lang="en" dtd-version="3.0">
  <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-16-3165-2019</article-id><title-group><article-title>Evidence for microbial iron reduction in the methanic sediments of the
oligotrophic southeastern Mediterranean continental shelf</article-title><alt-title>Evidence for microbial iron reduction in methanic sediments</alt-title>
      </title-group><?xmltex \runningtitle{Evidence for microbial iron reduction in methanic sediments}?><?xmltex \runningauthor{H. Vigderovich et al.}?>
      <contrib-group>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Vigderovich</surname><given-names>Hanni</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2">
          <name><surname>Liang</surname><given-names>Lewen</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff3">
          <name><surname>Herut</surname><given-names>Barak</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2">
          <name><surname>Wang</surname><given-names>Fengping</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1 aff4">
          <name><surname>Wurgaft</surname><given-names>Eyal</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff3">
          <name><surname>Rubin-Blum</surname><given-names>Maxim</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="yes" rid="aff1">
          <name><surname>Sivan</surname><given-names>Orit</given-names></name>
          <email>oritsi@bgu.ac.il</email>
        </contrib>
        <aff id="aff1"><label>1</label><institution>The Department of Geological and Environmental Sciences, Ben-Gurion
University of the Negev, <?xmltex \hack{\break}?>Beer-Sheva, 8410501, Israel</institution>
        </aff>
        <aff id="aff2"><label>2</label><institution>State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai, 200240, P.R. China</institution>
        </aff>
        <aff id="aff3"><label>3</label><institution>Israel Oceanographic and Limnological Research, Haifa, 3108000, Israel</institution>
        </aff>
        <aff id="aff4"><label>a</label><institution>The Department of Marine Chemistry and Geochemistry,
Woods-Hole Oceanographic Institution, <?xmltex \hack{\break}?>Woods-Hole, MA, USA</institution>
        </aff>
      </contrib-group>
      <author-notes><corresp id="corr1">Orit Sivan (oritsi@bgu.ac.il)</corresp></author-notes><pub-date><day>23</day><month>August</month><year>2019</year></pub-date>
      
      <volume>16</volume>
      <issue>16</issue>
      <fpage>3165</fpage><lpage>3181</lpage>
      <history>
        <date date-type="received"><day>21</day><month>January</month><year>2019</year></date>
           <date date-type="rev-request"><day>31</day><month>January</month><year>2019</year></date>
           <date date-type="rev-recd"><day>8</day><month>July</month><year>2019</year></date>
           <date date-type="accepted"><day>9</day><month>July</month><year>2019</year></date>
      </history>
      <permissions>
        <copyright-statement>Copyright: © 2019 Hanni Vigderovich et al.</copyright-statement>
        <copyright-year>2019</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/16/3165/2019/bg-16-3165-2019.html">This article is available from https://bg.copernicus.org/articles/16/3165/2019/bg-16-3165-2019.html</self-uri><self-uri xlink:href="https://bg.copernicus.org/articles/16/3165/2019/bg-16-3165-2019.pdf">The full text article is available as a PDF file from https://bg.copernicus.org/articles/16/3165/2019/bg-16-3165-2019.pdf</self-uri>
      <abstract><title>Abstract</title>
    <p id="d1e159">Dissimilatory iron reduction is probably one of the oldest types of
metabolisms that still participates in important biogeochemical cycles, such
as those of carbon and sulfur. It is one of the more energetically favorable
anaerobic microbial respiration processes and is usually coupled to the
oxidation of organic matter. Traditionally this process is thought to be
limited to the shallow part of the sedimentary column in most aquatic
systems. However, iron reduction has also been observed in the methanic zone
of many marine and freshwater sediments, well below its expected zone and occasionally accompanied by decreases in methane, suggesting a link between
the iron and the methane cycles. Nevertheless, the mechanistic nature of this
link (competition, redox or other) has yet to be established and has not
been studied in oligotrophic shallow marine sediments. In this study we
present combined geochemical and molecular evidences for microbial iron
reduction in the methanic zone of the oligotrophic southeastern (SE)
Mediterranean continental shelf. Geochemical porewater profiles indicate
iron reduction in two zones, the uppermost part of the sediment, and the
deeper zone, in the layer of high methane concentration. Results from a
slurry incubation experiment indicate that the deep methanic iron reduction
is microbially mediated. The sedimentary profiles of microbial abundance and
quantitative PCR (qPCR) of the <italic>mcrA</italic> gene, together with Spearman correlation between
the microbial data and Fe(II) concentrations in the porewater, suggest types
of potential microorganisms that may be involved in the iron reduction via
several potential pathways: <inline-formula><mml:math id="M1" 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:mrow></mml:math></inline-formula> or organic matter oxidation, an active
sulfur cycle, or iron-driven anaerobic oxidation of methane. We suggest that
significant upward migration of methane in the sedimentary column and its
oxidation by sulfate may fuel the microbial activity in the sulfate methane
transition zone (SMTZ). The biomass created by this microbial activity can be used by the iron reducers below, in the methanic zone of the sediments of the SE Mediterranean.</p>
  </abstract>
    </article-meta>
  </front>
<body>
      

<sec id="Ch1.S1" sec-type="intro">
  <label>1</label><title>Introduction</title>
      <?pagebreak page3166?><p id="d1e185">Iron (Fe) is the fourth most abundant element in the Earth's crust. It
appears as elemental Fe, Fe(II) and Fe(III) and has an important
geobiological role in natural systems (e.g., Roden, 2006). Dissimilatory
microbial iron reduction may be one of the first evolutionary metabolisms
and plays a key role in the reductive dissolution of Fe(III) minerals in the
natural environment (Lovley and Phillips, 1986, 1988; Lovley et al., 1987; Lovley, 1997; Weber et al., 2006) and in the
mineralization of organic matter in freshwater sediments (Roden and Wetzel,
2002). It also serves as a redox wheel that drives the biogeochemical cycles
of carbon, nitrogen, sulfur and phosphorous (Li et al., 2012 ; Slomp et al.,
2013; Sivan et al., 2014; Egger et al., 2016; Ettwig et al., 2016; Riedinger
et al., 2017; März et al., 2018).<?xmltex \hack{\newpage}?></p>
      <p id="d1e189">Dissimilatory iron reduction is part of the anaerobic respiration cascade, in
which different organic substrates are used for energy by microorganisms and
oxidized to dissolved inorganic carbon (DIC). This is accomplished by
reduction of electron acceptors, other than oxygen, according to their
availability and energy yield. Denitrification is the first respiratory
process in anoxic sediments, followed by manganese reduction, iron reduction
and then sulfate reduction. Methane (<inline-formula><mml:math id="M2" 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>) production (methanogenesis) by
archaeal methanogens is traditionally considered to be the terminal process
of microbial organic matter mineralization in anoxic environments, after the
other electron acceptors have been exhausted (Froelich et al., 1979). When
the produced methane diffuses away from the methanic layer and meets an
electron acceptor it can be consumed by microbial oxidation (methanotrophy).
In marine sediments anaerobic oxidation of methane (AOM) coupled to sulfate
reduction has been shown to occur (Iversen and Jørgensen, 1985; Hoehler et
al., 1994; Hinrichs et al., 1999; Boetius et al., 2000; Orphan et al., 2001;
Knittel and Boetius, 2009) and was found to consume up to 90 % of the
methane that diffuses upward to the sulfate methane transition zone (SMTZ)
(e.g., Neiwöhner et al., 1998; Valentine, 2002).</p>
      <p id="d1e203">The classical process of dissimilatory iron reduction is coupled to the
oxidation of organic matter (organoclastic iron reduction) (Eq. 1; Lovley,
1991; Lovley et al., 1996). However, iron reduction can be coupled to other
processes as well, such as hydrogen (<inline-formula><mml:math id="M3" 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:mrow></mml:math></inline-formula>) oxidation (hydrogenotrophic
iron reduction) (Eq. 1; Lovley, 1991). Additionally, Fe(III) can be reduced
microbially (and also abiotically) by pyrite oxidation (Eq. 2; Bottrell et
al., 2000), leading to sulfur (S) intermediates, and followed by their
disproportionation to sulfate and sulfide via a “cryptic” sulfur cycle (e.g., Holmkvist et al., 2011).

              <disp-formula specific-use="gather" content-type="numbered"><mml:math id="M4" display="block"><mml:mtable displaystyle="true"><mml:mlabeledtr id="Ch1.E1"><mml:mtd><mml:mtext>1</mml:mtext></mml:mtd><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mtable columnspacing="1em" class="split" rowspacing="0.2ex" displaystyle="true" columnalign="right left"><mml:mtr><mml:mtd/><mml:mtd><mml:mrow><mml:mrow class="chem"><mml:mn mathvariant="normal">2</mml:mn><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:mo>+</mml:mo><mml:mtext>organic matter</mml:mtext><mml:mo>/</mml:mo><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow><mml:mo>/</mml:mo><mml:mtext>humic acids</mml:mtext><mml:mo>→</mml:mo></mml:mrow></mml:mtd></mml:mtr><mml:mtr><mml:mtd/><mml:mtd><mml:mrow><mml:mrow class="chem"><mml:mn mathvariant="normal">2</mml:mn><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:mo>+</mml:mo><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">HCO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow><mml:mo>/</mml:mo><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CO</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow><mml:mo>/</mml:mo><mml:mrow class="chem"><mml:mn mathvariant="normal">2</mml:mn><mml:msup><mml:mi mathvariant="normal">H</mml:mi><mml:mo>+</mml:mo></mml:msup></mml:mrow></mml:mrow></mml:mtd></mml:mtr></mml:mtable></mml:mrow></mml:mtd></mml:mlabeledtr><mml:mlabeledtr id="Ch1.E2"><mml:mtd><mml:mtext>2</mml:mtext></mml:mtd><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><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:mo>+</mml:mo><mml:mrow class="chem"><mml:mn mathvariant="normal">14</mml:mn><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:mo>+</mml:mo><mml:mrow class="chem"><mml:mn mathvariant="normal">8</mml:mn><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow><mml:mo>→</mml:mo><mml:mrow class="chem"><mml:mn mathvariant="normal">15</mml:mn><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:mo>+</mml:mo><mml:mrow class="chem"><mml:mn mathvariant="normal">2</mml:mn><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:mo>+</mml:mo><mml:mrow class="chem"><mml:mn mathvariant="normal">16</mml:mn><mml:msup><mml:mi mathvariant="normal">H</mml:mi><mml:mo>+</mml:mo></mml:msup></mml:mrow></mml:mrow></mml:mtd></mml:mlabeledtr></mml:mtable></mml:math></disp-formula>

          Another recently discovered pathway of iron reduction is by AOM (Eq. 3).
          <disp-formula id="Ch1.E3" content-type="numbered"><label>3</label><mml:math id="M5" display="block"><mml:mrow><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:mo>+</mml:mo><mml:mrow class="chem"><mml:mn mathvariant="normal">8</mml:mn><mml:mi mathvariant="normal">Fe</mml:mi><mml:mo>(</mml:mo><mml:mi mathvariant="normal">OH</mml:mi><mml:msub><mml:mo>)</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow><mml:mo>+</mml:mo><mml:mrow class="chem"><mml:mn mathvariant="normal">15</mml:mn><mml:msup><mml:mi mathvariant="normal">H</mml:mi><mml:mo>+</mml:mo></mml:msup></mml:mrow><mml:mo>→</mml:mo><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">HCO</mml:mi><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow><mml:mo>+</mml:mo><mml:mrow class="chem"><mml:mn mathvariant="normal">8</mml:mn><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:mo>+</mml:mo><mml:mrow class="chem"><mml:mn mathvariant="normal">21</mml:mn><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mrow></mml:math></disp-formula></p>
      <p id="d1e456">This process in marine sediments was revealed using incubation experiments
with marine seep sediments (Beal et al., 2009; Sivan et al., 2014). It was
also suggested to exist in deep sea sediments mainly through geochemical
profiles and their modeling (Sivan et al., 2007; März et al., 2008;
Riedinger et al., 2014), and also in brackish coastal sediments (Slomp et
al., 2013; Segarra et al., 2013; Egger et al., 2014, 2016, 2017;
Rooze et al., 2016). In freshwater environments, it was
suggested to occur in lakes (Crowe et al., 2011; Sivan et al., 2011; Norði et al., 2013), and in denitrifying cultures from sewage, where it was performed by methanogens (Ettwig et al., 2016). Iron-coupled AOM in natural
lake sediments was indicated using isotope porewater depth profiles (Sivan
et al., 2011), rate modeling based on these profiles (Adler et al., 2011),
microbial profiles (Bar-Or et al., 2015) and directly from a set of sediment
slurry incubation experiments (Bar-Or et al., 2017). The few microbial studies
on iron-coupled AOM (mainly in cultures) showed either the involvement of
methanogenic/methanotrophic archaea (Scheller et al., 2016; Ettwig et al.,
2016; Rotaru and Thamdrup, 2016; Cai et al., 2018; Yan et al., 2018) or a
cooperation between methanotrophs and methanogens (Bar-Or et al., 2017).</p>
      <p id="d1e460">Whereas Fe(II) is highly soluble, Fe(III), which is the most abundant species
of iron under natural conditions, appears as low-solubility oxidized
minerals. This makes iron usage a challenge to microorganisms, which need to
respire these iron-oxide minerals, thus rendering many of the iron-oxide
minerals effectively unavailable for reduction and leading to the dominance
of sulfate-reducing bacteria beyond a certain depth. Therefore, it is not
trivial to observe iron reduction below the upper iron reduction depth, in
the methanic zone, where iron-oxides are assumed to be of low reactivity.
Moreover, this type of iron reduction is occasionally accompanied by
depletion in methane concentrations, suggesting a possible link between the
iron and methane cycles. There are three potential mechanisms that can link
the cycles: (1) a competition between methanogens and iron-reducing bacteria
over substrate, (2) a metabolism switch of methanogens from methanogenesis to
iron reduction, and (3) iron-coupled AOM, as mentioned above. Previous
observations in other environments demonstrated the inhibition of
methanogenesis under iron-reducing conditions due to competition between
methanogens and iron-reducing bacteria for the common acetate and hydrogen
substrates (Lovley and Phillips, 1986; Roden and Wetzel, 1996; Conrad, 1999;
Roden, 2003). Different methanogens can also utilize iron directly, by
reducing Fe(III). This was shown in pure cultures with the amorphous Fe(III)
oxyhydroxide (Bond and Lovley, 2002), in pure cultures close to natural
sedimentary conditions (Sivan et al., 2016), in natural lake sediments with
different iron oxides (i.e., amorphous iron, goethite, hematite and magnetite)
(Bar-or et al., 2017), in anoxic ferruginous lake sediment enrichments (Bray
et al., 2018) and in iron-rich clays (Liu et al., 2011; Zhang et al., 2012, 2013).</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T1"><?xmltex \currentcnt{1}?><label>Table 1</label><caption><p id="d1e466">Cores sampling details: dates, water depths and locations.</p></caption><oasis:table frame="topbot"><?xmltex \begin{scaleboxenv}{.92}[.92]?><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="center"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:thead>
       <oasis:row>
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2"/>
         <oasis:entry colname="col3">Water</oasis:entry>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5"/>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Date</oasis:entry>
         <oasis:entry colname="col2">Station</oasis:entry>
         <oasis:entry colname="col3">depth</oasis:entry>
         <oasis:entry colname="col4">Latitude</oasis:entry>
         <oasis:entry colname="col5">Longitude</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2"/>
         <oasis:entry colname="col3">(m)</oasis:entry>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5"/>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">14 August 2013</oasis:entry>
         <oasis:entry colname="col2">PC-5</oasis:entry>
         <oasis:entry colname="col3">87</oasis:entry>
         <oasis:entry colname="col4">32<inline-formula><mml:math id="M6" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>55.47<inline-formula><mml:math id="M7" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">34<inline-formula><mml:math id="M8" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>54.01<inline-formula><mml:math id="M9" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">PC-3</oasis:entry>
         <oasis:entry colname="col3">81</oasis:entry>
         <oasis:entry colname="col4">32<inline-formula><mml:math id="M10" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>55.29<inline-formula><mml:math id="M11" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">34<inline-formula><mml:math id="M12" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>54.14<inline-formula><mml:math id="M13" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">6 February 2014</oasis:entry>
         <oasis:entry colname="col2">PC-3</oasis:entry>
         <oasis:entry colname="col3">82</oasis:entry>
         <oasis:entry colname="col4">32<inline-formula><mml:math id="M14" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>55.30<inline-formula><mml:math id="M15" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">34<inline-formula><mml:math id="M16" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>54.14<inline-formula><mml:math id="M17" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">18 January 2015</oasis:entry>
         <oasis:entry colname="col2">PC-3</oasis:entry>
         <oasis:entry colname="col3">82</oasis:entry>
         <oasis:entry colname="col4">32<inline-formula><mml:math id="M18" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>55.30<inline-formula><mml:math id="M19" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">34<inline-formula><mml:math id="M20" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>54.14<inline-formula><mml:math id="M21" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">9 June 2015</oasis:entry>
         <oasis:entry colname="col2">SG-1</oasis:entry>
         <oasis:entry colname="col3">89</oasis:entry>
         <oasis:entry colname="col4">32<inline-formula><mml:math id="M22" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>57.87<inline-formula><mml:math id="M23" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">34<inline-formula><mml:math id="M24" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>55.30<inline-formula><mml:math id="M25" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">17 September 2015</oasis:entry>
         <oasis:entry colname="col2">SG-1</oasis:entry>
         <oasis:entry colname="col3">84</oasis:entry>
         <oasis:entry colname="col4">32<inline-formula><mml:math id="M26" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>57.91<inline-formula><mml:math id="M27" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">34<inline-formula><mml:math id="M28" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>55.27<inline-formula><mml:math id="M29" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">24 January 2017</oasis:entry>
         <oasis:entry colname="col2">SG-1</oasis:entry>
         <oasis:entry colname="col3">85</oasis:entry>
         <oasis:entry colname="col4">32<inline-formula><mml:math id="M30" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>57.51<inline-formula><mml:math id="M31" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">34<inline-formula><mml:math id="M32" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>55.15<inline-formula><mml:math id="M33" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup><?xmltex \end{scaleboxenv}?></oasis:table></table-wrap>

      <p id="d1e901">Despite the above studies, the nature of the link between the biogeochemical
cycles of iron and methane in the methanic zone of marine sediments, which
creates suitable conditions for iron reduction, has not yet been determined.
Furthermore, this microbial iron reduction in methanic zones has not been
shown in the sediments of oligotrophic shallow marine environments. In this
study we report the observation of microbial iron reduction in the methanic
depth of marine sediments from the oligotrophic southeastern (SE) Mediterranean continental
shelf. The microbial iron reduction is observed by using geochemical
porewater profiles,<?pagebreak page3167?> quantitative PCR (qPCR) profiles (of archaea, bacteria and the
<italic>mcrA</italic> functional gene) and 16S rRNA gene sequencing profiles at three
different stations, combined with a simple slurry incubation experiment from
the methanic zone. The slurries were amended with hematite and magnetite.
Given their low reactivity these are the Fe(III) minerals expected to survive
the sulfide zone (Canfield, 1989; Poulton et al., 2004). Furthermore, these
minerals were found to be active in iron-coupled AOM in lake sediments
(Bar-Or et al., 2017). The profiles, the incubation experiment and the
related microorganisms are discussed in terms of the possible links between
the cycles of iron and methane.</p>
</sec>
<sec id="Ch1.S2">
  <label>2</label><title>Methods</title>
<sec id="Ch1.S2.SS1">
  <label>2.1</label><title>Study site</title>
      <p id="d1e922">The surface water in the Levantine Basin of the SE Mediterranean Sea,
including Israel's continental shelf, is an oligotrophic nutrient-poor marine
system (Herut et al., 2000; Kress and Herut, 2001). The continental shelf
narrows from south to north and is composed of Pliocene–Quaternary
Nile-derived sediments. The sedimentation rate decreases with increasing
distance from the Nile Delta and from the shoreline (Nir, 1984; Sandler and
Herut, 2000). Off the shore of Israel, the sediment accumulation rate is
relatively high at <inline-formula><mml:math id="M34" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 0.1 cm yr<inline-formula><mml:math id="M35" 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> (Bareket et al., 2016).
The bottom seawater along the continental shelf is well oxygenated and
sulfate concentrations at the water–sediment interface are <inline-formula><mml:math id="M36" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 30 mmol L<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> (Sela-Adler et al., 2015). The central and eastern regions of
the Levantine Basin have relatively low total organic carbon (TOC) content
(<inline-formula><mml:math id="M38" display="inline"><mml:mo lspace="0mm">∼</mml:mo></mml:math></inline-formula> 0.1 %–1.4 %; Almogi-Labin et al., 2009; Sela-Adler et
al., 2015; Astrahan et al., 2017) as compared to the Western Mediterranean
Basin and offshore the Nile River delta (1 %–2 %). Along the Egyptian coast, the TOC in surface sediments on the shelf reach maximum values of 1.5 % (Aly Salem et al., 2013). The finding of a free gas zone, which is located from a few meters to tens of meters below the seafloor (i.e., gas front), in seismic profiles within the sediments of the continental shelf of Israel
(Schattner et al., 2012), led to the discovery of biogenic methane formation
at some locations in the shallow sediments (Sela-Adler et al., 2015).</p>
</sec>
<sec id="Ch1.S2.SS2">
  <label>2.2</label><title>Sampling</title>
      <p id="d1e978">Seven sediment cores (<inline-formula><mml:math id="M39" display="inline"><mml:mo lspace="0mm">∼</mml:mo></mml:math></inline-formula> 5–6 m long) were collected using a
Benthos 2175 piston corer, from the undisturbed sediments of the SE
Mediterranean continental shelf of Israel at water depths of 81–89 m from
three stations; SG-1, PC-3 and PC-5 (Fig. 1). The cores were sampled during
cruises of the RV <italic>Shikmona</italic> between 2013 to 2017, and by the RV
<italic>Bat-Galim</italic> on January 2017 (Table 1). The sediment cores were sliced
on board every 25–35 cm within minutes upon retrieval from the seafloor.
This area was previously investigated for other purposes, such as the sulfate
reduction in the SMTZ (Antler et al., 2015; Wurgaft et al., 2019), and the
possibility for methanogenesis (Sela-Adler et al., 2015).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F1"><?xmltex \currentcnt{1}?><label>Figure 1</label><caption><p id="d1e996">A map of the study area with the location of the three
stations that were sampled SG-1, PC-3 and PC-5 (map created by Eyal Wurgaft).</p></caption>
          <?xmltex \igopts{width=156.490157pt}?><graphic xlink:href="https://bg.copernicus.org/articles/16/3165/2019/bg-16-3165-2019-f01.png"/>

        </fig>

      <p id="d1e1005">From each interval, a 2.5 mL of sediment sample was collected and inserted
immediately into an anoxic 10 mL glass bottle filled with 5 mL NaOH 1.5 N for headspace measurements of methane concentration (after Nüsslein et al., 2003). Approximately 3 mL of sediment was sampled every 50 cm for porosity.
In addition, another 2.5 mL sediment sample was taken from each segment of
the cores and transferred into a 20 mL glass bottle filled with a NaCl-saturated solution for <inline-formula><mml:math id="M40" 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:mrow></mml:math></inline-formula> concentration measurements. Sediment samples
from each segment of the cores were centrifuged on board if possible or in
the lab within a day by Sorval centrifuge at 9299 g under 4 <inline-formula><mml:math id="M41" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C and
Ar atmosphere in order to extract porewater for chemical analysis. The
supernatant was filtered (0.22 <inline-formula><mml:math id="M42" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>m) and analyzed for Fe(II), sulfate, sulfide, DIC and the stable carbon isotope composition of the DIC
(<inline-formula><mml:math id="M43" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>). After the porewater extraction, the sediment was analyzed for the content of the different reactive iron minerals.
In addition, a sediment subsample from each segment of the January 2017 core
from Station SG-1 was kept at <inline-formula><mml:math id="M44" 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="M45" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C for molecular analysis. Due
to high water content and movement in the uppermost part of the sediments,
two <inline-formula><mml:math id="M46" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 30 cm sediment cores were also subsampled separately,
using a 0.0625 m<inline-formula><mml:math id="M47" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2<?pagebreak page3168?></mml:mn></mml:msup></mml:math></inline-formula> box corer (Ocean Instruments BX 700 Al) and Perspex
tubes, during the September 2015 and January 2017 cruises. The short cores
were stored at 4 <inline-formula><mml:math id="M48" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C and cut in the lab within 24 h after their
collection, and their results are presented for the top sediment (Fig. 2a–d).</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T2"><?xmltex \currentcnt{2}?><label>Table 2</label><caption><p id="d1e1101">Experimental setup of the slurry incubation experiment.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="2">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="center"/>
     <oasis:thead>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Treatment</oasis:entry>
         <oasis:entry colname="col2">Number of bottles</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">Hematite</oasis:entry>
         <oasis:entry colname="col2">2</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Magnetite</oasis:entry>
         <oasis:entry colname="col2">2</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Hematite <inline-formula><mml:math id="M49" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> <inline-formula><mml:math id="M50" 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:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col2">2</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Magnetite <inline-formula><mml:math id="M51" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> <inline-formula><mml:math id="M52" 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:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col2">2</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Killed <inline-formula><mml:math id="M53" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> hematite <inline-formula><mml:math id="M54" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> <inline-formula><mml:math id="M55" 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:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col2">2</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Killed <inline-formula><mml:math id="M56" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> magnetite <inline-formula><mml:math id="M57" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> <inline-formula><mml:math id="M58" 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:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col2">1</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

</sec>
<sec id="Ch1.S2.SS3">
  <label>2.3</label><title>Slurry incubation experiment</title>
      <p id="d1e1273">The experimental setup (Table 2) consisted of 11 bottles with sediment from
the methanic zone (265–285 cm depth) from Station SG-1, where iron reduction was apparent from the porewater profiles (Fig. 2d). Prior to the beginning of the experiment, sediment from the designated depth had been homogenized in
an anoxic bag under <inline-formula><mml:math id="M59" 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> atmosphere. It was then transferred under anoxic conditions to a 250 mL glass bottle with the addition of synthetic seawater
without sulfate to reach a 1 : 1 sediment : water slurry ratio for a 3-month
incubation period. After the incubation period the slurry was subdivided
anoxically to the 11 experiment bottles (60 mL each), and synthetic seawater
was added for a final sediment : water ratio of 1 : 3. The bottles were sealed with
a crimped cap and were flushed with <inline-formula><mml:math id="M60" 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> for 5 min, shaken vigorously
and flushed again, (repeated 3 times). Three experimental bottles were
autoclaved twice to serve as “killed” control for the experiment. The
experimental bottles were amended with 1.6 g L<inline-formula><mml:math id="M61" 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 hematite
(<inline-formula><mml:math id="M62" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>) or 2.3 g L<inline-formula><mml:math id="M63" 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 magnetite (<inline-formula><mml:math id="M64" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>) to reach
Fe(III) final concentration of 10 mmol L<inline-formula><mml:math id="M65" 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>. The three killed bottles
were amended with the iron oxides after they cooled down to room temperature.
<inline-formula><mml:math id="M66" 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:mrow></mml:math></inline-formula> was added to some treatments to test its potential as an electron
donor. A total of 1 mL of <inline-formula><mml:math id="M67" 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:mrow></mml:math></inline-formula> was injected by a gas-tight syringe to the three
killed bottles, to two bottles with the addition of hematite and to two
bottles with the addition of magnetite (to reach a final concentration of
<inline-formula><mml:math id="M68" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 4 % of the head space volume). The experimental bottles
were sampled several times for dissolved Fe(II) concentrations during the 14 d experiment period.<?xmltex \hack{\newpage}?></p>
</sec>
<sec id="Ch1.S2.SS4">
  <label>2.4</label><title>Analytical methods</title>
<sec id="Ch1.S2.SS4.SSS1">
  <label>2.4.1</label><title>Porewater analyses</title>
      <p id="d1e1412">Methane concentrations in the porewater were analyzed with a focus gas
chromatograph (GC; Thermo) equipped with a flame ionization detector (FID) with a detection limit
of 50 <inline-formula><mml:math id="M69" 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="M70" 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>. To calculate the methane concentrations the
sediment porosity was considered. Porosity was determined by drying wet
sediment samples at 60<inline-formula><mml:math id="M71" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> until there was no weight loss
(<inline-formula><mml:math id="M72" display="inline"><mml:mo lspace="0mm">∼</mml:mo></mml:math></inline-formula> 48 h). It was calculated as the weight loss from the initial
weight of the samples. <inline-formula><mml:math id="M73" 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:mrow></mml:math></inline-formula> concentrations were analyzed in a reducing
compound photometer gas chromatograph (RCP-GC; Peak Laboratories). Dissolved
Fe(II) concentrations were measured using the ferrozine method (Stookey,
1970) by a spectrophotometer at 562 nm wavelength with a detection limit of 1 <inline-formula><mml:math id="M74" 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="M75" 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>. Sulfide was measured using the Cline (1969) method by a spectrophotometer at 665 nm wavelength with a detection limit of 1 <inline-formula><mml:math id="M76" 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="M77" 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>. Total sulfur concentrations were measured in an inductively coupled
plasma atomic emission spectrometer (ICP-AES), from Perkin Elmer Optima 3300, with
an analytical error of <inline-formula><mml:math id="M78" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula>1 % (average deviations from repeated
measurements of a seawater standard). Since sulfide was not detected in any
of the sediment cores, the total sulfur concentration in each porewater
sample was assumed to be the sulfate concentration of that sample. The
<inline-formula><mml:math id="M79" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values were measured on a DeltaV Advantage
Thermo<sup>©</sup> isotope-ratio mass-spectrometer (IRMS) at a precision of
<inline-formula><mml:math id="M80" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula>0.1 ‰. Results are reported versus VPDB
standard. Porewater profiles of dissolved total sulfur, <inline-formula><mml:math id="M81" 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="M82" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>, Fe(II) and <inline-formula><mml:math id="M83" 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:mrow></mml:math></inline-formula> were produced during the study, and all of them are presented (Fig. 2). For each profile where duplicate samples were taken the error bar is that of the average deviation of the mean of the duplicates; in cases where only single samples were taken, it is the analytical error (if larger than the symbol).</p>
</sec>
<sec id="Ch1.S2.SS4.SSS2">
  <label>2.4.2</label><title>Sediment analysis</title>
      <p id="d1e1583">Reactive Fe(III) in the sediments was measured according to the Poulton and
Canfield (2005) definition and sequential extraction procedure. The different
reactive iron minerals were separated to (1) carbonate-associated Fe
(<inline-formula><mml:math id="M84" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">carb</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) (i.e., siderite and ankerite), (2) easily reducible oxides
(<inline-formula><mml:math id="M85" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mi mathvariant="normal">ox</mml:mi><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula>) (i.e., ferrihydrite and lepidocrocite), (3) reducible oxides
(<inline-formula><mml:math id="M86" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mi mathvariant="normal">ox</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula>) (i.e., hematite, goethite and akageneite) and (4) magnetite
(<inline-formula><mml:math id="M87" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">mag</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>). Sediment samples were dried at 60<inline-formula><mml:math id="M88" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, and then
approximately 0.6 g dry sediment was inserted to a centrifuge tube with 10 mL
of a specific extractant at every stage under atmospheric conditions and
constant agitation (Table 3). The fluids were separated from the sediment by
centrifugation and removed from the tube with a Pasteur pipette after every
extraction stage. At the end of each extraction stage, the extractant was
transferred to a 15 mL falcon tube with 0.1 mL ascorbic acid and 0.1 mL
ferrozine solution to reduce all the<?pagebreak page3169?> Fe(III) to Fe(II) and fix it, and then it
was measured spectrophotometrically. The results presented as “total reactive
Fe(III)” are the sum of <inline-formula><mml:math id="M89" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mi mathvariant="normal">ox</mml:mi><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M90" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mi mathvariant="normal">ox</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M91" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">mag</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>. The profile of
pyrite (<inline-formula><mml:math id="M92" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">py</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) was taken from Wurgaft et al. (2019).</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T3" specific-use="star"><?xmltex \currentcnt{3}?><label>Table 3</label><caption><p id="d1e1699">Summary of reactive iron extraction procedure (after
Poulton and Canfield, 2005).</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="justify" colwidth="85.358268pt"/>
     <oasis:colspec colnum="3" colname="col3" align="justify" colwidth="56.905512pt"/>
     <oasis:colspec colnum="4" colname="col4" align="justify" colwidth="113.811024pt"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:thead>
       <oasis:row>
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2"/>
         <oasis:entry colname="col3">Analyzed</oasis:entry>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5">Shaking</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Extractant</oasis:entry>
         <oasis:entry colname="col2">Target compounds</oasis:entry>
         <oasis:entry colname="col3">species</oasis:entry>
         <oasis:entry colname="col4">Formula</oasis:entry>
         <oasis:entry colname="col5">time (h)</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">Magnesium chloride</oasis:entry>
         <oasis:entry colname="col2">Ion-exchangeable Fe(II)</oasis:entry>
         <oasis:entry colname="col3">Adsorbed ferrous iron</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M93" 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></oasis:entry>
         <oasis:entry colname="col5">2</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Sodium acetate</oasis:entry>
         <oasis:entry colname="col2">Iron carbonates</oasis:entry>
         <oasis:entry colname="col3">Siderite, <?xmltex \hack{\hfill\break}?>Ankerite</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M94" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">FeCO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> <?xmltex \hack{\hfill\break}?> <inline-formula><mml:math id="M95" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">Ca</mml:mi><mml:mo>(</mml:mo><mml:msup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup><mml:mo>,</mml:mo><mml:msup><mml:mi mathvariant="normal">Mg</mml:mi><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup><mml:mo>,</mml:mo><mml:msup><mml:mi mathvariant="normal">Mn</mml:mi><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo><mml:mo>(</mml:mo><mml:msub><mml:mi mathvariant="normal">CO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub><mml:msub><mml:mo>)</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">24</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Hydroxylamine hydrochloride</oasis:entry>
         <oasis:entry colname="col2">“Easily reducible”<?xmltex \hack{\hfill\break}?>iron (hydr)oxides</oasis:entry>
         <oasis:entry colname="col3">Ferrihydrite, Lepidicrocite</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M96" display="inline"><mml:mrow class="chem"><mml:msubsup><mml:mi mathvariant="normal">Fe</mml:mi><mml:mn mathvariant="normal">2</mml:mn><mml:mrow><mml:mn mathvariant="normal">3</mml:mn><mml:mo>+</mml:mo></mml:mrow></mml:msubsup><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub><mml:mo>×</mml:mo><mml:mn mathvariant="normal">0.5</mml:mn><mml:mo>(</mml:mo><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> <?xmltex \hack{\hfill\break}?> <inline-formula><mml:math id="M97" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="italic">γ</mml:mi><mml:mo>-</mml:mo><mml:mi mathvariant="normal">FeOOH</mml:mi></mml:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">48</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Sodium dithionite</oasis:entry>
         <oasis:entry colname="col2">“Reducible” oxides</oasis:entry>
         <oasis:entry colname="col3">Goethite, <?xmltex \hack{\hfill\break}?>Hematite, <?xmltex \hack{\hfill\break}?>Akageneite</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M98" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="italic">α</mml:mi><mml:mo>-</mml:mo><mml:mi mathvariant="normal">FeOOH</mml:mi></mml:mrow></mml:math></inline-formula> <?xmltex \hack{\hfill\break}?> <inline-formula><mml:math id="M99" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> <?xmltex \hack{\hfill\break}?> <inline-formula><mml:math id="M100" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="italic">β</mml:mi><mml:mo>-</mml:mo><mml:mi mathvariant="normal">FeOOH</mml:mi></mml:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">2</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Ammonium oxalate</oasis:entry>
         <oasis:entry colname="col2">Poorly crystalline</oasis:entry>
         <oasis:entry colname="col3">Magnetite</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M101" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col5">6</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

      <?xmltex \floatpos{t}?><fig id="Ch1.F2" specific-use="star"><?xmltex \currentcnt{2}?><label>Figure 2</label><caption><p id="d1e2036">Geochemical porewater profiles of total S, <inline-formula><mml:math id="M102" 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="M103" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>, dissolved Fe(II), <inline-formula><mml:math id="M104" 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:mrow></mml:math></inline-formula> and extractable Fe
fractions from sediment cores collected at the two stations: SG-1 <bold>(a–f)</bold> and
PC-3 <bold>(g–l)</bold> in the SE Mediterranean. The profiles are divided roughly into three zones according to the dominant processes: upper microbial iron and sulfate reduction, sulfate-methane transition zone (SMTZ), and the methanic zone at the deep part. The dashed line in the <inline-formula><mml:math id="M105" 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> graph at SG-1 station
represents the <inline-formula><mml:math id="M106" 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> saturation value in the porewater (Sela-Adler et
al., 2015). The following extractable Fe fraction profiles of stations SG-1
<bold>(f)</bold> and PC-3 <bold>(l)</bold> are from the September and January 2015 cruise
(respectively): <inline-formula><mml:math id="M107" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">carb</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> (circle), <inline-formula><mml:math id="M108" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mi mathvariant="normal">ox</mml:mi><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> (square) <inline-formula><mml:math id="M109" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mi mathvariant="normal">ox</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> (triangle), <inline-formula><mml:math id="M110" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">mag</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> (inverted triangle), <inline-formula><mml:math id="M111" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">py</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> (diamond) (Wurgaft et al., 2019) and total reactive iron (hexagon). The error bars for <inline-formula><mml:math id="M112" 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> are presented where duplicate sediment
samples were collected. The error bars for Fe(II), <inline-formula><mml:math id="M113" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>
and <inline-formula><mml:math id="M114" 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:mrow></mml:math></inline-formula> are presented where measurements from the same sample were
repeated at least twice. The analytical errors were too small to be
displayed.</p></caption>
            <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://bg.copernicus.org/articles/16/3165/2019/bg-16-3165-2019-f02.png"/>

          </fig>

</sec>
<sec id="Ch1.S2.SS4.SSS3">
  <label>2.4.3</label><title>Quantitative PCR and 16S rRNA gene V4 amplicon pyrosequencing</title>
      <p id="d1e2226">DNA was extracted from the sediment core of Station SG-1 from January 2017
using a Power Soil DNA Kit (MoBio Laboratories, Inc., Carlsbad, CA, USA)
following manufacturer's instructions. Copy numbers of selected genes were
estimated with qPCR as described previously (Niu et al.,
2017) using specific primers: Uni519f/Arc908R and bac341f/519r for archaeal
and bacterial 16S rRNA genes, respectively, and mlas/mcrA-rev for the
<italic>mcrA</italic> gene, which encodes the <inline-formula><mml:math id="M115" display="inline"><mml:mi mathvariant="italic">α</mml:mi></mml:math></inline-formula>-subunit of methyl-coenzyme M
reductase. The amplification efficiency was 94.5 %, 106.3 % and 92.4 %
for the archaeal 16S rRNA, bacterial 16S rRNA and the <italic>mcrA</italic> gene,
respectively (the respective <inline-formula><mml:math id="M116" display="inline"><mml:mrow><mml:msup><mml:mi>R</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula> of the standard curve was 0.998, 0.998
and 0.995).</p>
      <p id="d1e2253">The V4 regions of bacterial and archaeal 16S rRNA genes were amplified using
barcoded 515FB/806RB primers (Walters et al., 2015) and Arch519/Arch806
primers (Song et al., 2013), respectively. PCR mixture contained 6–10 ng
total DNA, 5 <inline-formula><mml:math id="M117" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>L <inline-formula><mml:math id="M118" display="inline"><mml:mrow><mml:mn mathvariant="normal">10</mml:mn><mml:mo>×</mml:mo></mml:mrow></mml:math></inline-formula> Ex Taq buffer, 4 <inline-formula><mml:math id="M119" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>L 2.5 mmol L<inline-formula><mml:math id="M120" 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>
dNTP mix, 1 <inline-formula><mml:math id="M121" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>L of each primer, 0.25 <inline-formula><mml:math id="M122" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>L Ex Taq polymerase (Ex-Taq; TaKaRa, Dalian, China) and 5 <inline-formula><mml:math id="M123" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>L bovine serum albumin (25 mg mL<inline-formula><mml:math id="M124" 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 a total volume of 50 <inline-formula><mml:math id="M125" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>L. DNA was sequenced as <inline-formula><mml:math id="M126" display="inline"><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>×</mml:mo><mml:mn mathvariant="normal">150</mml:mn></mml:mrow></mml:math></inline-formula> base pair reads using
an Illumina MiSeq platform (Illumina, USA). Sequence quality assessments,
chimera detection and down-stream phylogenetic analyses were conducted in
QIIME (Caporaso et al., 2010). Taxonomical assignments for each OTU were
performed in QIIME using the BLAST method and the SILVA128 reference
database. A total of 24 056 to 132 042 high-quality sequences were obtained per sample,
with the proportion of high-quality sequence versus total sequence between
81.97 % and 99.89 %. A Spearman correlation was performed using the online
calculator (<uri>http://www.sthda.com/english/rsthda/correlation.php</uri>, last access: 20 October 2018) to test the
relevance of microbial abundance and communities with Fe(II) concentration
along the depth of the sediment core from 185 cm to the bottom 575 cm, which is the methanic zone of the sediment core according to the geochemical
profile (see the results below).</p>
</sec>
</sec>
</sec>
<sec id="Ch1.S3">
  <label>3</label><title>Results</title>
<sec id="Ch1.S3.SS1">
  <label>3.1</label><title>Geochemical profiles</title>
      <p id="d1e2371">Geochemical porewater profiles of several sediment cores from the three
stations (SG-1, PC-3 and PC-5; Fig. 1, Table 1) were produced in order to
characterize the iron reduction process in the methanic zone of the SE
Mediterranean continental shelf and to identify its potential sources. The
porewater profiles at Station SG-1 (Fig. 2a) show complete depletion of
total sulfur at approximately 150 cm depth in all cores. Sulfide
concentrations were below the detection limit in all cores, indicating that
the total sulfur is mostly sulfate. The methane concentrations in the
porewater (Fig. 2b) show an increase with depth immediately after the
consumption of sulfate. The maximum methane concentration was approximately
10 mmol L<inline-formula><mml:math id="M127" 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 <inline-formula><mml:math id="M128" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 140 cm depth in June 2015. The other
methane depth profiles show an increase in the concentrations to
approximately 2 mmol L<inline-formula><mml:math id="M129" 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 then leveling off throughout the bottom of
the cores (<inline-formula><mml:math id="M130" display="inline"><mml:mo lspace="0mm">∼</mml:mo></mml:math></inline-formula> 600 cm). Detected dissolved Fe(II) concentrations
(Fig. 2d) were found in the upper iron reduction zone (between 30 and 90 cm
depth), and a second peak was found in the deeper part of the sediment, at
the methanic zone (below 180 cm depth). Maximum dissolved Fe(II)
concentrations reached 84 <inline-formula><mml:math id="M131" 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="M132" 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 the upper iron reduction
zone of the sediments and 65 <inline-formula><mml:math id="M133" 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="M134" 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 the methanic zone. The <inline-formula><mml:math id="M135" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values (Fig. 2c) were the lowest (<inline-formula><mml:math id="M136" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">35</mml:mn></mml:mrow></mml:math></inline-formula> ‰), as expected at the SMTZ depth, and the highest in the
methanic zone. <inline-formula><mml:math id="M137" 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:mrow></mml:math></inline-formula> concentrations (Fig. 2e) decreased to a minimum of
0.017 <inline-formula><mml:math id="M138" 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="M139" 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 155 cm depth and then increased to a maximum of 0.147 <inline-formula><mml:math id="M140" 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="M141" 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 485 cm depth.</p>
      <p id="d1e2531">Porewater profiles from Station PC-3 (Fig. 2g–l) show similar patterns to
Station SG-1 on all three sampling dates, but with lower methane
concentrations. Total sulfur (Fig. 2g) was completely depleted within the
upper 300 cm depth. Sulfide concentrations were below the detection limit at
this station as well. Methane profiles show an increase in methane
concentration immediately after the consumption of sulfate. The maximum
methane concentration (Fig. 2h) reached 0.8 mmol L<inline-formula><mml:math id="M142" 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 450 cm depth in the core from August 2013. The dissolved Fe(II) profiles (Fig. 2j) show two peaks at
this station as well, one in the upper part of the sediment with a maximum
value of 32 <inline-formula><mml:math id="M143" 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="M144" 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 177 cm depth, and another one with
a maximum value of 64 <inline-formula><mml:math id="M145" 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="M146" 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 390 cm depth at the methanic
depth. The <inline-formula><mml:math id="M147" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values (Fig. 2i) decreased from
approximately <inline-formula><mml:math id="M148" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">10</mml:mn></mml:mrow></mml:math></inline-formula> ‰ at the water–sediment interface to
<inline-formula><mml:math id="M149" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:math></inline-formula> ‰ at the SMTZ. Below that zone there was an increase
in <inline-formula><mml:math id="M150" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values to about <inline-formula><mml:math id="M151" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula> ‰ due to
methanogenesis. <inline-formula><mml:math id="M152" 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:mrow></mml:math></inline-formula> concentrations (Fig. 2k) remained around 2 <inline-formula><mml:math id="M153" 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="M154" 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> along the core. The three deviating points that do not fit the clear pattern are attributed to an analytical or sampling error.</p>
      <p id="d1e2681">Porewater profiles from the core collected at Station PC-5 (Fig. S1)
resemble the profiles of Station PC-3. Total sulfur was depleted at
approximately 300 cm, and methane concentrations increased below that depth
to 0.3 mmol L<inline-formula><mml:math id="M155" 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>. The Fe(II) profile shows two peaks in this core as
well, one in the upper sediment of 20 <inline-formula><mml:math id="M156" display="inline"><mml:mrow class="unit"><mml:mi mathvariant="normal">µ</mml:mi></mml:mrow></mml:math></inline-formula>M at 150 cm depth and the
second of 30 <inline-formula><mml:math id="M157" 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="M158" 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 the methanic zone. The <inline-formula><mml:math id="M159" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> value decreased from <inline-formula><mml:math id="M160" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula> ‰ at the
water–sediment interface to <inline-formula><mml:math id="M161" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">25</mml:mn></mml:mrow></mml:math></inline-formula> ‰ at the SMTZ, and below
that depth increased to <inline-formula><mml:math id="M162" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">17</mml:mn></mml:mrow></mml:math></inline-formula> ‰ in the methanic zone.</p>
      <?pagebreak page3171?><p id="d1e2771">In addition to the dissolved constituents' profiles, reactive iron minerals
were extracted from the sediment collected in 2015, and
operationally defined iron mineral fraction profiles from Stations SG-1 and
PC-3 were produced (Fig. 2f and l). In Station SG-1 there appears to be a
slight variability in the content of the minerals (Fig. 2f). The <inline-formula><mml:math id="M163" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">carb</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>
content in the upper part of the sediment was 0.22 dry wt %, increased to <inline-formula><mml:math id="M164" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 0.45 dry wt % at 103 cm depth and then remained constant.
The <inline-formula><mml:math id="M165" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mi mathvariant="normal">ox</mml:mi><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> content was 0.49 dry wt % in the upper part of the
sediment, peaked at 203 cm depth to 0.64 dry wt % and then decreased to 0.50 dry wt % at the bottom of the core. The <inline-formula><mml:math id="M166" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mi mathvariant="normal">ox</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> content was 2.15 dry wt % in the upper part of the sediment, decreased to 1.03 dry wt %
at 312 cm depth and then increased to 1.55 dry wt % at 427 cm depth.
<inline-formula><mml:math id="M167" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">mag</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> content was 0.34 dry wt % in the upper part of the sediment,
decreased to 0.32 dry wt % at 153 cm depth, increased to 0.35 at 253 cm
depth, decreased to 0.23 dry wt % at 312 cm depth and increased again to
0.35 dry wt % at the bottom. A pyrite content profile from Station SG-1
was also produced (Wurgaft et al., 2019) from the September 2015 cruise and
shows two peaks: the uppermost of 1.10 wt % at 153 cm depth, and the lower
one of 1.80 wt % at 312 cm depth. The total reactive Fe(III) oxide
profile showed a general decrease from 3.00 dry wt % at 13 cm depth to
2.27 dry wt % at 507 cm depth, with two minimum peaks of 2.42 dry wt %
at 103 cm and of 1.88 dry wt % at 312 cm.</p>
      <p id="d1e2832">In Station PC-3 there appeared to be smaller changes in the different iron
mineral fractions with depth (Fig. 2l). The <inline-formula><mml:math id="M168" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">carb</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> content in the upper part of the sediment was 0.50 dry wt % and reached 0.69 dry wt % in the deep sediment. The <inline-formula><mml:math id="M169" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mi mathvariant="normal">ox</mml:mi><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> content was approximately 1.00 dry wt % throughout the sediment column. The <inline-formula><mml:math id="M170" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mrow><mml:mi mathvariant="normal">ox</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> content was 0.78 dry wt % in the upper part of the sediment, increased to 0.89 dry wt % at 167 cm
depth and then decreased to 0.76 dry wt % at 495 cm depth. <inline-formula><mml:math id="M171" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">Fe</mml:mi><mml:mi mathvariant="normal">mag</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> content was 0.83 dry wt % in the upper part of the sediment, increased to 0.89 dry wt % at 167 cm and then decreased again to 0.75 dry wt % at 495 cm depth. The total reactive Fe(III) oxide content varied between 2.10 dry wt % (at 167 cm depth) and 1.76 dry wt % (at 137 cm depth).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F3"><?xmltex \currentcnt{3}?><label>Figure 3</label><caption><p id="d1e2887">Sedimentary depth profiles of bacterial and archaeal 16S
rRNA and <italic>mcrA</italic> functional genes of station SG-1 from January 2017, divided to
three zones (as described in Fig. 2). Triplicates were produced from each
sample with error bars smaller than the symbols displayed.</p></caption>
          <?xmltex \igopts{width=142.26378pt}?><graphic xlink:href="https://bg.copernicus.org/articles/16/3165/2019/bg-16-3165-2019-f03.png"/>

        </fig>

<?xmltex \hack{\newpage}?>
</sec>
</sec>
<sec id="Ch1.S4">
  <label>4</label><title>Abundance and diversity of bacteria and archaea</title>
      <p id="d1e2910">The qPCR of bacterial and archaeal 16S rRNA genes from the SG-1 core
(collected on January 2017) revealed an abundance of bacterial genes between
1.46 and <inline-formula><mml:math id="M172" display="inline"><mml:mrow><mml:mn mathvariant="normal">9.45</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn mathvariant="normal">10</mml:mn><mml:mn mathvariant="normal">6</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula> copies per gram of wet sediment, while that of
archaea was between <inline-formula><mml:math id="M173" display="inline"><mml:mrow><mml:mn mathvariant="normal">8.15</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn mathvariant="normal">10</mml:mn><mml:mn mathvariant="normal">5</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M174" display="inline"><mml:mrow><mml:mn mathvariant="normal">2.25</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn mathvariant="normal">10</mml:mn><mml:mn mathvariant="normal">7</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula> copies
per gram of wet sediment (Fig. 3). The abundance of bacteria and archaea decreased
gradually in the top 95 cm, increased sharply at 125 cm depth within the
SMTZ, remained relatively stable with high abundance at 185–245 cm (the
top layer of the methanic zone) and then decreased. Notably, the abundance
of both bacteria and archaea peaked within the methanic zone at 245 cm in
correspondence with the Fe(II) concentration peak. However, it is not feasible to
compare the abundance of archaea and bacteria by this method due to bias
caused by the PCR primers used (Buongiorno et al., 2017). The abundance of
the <italic>mcrA</italic> gene (Fig. 3) increased sharply from the surface layer to
the SMTZ, peaked at 155 cm and remained stable at 155–245 cm, indicative
of active anaerobic methane metabolism in the SMTZ and an active methanic
zone. Spearman correlation test (Table S2) shows that the abundance of the
bacteria and archaea 16S rRNA genes and <italic>mcrA</italic> genes correlated with
Fe(II) concentration in the methanic zone, where <italic>mcrA</italic> gene
correlated the most significantly (<inline-formula><mml:math id="M175" display="inline"><mml:mrow><mml:mi>r</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.5429</mml:mn></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M176" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value <inline-formula><mml:math id="M177" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 0.04789).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F4" specific-use="star"><?xmltex \currentcnt{4}?><label>Figure 4</label><caption><p id="d1e2996">Phylum level classification of bacterial <bold>(a)</bold> and archaeal <bold>(b)</bold> diversity in the sediments of Station SG-1 from January 2017.</p></caption>
        <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://bg.copernicus.org/articles/16/3165/2019/bg-16-3165-2019-f04.png"/>

      </fig>

      <?pagebreak page3172?><p id="d1e3011">Illumina sequencing of the 16S rRNA gene revealed diverse bacterial and
archaeal communities throughout the SG-1 core (Fig. 4). Although no clear
plateau was observed on the species rarefaction curve for the current sequencing
depth (Fig. S2), Shannon diversity indices reached stable values, indicating
that those sequences well covered the diversity of bacterial and archaeal
populations in the samples (Fig. S3). Shannon index, based on 16S rRNA gene
sequences, shows higher diversity in the top layers of the sediment along
with similar values through the core using the bacterial primers, while for
sequences using archaeal primers, the values varied in different layers
(Table S1). The bacterial sequences were affiliated with the following phyla:
Planctomycetes (25.7 %), Chloroflexi (23.2 %), Proteobacteria
(12.9 %), Deinococcus–Thermus (9.9 %), Acidobacteria (3.5 %),
Aminicenantes (3.3 %), Spirochaetes (2.3 %), Deferribacteres (1.7 %), Elusimicrobia (1.6 %), Aerophobetes (1.6 %), Nitrospirae (1.4 %), Firmicutes (1.4 %), Actinobacteria (1.4 %), TM6 (Dependentiae) (1.2 %), Marinimicrobia (SAR406 clade) (1.0 %) and other taxa with less than 1 % of the bacterial communities (Fig. 4a). Bathyarchaeota were the predominant archaea in all the sediment layers, based on the high relative abundance of their 16S rRNA gene sequences (91.0 %). The remaining archaeal phyla comprised Euryarchaeota (3.2 %), Thaumarchaeota (2.4 %), Lokiarchaeota (1.0 %) and other phyla with less than 1 % of the archaeal communities (Fig. 4b). Spearman correlation analysis (Table S2) revealed that uncultured SBR1093 (<inline-formula><mml:math id="M178" display="inline"><mml:mrow><mml:mi>r</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.6176</mml:mn></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M179" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value <inline-formula><mml:math id="M180" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 0.01859) from bacterial
candidate phylum SBR1093, subgroup 26 of Acidobacteria (<inline-formula><mml:math id="M181" display="inline"><mml:mrow><mml:mi>r</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.5841</mml:mn></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M182" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value <inline-formula><mml:math id="M183" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 0.02828), the uncultured bacterium from TK10 class of Chloroflexi phylum
(<inline-formula><mml:math id="M184" display="inline"><mml:mrow><mml:mi>r</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.5297</mml:mn></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M185" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value <inline-formula><mml:math id="M186" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 0.0544) and uncultured Bathyarchaeota sp.
(archaea) (<inline-formula><mml:math id="M187" display="inline"><mml:mrow><mml:mi>r</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.5516</mml:mn></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M188" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value <inline-formula><mml:math id="M189" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 0.04388) correlated significantly with Fe(II) concentration.</p>
<sec id="Ch1.S4.SS1">
  <label>4.1</label><title>Incubation experiment</title>
      <p id="d1e3128">Sediment from the observed deep iron reduction zone of Station SG-1 from the
January 2017 core was used for a simple short-term (couple of weeks) slurry
incubation experiment in order to characterize the iron reduction process in
the methanic zone. Hematite and magnetite, which were expected to survive the
sulfate zone, and were shown to be a source for AOM in lake sediments, were
added to the slurries. Indeed, the operationally defined iron mineral
fractions profiles (Fig. 2f) confirm that hematite and magnetite were
abundant in the methanic zone in this core.</p>
      <p id="d1e3131">The results of the experiment are shown in Fig. 5. Dissolved Fe(II)
concentrations show a significant increase from 11 <inline-formula><mml:math id="M190" 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="M191" 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> to
approximately 90 <inline-formula><mml:math id="M192" 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="M193" 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> during the first 3 d in all the experimental bottles, except for the killed bottles, implying that the
reduction is microbially mediated. Another observation was that the
microorganisms were able to reduce both hematite and magnetite to the same
extent. In addition, no difference in the Fe(II) concentrations between
bottles with and without the addition of <inline-formula><mml:math id="M194" 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:mrow></mml:math></inline-formula> was observed.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F5"><?xmltex \currentcnt{5}?><label>Figure 5</label><caption><p id="d1e3187">Dissolved Fe(II) results of the sediment slurry
incubation experiment. The sediment was collected from Station SG-1 on
January 2017 from sediment depth of 265–285 cm. The error bars were smaller
than the symbols displayed.</p></caption>
          <?xmltex \igopts{width=236.157874pt}?><graphic xlink:href="https://bg.copernicus.org/articles/16/3165/2019/bg-16-3165-2019-f05.png"/>

        </fig>

</sec>
</sec>
<?pagebreak page3173?><sec id="Ch1.S5">
  <label>5</label><title>Discussion</title>
<sec id="Ch1.S5.SS1">
  <label>5.1</label><title>General</title>
      <p id="d1e3213">This study was performed in the SE Mediterranean (Fig. 1) above the area of a
recently discovered gas front (Schattner et al., 2012). The investigated
methane was found in the shallow sediments (<inline-formula><mml:math id="M195" display="inline"><mml:mo lspace="0mm">∼</mml:mo></mml:math></inline-formula> 1–5 m deep) and
seems biogenic based on its low <inline-formula><mml:math id="M196" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mrow><mml:msub><mml:mi mathvariant="normal">CH</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> values and
high C<inline-formula><mml:math id="M197" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">1</mml:mn></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M198" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> C<inline-formula><mml:math id="M199" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> ratio (Sela-Adler et al., 2015). Station SG-1 is located at the center of the gas front area, while Stations PC-3 and PC-5 are located at the edges, and indeed methane related processes were more intensive at Station SG-1. The source of this gas front is not certain, but it was speculated to be terrestrial organic matter (Schattner et al., 2012). Our results suggest that there are two sources for methane in the shallow sediment: the first is from migration of methane from this gas front area (Wurgaft et al., 2019),
and the second is from in situ methane formation, where the relative
contribution of each source is currently unknown. In situ
methanogenesis in the shallow shelf sediments is evident by the geochemical
profiles of <inline-formula><mml:math id="M200" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M201" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mrow><mml:msub><mml:mi mathvariant="normal">CH</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> (Sela-Adler et al., 2015), by the microbial population abundance profile and by the functional <italic>mcrA</italic> gene profile (Figs. 3 and 4, further discussed below). The TOC content in the methanic zone is <inline-formula><mml:math id="M202" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 0.8 % at Station SG-1 and <inline-formula><mml:math id="M203" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 1 % at Station PC-3 (Sela-Adler et al.,
2015), and these levels are known to be able to support in situ
methanogenesis (Sivan et al., 2007).</p>
      <p id="d1e3322">The comparison between the sites show that methane reaches the highest
concentrations at Station SG-1 (up to the saturation level; Sela-Adler et
al., 2015), specifically in the June 2015 profile (Fig. 2b). This leads to
intensive AOM by sulfate at the SMTZ, causing it to occur at shallower depth
and to produce lower <inline-formula><mml:math id="M204" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values than the other two
stations. The relation between the upward fluxes of methane, the SMT depth
and the <inline-formula><mml:math id="M205" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values fit previous studies (e.g., Sivan et
al., 2007). The higher methane concentrations in the June 2015 profile is
presumably due to intensive migration of methane from the deeper sediments,
and/or more intensive methane production at the exact location of the core
collected at that time. The <inline-formula><mml:math id="M206" 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:mrow></mml:math></inline-formula> concentrations at Station SG-1 (Fig. 2e) were lower by 2 orders of magnitude than the concentrations at Station PC-3 (Fig. 2k), perhaps due to more intensive hydrogen-consuming processes at Station SG-1 (i.e., sulfate reduction, methanogenesis, iron reduction; Conrad
et al., 1986; Lovley, 1991). Dissolved Fe(II) porewater profiles (Fig. 2d
and j) show some variability between the cores within the same station,
probably as a result of environmental variations.</p>
      <p id="d1e3368">Despite the porewater profiles' variability between the stations, they show a
resemblance in their trends. All geochemical porewater and iron mineral
fraction profiles suggest that the sediments in this area of the SE
Mediterranean shelf can be classified into three general depth zones (Fig. 2): zone 1 is the upper part of the sediment, where the classical iron
reduction occurs, probably coupled to organic matter oxidation, with sulfate
reduction below it; zone 2 is the SMT depth, where methane starts to
increase, sulfate is completely depleted, and Fe(II) (Fig. 2d and j) is
either present in low concentrations or absent (probably due to the
precipitation of iron-sulfide minerals). In addition, the <inline-formula><mml:math id="M207" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values are the lowest in this zone, as expected from the
intensive AOM process there, which uses the isotopically light carbon of the
methane as a carbon source with small fractionation (Whiticar, 1999; Holler
et al., 2009); zone 3 is the methanic zone, where methane concentrations
increased to the highest values in all stations, as did the <inline-formula><mml:math id="M208" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi mathvariant="italic">δ</mml:mi><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:msub><mml:mi mathvariant="normal">C</mml:mi><mml:mi mathvariant="normal">DIC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> since the carbon source for the methane comes mainly from <inline-formula><mml:math id="M209" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CO</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, leaving the residual DIC heavier by about 60 ‰ (Whiticar, 1999; Conrad, 2005). In this zone, local maxima of Fe(II) concentrations in the porewater were found in all cores, indicating
reduction of iron oxides. The slurry experiment results show only a slight
increase in Fe(II) concentrations in the killed bottles compared to their
significant increase in the non-killed bottles, inferring that the iron
reduction in zone 3 is microbial (Fig. 5).</p>
</sec>
<sec id="Ch1.S5.SS2">
  <label>5.2</label><title>Potential methanic iron reduction pathways</title>
      <p id="d1e3422">This observed intensive iron reduction in the methanic sediments is the first
discovered in the SE Mediterranean shelf. The phenomenon of iron reduction in
the methanic depth has been observed before in other marine provinces
(Jørgensen et al., 2004; März et al., 2008; Slomp et al., 2013;
Riedinger et al., 2014; Treude et al., 2014; Oni et al., 2015; Egger et al.,
2016). Yet, the type of link to the methane cycle is not well understood.
Usually, iron reduction is coupled to oxidation of organic matter (Lovley and
Phillips, 1988) and is performed by iron-reducing bacteria, which is probably
the case in zone 1. It is, however, questionable whether this also<?pagebreak page3174?> stands for zone 3
and, if not, what process is responsible for the iron reduction at this depth
and its relation to methane. The iron reduction in zone 3 can occur
potentially via four pathways: (1) oxidation of organic matter arriving from
the SMTZ, where it is produced by the microorganisms that live there and
benefit from the upward migrating methane, (2) oxidation of the methane
itself, (3) <inline-formula><mml:math id="M210" 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:mrow></mml:math></inline-formula> oxidation or (4) oxidation of sulfur species through a
cryptic cycle.</p>
      <p id="d1e3436">The oligotrophic nature of the water column in the studied area would suggest
that intensive bacterial iron reduction coupled with the oxidation of organic
matter in zone 3 is less likely. Nevertheless, we observe high methane
concentrations in zone 3 in all three stations, where part of it is from
upward migration. This indicates that regardless of the surface water
oligotrophic nature, the TOC substrate may be enough to sustain all the
microbial activity and to take part in the iron reduction process in the
methanic zone. This is possibly due to biomass production in the SMTZ (i.e., the microbial community including anaerobic methanotrophs (ANMEs) and sulfate-reducing bacteria;
Boetius et al., 2000) and its rapid use in the methanic zone (so the TOC
content remains still low).</p>
      <p id="d1e3439">The importance of the methane flux as a carbon source that supports the deep
microbial community in zone 2 and 3 in the sediments of the SE Mediterranean
can be illustrated by comparing the organic carbon flux from the photic zone,
with the flux of organic carbon that is oxidized by sulfate in the
porewater. Using traps, Moutin and Raimbault (2002) estimated an export flux
of <inline-formula><mml:math id="M211" display="inline"><mml:mrow><mml:mn mathvariant="normal">7.4</mml:mn><mml:mo>±</mml:mo><mml:mn mathvariant="normal">6.3</mml:mn></mml:mrow></mml:math></inline-formula> mg C m<inline-formula><mml:math id="M212" 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="M213" 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>, which leaves the photic zone.
However, Wurgaft et al. (2019) estimated that the flux of DIC toward the SMTZ
from sulfate reduction is equivalent to <inline-formula><mml:math id="M214" display="inline"><mml:mrow><mml:mn mathvariant="normal">8</mml:mn><mml:mo>±</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:math></inline-formula> mg C m<inline-formula><mml:math id="M215" 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="M216" 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>.
Whereas the difference between the two fluxes is statistically insignificant,
it should be noted that the flux of organic material that survives aerobic
oxidation in the water column and the upper part of the sediment column, as
well as anaerobic oxidation by other electron acceptors with a higher energy
yield (Froelich et al., 1979; Emerson et al., 1980), is likely to be
substantially smaller than the flux measured by Moutin and Raimbault (2002).
Therefore, it is unlikely that export flux from the photic zone constitutes
the sole source of carbon to the SMTZ. Wurgaft et al. (2019) suggested that
“external” methane originates in deeper portions of the sediments and
provides an important source of carbon to the SMTZ in Station SG-1. Such
fluxes of “external” methane are common along continental margin sediments
(e.g., Milkov and Sassen, 2002; Milkov, 2004; Zhang and Lanoil, 2004; Paull et
al., 2008; Fischer et al., 2013). Here, we suggest that this supply of
methane leads to intensive sulfate-mediated AOM in the SMTZ, and that this
intensive process and biomass may serve as an additional substrate that
“fuels” zone 3, activating the iron-oxides.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F6" specific-use="star"><?xmltex \currentcnt{6}?><label>Figure 6</label><caption><p id="d1e3518">The relationship between dissolved Fe(II) concentrations
and methane concentrations in zone 3 of <bold>(a)</bold> Station SG-1 and <bold>(b)</bold> Station
PC-3. An inverse association is observed between the two species, suggesting
a relationship of competition or iron-coupled AOM.</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://bg.copernicus.org/articles/16/3165/2019/bg-16-3165-2019-f06.png"/>

        </fig>

      <p id="d1e3533">The recently discovered iron-coupled AOM process (Eq. 3) is the second
potential process that can involve iron-oxide reduction in the deep methanic
zone (Sivan et al., 2011: Segarra et al., 2013; Slomp et al., 2013; Riedinger
et al., 2014; Egger et al., 2014, 2017; Rooze et al., 2016;
Bar-Or et al., 2017). Fe(III) as an electron acceptor for AOM provides a
greater free energy yield than sulfate (Zehnder and Brock, 1980), and its
global importance was emphasized (Sivan et al., 2011, 2014; Segarra et al., 2013). Two of the main environmental conditions for
iron-coupled AOM to occur are high dissolved methane concentrations and
abundant reducible iron oxides (Riedinger et al., 2005,
2014; Egger et al., 2017). Thus, from our profiles it seems that AOM could be
a valid option, considering the high methane concentrations and the high
sedimentation rates (0.1 cm yr<inline-formula><mml:math id="M217" 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>; Bareket et al., 2016), which allow the iron oxides to survive the sulfidic zone and reach the methanic zone
(Riedinger et al., 2005, 2014; Egger et al., 2017). This
can also be inferred from Fig. 6, where some association was observed
between the dissolved Fe(II) concentrations and the methane concentrations in
zone 3. It seems that at high concentrations of Fe(II), methane
concentrations are low and vice versa. This could be a result of iron-coupled
AOM that uses methane to reduce Fe(III)-oxides, releasing dissolved Fe(II) to
the porewater. It can also suggest a type of competitive relationship
between methanogenesis and microbial iron reduction, or a microbial population
switching from methanogenesis to iron reduction metabolism (e.g., Sivan et
al., 2016). It should be noted that our experiment was not designed to test
AOM due to its short timescale of a few weeks, and hence another long experiment
with the addition of the <inline-formula><mml:math id="M218" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">13</mml:mn></mml:msup><mml:mi mathvariant="normal">C</mml:mi></mml:mrow></mml:math></inline-formula>-labeled methane will be needed to shed more light on this association.</p>
      <p id="d1e3560">The third potential process that can be coupled to iron reduction in the
methanic zone is <inline-formula><mml:math id="M219" 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:mrow></mml:math></inline-formula> oxidation. <inline-formula><mml:math id="M220" 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:mrow></mml:math></inline-formula> is an important intermediate in anoxic aquatic sediments. In this type of environment, it is produced mainly by fermentation of organic matter (Chen et al., 2006) and can be involved in
different microbial processes where each process would need a certain amount
of <inline-formula><mml:math id="M221" 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:mrow></mml:math></inline-formula> in order to occur (Lovley and Goodwin, 1988). The <inline-formula><mml:math id="M222" 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:mrow></mml:math></inline-formula> levels at Stations SG-1 and PC-3 (Fig. 2e and k) are relatively high in comparison to other marine environments (Lilley et al., 1982; Novelli et al., 1987), suggesting that there is enough <inline-formula><mml:math id="M223" 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:mrow></mml:math></inline-formula> to sustain the iron reduction process. The relatively high <inline-formula><mml:math id="M224" 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:mrow></mml:math></inline-formula> concentrations at these stations could be explained by the dominance of <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:mrow></mml:math></inline-formula> production processes (i.e., fermentation; Chen et al., 2006) compared to <inline-formula><mml:math id="M226" 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:mrow></mml:math></inline-formula>-consuming processes (i.e., sulfate reduction, methanogenesis, iron reduction; Conrad et al., 1986;
Lovley, 1991). At Station PC-3, the <inline-formula><mml:math id="M227" 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:mrow></mml:math></inline-formula> concentrations (Fig. 2k) are
constant in zone 3, this suggest that in addition to being produced, <inline-formula><mml:math id="M228" 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:mrow></mml:math></inline-formula> is consumed as well. At Station SG-1 (Fig. 2e) there is a maximum peak in zone 3, indicating that there is either more <inline-formula><mml:math id="M229" 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:mrow></mml:math></inline-formula> production or less <inline-formula><mml:math id="M230" 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:mrow></mml:math></inline-formula> consumption in this zone compared to zone 2. This is reasonable considering the intensive microbial activity in zone 2. The decrease in the <inline-formula><mml:math id="M231" 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:mrow></mml:math></inline-formula> concentrations below the peak suggests that <inline-formula><mml:math id="M232" 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:mrow></mml:math></inline-formula> consuming processes are intensive in this zone. The <inline-formula><mml:math id="M233" 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:mrow></mml:math></inline-formula> involvement was tested by injecting 1 mL of this gas into the experimental bottles in the<?pagebreak page3175?> methanic iron reduction process (Fig. 5). We observed that the increase in the Fe(II) concentration was similar in the bottles with a <inline-formula><mml:math id="M234" 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:mrow></mml:math></inline-formula> addition compared to the bottles without <inline-formula><mml:math id="M235" 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:mrow></mml:math></inline-formula>. This could mean that either there is enough <inline-formula><mml:math id="M236" 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:mrow></mml:math></inline-formula> in the sediments as it is, as implied by the <inline-formula><mml:math id="M237" 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:mrow></mml:math></inline-formula> porewater profiles, or that at the methanic depth <inline-formula><mml:math id="M238" 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:mrow></mml:math></inline-formula> is not involved in the iron reduction process.</p>
      <p id="d1e3786">The fourth potential way to reduce iron in zone 3 is by an active sulfur
cycle. The pyrite profile supports this possibility by showing two peaks,
the uppermost in zone 2 of <inline-formula><mml:math id="M239" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 1 wt % and the other in zone 3 of
<inline-formula><mml:math id="M240" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 2 wt % at about 300 cm depth (Fig. 2f). The peak at 300 cm
depth indicates a possible active sulfur cycle, even though sulfate is already
undetected at 200 cm. Thus, a possible scenario is that Fe(III) is reduced by pyrite oxidation (Eq. 3) (Bottrell et al., 2000), which triggers the
“cryptic” sulfur cycle, as observed in other marine sediments (Holmkvist et
al., 2011; Brunner et al., 2016; Egger et al., 2016). In this cycle,
elemental sulfur, and eventually by disproportionation also sulfide and
sulfate, is produced. The sulfide reacts with iron-oxide and precipitates as
FeS or as pyrite (<inline-formula><mml:math id="M241" 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>) (Holmkvist et al., 2011). The sulfate can
inhibit methanogenesis (Mountfort et al., 1980; Mountfort and Asher, 1981),
which can result in the enhancement of the iron reduction process due to
competition for the substrate with the methanogenesis process. Another indication
for an active sulfur cryptic cycle comes from the 16S rRNA sequencing
analysis (Fig. 4), which shows that Proteobacteria, a potential sulfur-related bacteria phylum, is one of the most abundant phyla in the sediments.
Moreover, the increase in the abundance of Sva0485 order of the
Deltaproteobacteria class, a known sulfate reducer (Tan et al., 2019), with
depth supports an active sulfur cycle in zone 3 as well.</p>
</sec>
<sec id="Ch1.S5.SS3">
  <label>5.3</label><title>Potential microbial players</title>
      <p id="d1e3822">Our data profiles and incubations indicate that the observed iron reduction
in the methanic zone of the SE Mediterranean shelf is performed by microbial
activity. The microbial results show first that the abundances of the
bacteria and archaea (Fig. 4) are typical to oligotrophic marine sediments
(e.g., South China Sea that contains <inline-formula><mml:math id="M242" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 0.5 %–1 % TOC, Yu et
al., 2018). Second, even though potential bacterial iron reducers, such as
<italic>Alicyclobacillus</italic>, <italic>Sulfobacillusin</italic>,
<italic>Desulfotomaculum</italic> genera (Firmicutes), <italic>Acidiphilium</italic>
(Alphaproteobacteria), <italic>Desulfobulbus</italic>, <italic>Desulfuromonas</italic>,
<italic>Geobacter</italic>, <italic>Geothermobacter</italic>, <italic>Anaeromyxobacter</italic>
(Deltaproteobacteria) and <italic>Shewanella</italic> (Gammaproteobacteria) (Weber et
al., 2006) comprise less than 0.1 % of bacteria detected in the methanic
zone (from 185 cm and below), it appears that both the microbial abundance
and the Fe(II) concentration peaked in this zone. Cultivation efforts
indicated that archaeal methanogens may also play a role in iron reduction
within sediments (Sivan et al., 2016). Moreover, the relative abundance of
methane-metabolizing archaea was shown to correlate with Fe(II)
concentrations in Helgoland muds from the North Sea, where microbial
abundance and the Fe(II) concentrations peaked in the methanic zone (Oni et
al., 2015), similarly to the results found in the SE Mediterranean sediments.
It is possible that methane-metabolizing archaea were involved in the iron
reduction in the SE Mediterranean sediments, as the highest <italic>mcrA</italic>
gene copies per gram of wet sediment were detected in the SMTZ and at the top of
the methanic zone (Fig. 3) where the Fe(II) concentrations are high (Fig. 2d). Methanotrophs, such as ANMEs, were found to be involved in iron-coupled AOM in marine and freshwater cultures (Scheller et al., 2016; McGlynn et al., 2015; Ettwig et al., 2016; Cai et al., 2018). ANMEs were found here with relatively low frequencies (ANME1, below 1 % in most samples, circa 5 % in the 185 cm layer), and their role in iron reduction within the SE Mediterranean sediments remains to be tested.</p>
      <p id="d1e3867">In our study, Spearman correlation analysis at Station SG-1 (Table S2)
revealed that bacterial phyla SBR1093 (candidate phylum), Acidobacteria and
Chloroflexi, as well as archaeal phylum Bathyarchaeota, showed significant
positive correlation with a Fe(II) concentration in the methanic<?pagebreak page3176?> zone. The
candidate phylum SBR1093 was first identified in phosphate-removing
activated sludge from a sequencing batch reactor (Bond et al., 1995) and is
often detected in a short-chain fatty-acid-rich environment such as
wastewater treatment, and marine sediments (Wang et al., 2014). It was
thought to be capable of growing autotrophically, but the metabolic
capabilities related to iron reduction remain unclear. Strains of
Acidobacteria and Chloroflexi phyla were found to be capable of iron
reduction (Kawaichi et al., 2013; Kulichevskaya et al., 2014). In addition,
members of Acidobacteria were found in iron-coupled AOM enrichment (Beal et
al., 2009). The metabolic properties of subgroup 26 from Acidobacteria and
TK10 Class of Chloroflexi are still not known. Bathyarchaeota are globally
distributed and account for a considerable fraction of the archaeal
communities in the marine sediments, particularly in the Mediterranean
Pleistocene sapropels (Coolen et al., 2002; Zhou et al., 2018). While
Bathyarchaeota have diverse metabolic capabilities (Lloyd et al., 2013; Meng
et al., 2014; Evans et al., 2015; He et al., 2016; Yu et al., 2018; Feng et
al., 2019), their role in iron reduction warrants further studies, as
suggested from their high abundance here. Therefore, iron reduction and
methane cycling within the deep methanic zone may be facilitated by an
interplay among bacterial and archaeal groups, whose physiology and functions
need further investigation.</p>
</sec>
</sec>
<sec id="Ch1.S6" sec-type="conclusions">
  <label>6</label><title>Conclusions</title>
      <p id="d1e3879">Our study used combined geochemical and microbial profiles together with a
slurry incubation experiment to show microbial iron reduction in methanic
sediments, and the potential microbial population performing this reduction.
The Spearman analysis points out several potential microbial players (both
bacterial and archaeal) that correlate to the dissolved Fe(II) profiles (e.g., Bathyarchaeota, Acidobacteria and Chloroflexi). Moreover, our study
emphasizes that this iron reduction in the methanic zone can occur even in
sediments of oligotrophic seas such as the SE Mediterranean. We suggest that
the availability of iron minerals for reduction is linked to intensive upward
fluxes of methane and high sulfate-AOM rates that may produce available
biomass and/or hydrogen, which fuel deeper microbial processes. The deep iron
reduction may also be linked to a cryptic sulfur cycle and iron-coupled AOM.</p>
</sec>

      
      </body>
    <back><notes notes-type="dataavailability"><title>Data availability</title>

      <p id="d1e3886">Data is available at <uri>http://oritsivansgroup.weebly.com/uploads/2/5/5/0/25503858/supplementary_data_for_vigderovich_et_al_2019.xlsx</uri> (last access: 5 August 2019, Vigderovich et al., 2019).</p>
  </notes><app-group>
        <supplementary-material position="anchor"><p id="d1e3892">The supplement related to this article is available online at: <inline-supplementary-material xlink:href="https://doi.org/10.5194/bg-16-3165-2019-supplement" xlink:title="pdf">https://doi.org/10.5194/bg-16-3165-2019-supplement</inline-supplementary-material>.<?xmltex \hack{\newpage}?></p></supplementary-material>
        </app-group><notes notes-type="authorcontribution"><title>Author contributions</title>

      <p id="d1e3902">HV and OS designed research. BH and OS were the PIs of the cruises. HV,
EW and LL performed research and analyzed the data. HV, OS, BH, FW,
MRB and LL synthesized the data and wrote the paper.</p>
  </notes><notes notes-type="competinginterests"><title>Competing interests</title>

      <p id="d1e3908">The authors declare that they have no conflict of interest.</p>
  </notes><ack><title>Acknowledgements</title><p id="d1e3914">We thank the captain and crew of the RV <italic>Shikmona</italic> and RV <italic>Bat Galim</italic> from the
Israel Oceanographic and Limnological Research for all their help during
field sampling. Many thanks to Efrat Eliani-Russak for her technical assistance
in the lab and to Valeria Boyko for her help with the reactive iron speciation
procedure. We also thank all of Orit Sivan's lab members for their help.
We would also like to thank the anonymous reviewers for their helpful and
constructive comments.</p></ack><notes notes-type="financialsupport"><title>Financial support</title>

      <p id="d1e3925">This study was supported by the joint grant of Israel
Science Foundation and the National Natural Science Foundation of China
(ISF-NSFC) (grant numbers 31661143022 (FW) and 2561/16 (OS)). Funding was
provided to Hanni Vigderovich by the Mediterranean Sea Research Center of
Israel.</p>
  </notes><notes notes-type="reviewstatement"><title>Review statement</title>

      <p id="d1e3931">This paper was edited by Jack Middelburg and reviewed by two
anonymous referees.</p>
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    <!--<article-title-html>Evidence for microbial iron reduction in the methanic sediments of the oligotrophic southeastern Mediterranean continental shelf</article-title-html>
<abstract-html><p>Dissimilatory iron reduction is probably one of the oldest types of
metabolisms that still participates in important biogeochemical cycles, such
as those of carbon and sulfur. It is one of the more energetically favorable
anaerobic microbial respiration processes and is usually coupled to the
oxidation of organic matter. Traditionally this process is thought to be
limited to the shallow part of the sedimentary column in most aquatic
systems. However, iron reduction has also been observed in the methanic zone
of many marine and freshwater sediments, well below its expected zone and occasionally accompanied by decreases in methane, suggesting a link between
the iron and the methane cycles. Nevertheless, the mechanistic nature of this
link (competition, redox or other) has yet to be established and has not
been studied in oligotrophic shallow marine sediments. In this study we
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reduction in the methanic zone of the oligotrophic southeastern (SE)
Mediterranean continental shelf. Geochemical porewater profiles indicate
iron reduction in two zones, the uppermost part of the sediment, and the
deeper zone, in the layer of high methane concentration. Results from a
slurry incubation experiment indicate that the deep methanic iron reduction
is microbially mediated. The sedimentary profiles of microbial abundance and
quantitative PCR (qPCR) of the <i>mcrA</i> gene, together with Spearman correlation between
the microbial data and Fe(II) concentrations in the porewater, suggest types
of potential microorganisms that may be involved in the iron reduction via
several potential pathways: H<sub>2</sub> or organic matter oxidation, an active
sulfur cycle, or iron-driven anaerobic oxidation of methane. We suggest that
significant upward migration of methane in the sedimentary column and its
oxidation by sulfate may fuel the microbial activity in the sulfate methane
transition zone (SMTZ). The biomass created by this microbial activity can be used by the iron reducers below, in the methanic zone of the sediments of the SE Mediterranean.</p></abstract-html>
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