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<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" dtd-version="3.0"><?xmltex \makeatother\@nolinetrue\makeatletter?>
  <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-14-2831-2017</article-id><title-group><article-title>Influence of infrastructure on water quality and greenhouse gas dynamics in
urban streams</article-title>
      </title-group><?xmltex \runningtitle{Greenhouse gas dynamics in urban streams}?><?xmltex \runningauthor{R.~M.~Smith et al.}?>
      <contrib-group>
        <contrib contrib-type="author" corresp="yes" rid="aff1 aff2">
          <name><surname>Smith</surname><given-names>Rose M.</given-names></name>
          <email>smithrose24@gmail.com</email>
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2">
          <name><surname>Kaushal</surname><given-names>Sujay S.</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff3">
          <name><surname>Beaulieu</surname><given-names>Jake J.</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff4 aff5">
          <name><surname>Pennino</surname><given-names>Michael J.</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff5">
          <name><surname>Welty</surname><given-names>Claire</given-names></name>
          
        </contrib>
        <aff id="aff1"><label>1</label><institution>Department of Biology, University of Utah, Salt Lake City, UT 84112,
USA</institution>
        </aff>
        <aff id="aff2"><label>2</label><institution>Department of Geology, Earth System Science Interdisciplinary
Center, University of Maryland, <?xmltex \hack{\newline}?>  College Park, MD 20742, USA</institution>
        </aff>
        <aff id="aff3"><label>3</label><institution>US Environmental Protection Agency, Office of Research and
Development, National Risk <?xmltex \hack{\newline}?> Management Research
Laboratory, Cincinnati, OH 45220, USA</institution>
        </aff>
        <aff id="aff4"><label>4</label><institution>US Environmental Protection Agency National Health and Environmental
Effects Research Lab, <?xmltex \hack{\newline}?> Corvallis, OR 97333, USA</institution>
        </aff>
        <aff id="aff5"><label>5</label><institution>Department of Chemical, Biochemical, and Environmental Engineering,
Center for Urban <?xmltex \hack{\newline}?> Environmental Research and
Education, University of Maryland Baltimore County, Baltimore,<?xmltex \hack{\newline}?>   MD 21250,
USA</institution>
        </aff>
      </contrib-group>
      <author-notes><corresp id="corr1">Rose M. Smith (smithrose24@gmail.com)</corresp></author-notes><pub-date><day>13</day><month>June</month><year>2017</year></pub-date>
      
      <volume>14</volume>
      <issue>11</issue>
      <fpage>2831</fpage><lpage>2849</lpage>
      <history>
        <date date-type="received"><day>8</day><month>September</month><year>2016</year></date>
           <date date-type="rev-request"><day>15</day><month>September</month><year>2016</year></date>
           <date date-type="rev-recd"><day>11</day><month>March</month><year>2017</year></date>
           <date date-type="accepted"><day>18</day><month>April</month><year>2017</year></date>
      </history>
      <permissions>
<license license-type="open-access">
<license-p>This work is licensed under the Creative Commons Attribution 3.0 Unported License. To view a copy of this licence, visit <ext-link ext-link-type="uri" xlink:href="https://creativecommons.org/licenses/by/3.0/">https://creativecommons.org/licenses/by/3.0/</ext-link></license-p>
</license>
</permissions><self-uri xlink:href="https://bg.copernicus.org/articles/14/2831/2017/bg-14-2831-2017.html">This article is available from https://bg.copernicus.org/articles/14/2831/2017/bg-14-2831-2017.html</self-uri>
<self-uri xlink:href="https://bg.copernicus.org/articles/14/2831/2017/bg-14-2831-2017.pdf">The full text article is available as a PDF file from https://bg.copernicus.org/articles/14/2831/2017/bg-14-2831-2017.pdf</self-uri>


      <abstract>
    <p>Streams and rivers are significant sources of nitrous oxide
(N<inline-formula><mml:math id="M1" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O), carbon dioxide (CO<inline-formula><mml:math id="M2" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, and methane (CH<inline-formula><mml:math id="M3" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> globally, and
watershed management can alter greenhouse gas (GHG) emissions from streams.
We hypothesized that urban infrastructure significantly alters downstream
water quality and contributes to variability in GHG saturation and emissions.
We measured gas saturation and estimated emission rates in headwaters of two
urban stream networks (Red Run and Dead Run) of the Baltimore Ecosystem Study
Long-Term Ecological Research
project. We identified four combinations of
stormwater and sanitary infrastructure present in these watersheds,
including: (1) stream burial, (2) inline stormwater wetlands, (3) riparian/floodplain preservation, and (4) septic systems. We selected two first-order
catchments in each of these categories and measured GHG concentrations,
emissions, and dissolved inorganic and organic carbon (DIC and DOC) and nutrient
concentrations biweekly for 1 year. From a water quality perspective, the
DOC : NO<inline-formula><mml:math id="M4" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>  ratio of streamwater was significantly different across
infrastructure categories. Multiple linear regressions including DOC : NO<inline-formula><mml:math id="M5" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> and other variables (dissolved oxygen, DO; total dissolved nitrogen, TDN;
and temperature) explained much of
the statistical variation in nitrous oxide (N<inline-formula><mml:math id="M6" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, <inline-formula><mml:math id="M7" display="inline"><mml:mrow><mml:msup><mml:mi>r</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>=</mml:mo></mml:mrow></mml:math></inline-formula> 0.78), carbon
dioxide (CO<inline-formula><mml:math id="M8" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, <inline-formula><mml:math id="M9" display="inline"><mml:mrow><mml:msup><mml:mi>r</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>=</mml:mo></mml:mrow></mml:math></inline-formula> 0.78), and methane (CH<inline-formula><mml:math id="M10" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, <inline-formula><mml:math id="M11" display="inline"><mml:mrow><mml:msup><mml:mi>r</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>=</mml:mo></mml:mrow></mml:math></inline-formula> 0.50)
saturation in stream water. We measured N<inline-formula><mml:math id="M12" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation ratios, which
were among the highest reported in the literature for streams, ranging from
1.1 to 47 across all sites and dates. N<inline-formula><mml:math id="M13" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation ratios were highest
in streams draining watersheds with septic systems and strongly correlated
with TDN. The CO<inline-formula><mml:math id="M14" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> saturation ratio was highly correlated with the N<inline-formula><mml:math id="M15" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
saturation ratio across all sites and dates, and the CO<inline-formula><mml:math id="M16" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> saturation ratio
ranged from 1.1 to 73. CH<inline-formula><mml:math id="M17" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> was always supersaturated, with saturation
ratios ranging from 3.0 to  2157. Longitudinal surveys extending form
headwaters to third-order outlets of Red Run and Dead Run took place in
spring and fall. Linear regressions of these data yielded significant negative
relationships between each gas with increasing watershed size as well as
consistent relationships between solutes (TDN or DOC, and DOC : TDN ratio) and
gas saturation. Despite a decline in gas saturation between the headwaters
and stream outlet, streams remained saturated with GHGs throughout the
drainage network, suggesting that urban streams are continuous sources of
CO<inline-formula><mml:math id="M18" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math id="M19" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, and N<inline-formula><mml:math id="M20" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O. Our results suggest that infrastructure
decisions can have significant effects on downstream water quality and
greenhouse gases, and watershed management strategies may need to consider
coupled impacts on urban water and air quality.</p>
  </abstract>
    </article-meta>
  </front>
<body>
      

<sec id="Ch1.S1" sec-type="intro">
  <title>Introduction</title>
      <p>Streams and rivers are dynamic networks that emit globally significant
quantities of carbon dioxide (CO<inline-formula><mml:math id="M21" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>), methane (CH<inline-formula><mml:math id="M22" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>), and nitrous
oxide (N<inline-formula><mml:math id="M23" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O) to the atmosphere. CO<inline-formula><mml:math id="M24" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> emissions via flowing waters are
equivalent to half of the annual terrestrial carbon sink
(1.2 Pg CO<inline-formula><mml:math id="M25" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>-C yr<inline-formula><mml:math id="M26" 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>, Cole et al., 2007; Battin et al., 2008).
Stanley et al. (2016) recently demonstrated that flowing waters are
significant CH<inline-formula><mml:math id="M27" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> sources as well, emitting approximately
28 Tg yr<inline-formula><mml:math id="M28" 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 is equivalent to between 10 and 35 % of
emissions from wetlands globally (Bridgham et al., 2013). Approximately
10 % of global anthropogenic N<inline-formula><mml:math id="M29" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O emissions are emitted from river
networks due to nitrogen contamination of surface and groundwater (UNEP,
2013; Ciais et al., 2013). There is evidence that these N<inline-formula><mml:math id="M30" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O estimates,
based on IPCC guidelines, might be too low, given growing evidence of high
denitrification rates in small streams with high NO<inline-formula><mml:math id="M31" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> loads (Beaulieu
et al., 2011).</p>
      <p>While much of the research on greenhouse gas (GHG) emissions from streams has
taken place in agricultural watersheds, urban-impacted river networks receive
similar N loads and have also shown elevated GHG concentrations and emissions
(e.g., Daniel et al., 2001; Beaulieu et al., 2010, 2011; Kaushal et al.,
2014a; Gallo et al., 2014). As urban land cover and populations continue to
expand, it is critical to understand the impacts on downstream waters,
including C and N loading and GHG emissions. While N<inline-formula><mml:math id="M32" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O emissions from
both urban and agricultural sources are taken into account in models based on
estimated watershed dissolved inorganic nitrogen loading (Nevison et al., 2000;
Seitzinger et al., 2000), measurements validating these estimates or
estimates of CO<inline-formula><mml:math id="M33" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and CH<inline-formula><mml:math id="M34" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> in urban watersheds are rare. Quantifying
the variability, drivers, and sources of GHG emissions from streams will
illuminate the biogeochemical processes and potential role of urban
infrastructure on nutrient cycling, water quality, and GHG budgets.</p>
<sec id="Ch1.S1.SS1">
  <title>Role of sanitary infrastructure</title>
      <p>The form and age of stormwater and sanitary infrastructure within a
watershed can influence stream water GHG emissions in several ways. GHGs may
enter urban streams directly through buried stormwater and sanitary
infrastructure or form increased production within streams in response to
nutrient loading and/or geomorphic changes. We investigated the role of
infrastructure on GHG emissions from streams in order to evaluate these
potential drivers of heterogeneity within urban watersheds. Sanitary
infrastructure encompasses a wide array of systems to manage human waste. In
developed countries, sanitary infrastructure includes a combination of
septic systems, sanitary sewers, and sometimes combined stormwater and sanitary
sewers. Storm and sanitary sewer lines are present in areas with
medium-to-high-density development. The sanitary sewer or combined sewer network
delivers waste to centralized wastewater treatment plants (WWTPs), which
treat influent and release effluent into larger rivers or coastal zones.
Sanitary, storm, and combined sewers tend to follow stream valleys (i.e., low
points in the landscape), are often made of erodible materials such as terra
cotta or concrete, and tend to crack or develop leaks. Leaks in sanitary
sewer infrastructure can lead to chronic nutrient loading throughout stream
networks (Divers et al., 2013, Kaushal et al., 2011, 2015; Pennino et al., 2016).
Septic systems, primarily used in low-density
residential areas, are designed to settle out waste solids and leach N-rich
liquid waste into subsurface soils and groundwater. Sanitary sewer
infrastructure may influence GHG abundance and emission from streams
directly via diffusion of gases out of gravity sewer lines (Short et al., 2014) or indirectly by microbial processing along surface and subsurface
flow paths (Yu et al., 2013; Beaulieu et al., 2011). While the present study
focuses mainly on first- to third-order streams influenced by sanitary sewer
lines or septic systems, it is also worth mentioning that WWTPs are known to
be a source of CH<inline-formula><mml:math id="M35" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> and N<inline-formula><mml:math id="M36" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O in urban areas and contribute
point-source GHG loading to larger rivers and coastal areas (Beaulieu et al., 2010; Strokal and Kroeze, 2014; Alshboul et al., 2016).</p>
      <p>Sewage leaks are likely the primary source of N<inline-formula><mml:math id="M37" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O emissions from small
urban streams (Short et al., 2014). Several studies have documented that
wastewater leakage from municipal sewers often accounts for more than 50 %
of dissolved N in urban streams (Kaushal et al., 2011; Pennino et al., 2016;
Divers et al., 2013). While sanitary sewer lines are known to leak dissolved
N, N<inline-formula><mml:math id="M38" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O losses are not accounted for in greenhouse gas budgets of the large
WWTPs that these pipes feed into. Short et al. (2014) measured intake lines
from three municipal WWTPs and estimated that N<inline-formula><mml:math id="M39" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O emissions from sewer
lines alone are on the same order of magnitude (1.7 g N<inline-formula><mml:math id="M40" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O person yr<inline-formula><mml:math id="M41" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>
as current IPCC estimates for per capita emissions from secondary WWTPs.
Their study demonstrates the importance of constraining biogenic gas
emissions from streams, which flow alongside and may receive gaseous inputs
from aging sanitary sewer lines.</p>
</sec>
<sec id="Ch1.S1.SS2">
  <title>Role of stormwater infrastructure</title>
      <p>Stormwater infrastructure varies widely across and within cities. From
stream burial in pipes to infiltration-based green infrastructure (GI)
designs, stormwater management (SWM) designs have evolved over time (Collins et al., 2010; Kaushal et al., 2014b). In Baltimore, where this study took place,
stormwater management installed prior to the 1970s consisted of
concrete-lined channels and buried streams (Baltimore County Department of
Planning, 2010). Areas developed during the 1990s and 2000s are
characterized by a more GI-based design approach, including but not limited
to upland detention ponds, infiltration basins, wetlands and bioswales.
Stream restoration projects and riparian zone protections have also been
established, restricting development within 100 m of the stream corridor for
new developments (Baltimore Department of planning, 2010).</p>
      <p>The form of stormwater infrastructure – whether stream burial, infiltration
wetland, or restored riparian zone – may contribute to GHG saturation of
groundwater and streams. Stormwater control wetlands and riparian/floodplain
preservation may increase or decrease CH<inline-formula><mml:math id="M42" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> and N<inline-formula><mml:math id="M43" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O emissions from
streams, depending upon how watershed C and N inputs are routed along
hydro-biogeochemical flow paths. For instance, if these forms of GI are
successful at removing excess N inputs to streams, GI may reduce N<inline-formula><mml:math id="M44" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
emissions from flowing waters. Alternatively, GI may increase both N<inline-formula><mml:math id="M45" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
and CH<inline-formula><mml:math id="M46" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> inputs to streams and thus emissions by facilitating anaerobic
microbial metabolism (Søvik et al., 2006; VanderZaag et al., 2010). The
form of GI (i.e., stormwater control wetland vs. riparian/floodplain
preservation) may also influence GHGs due to (1) differences in water
residence time and oxygen depletion in wetland vs. floodplain soils and (2) differences in watershed-scale N removal capacity of the two different
approaches.</p>
</sec>
<sec id="Ch1.S1.SS3">
  <title>Variables controlling GHG production in urban watersheds</title>
      <p>Reach-scale studies in streams across biomes have demonstrated that GHG
production and emission is sensitive to changes in nutrient stoichiometry,
organic matter quality, redox state, and temperature (e.g., Bernot et al., 2010; Kaushal et al., 2014a; Beaulieu et al., 2009; Dinsmore et al., 2009;
Baulch et al., 2011; Harrison and Matson, 2003). Several studies have shown
that infrastructure can influence solute loading and stoichiometry of
streams, which could in turn increase GHG production. For instance, Newcomer
et al. (2012) measured higher rates of N uptake and denitrification
potential in streams with restored riparian zones compared with degraded,
incised urban streams. In-stream N uptake is also consistently higher in
daylighted streams compared with streams buried in pipes (Pennino et al., 2014; Beaulieu et al., 2015). Upland or inline stormwater wetlands and
retention ponds provide additional locations for focused N removal in urban
watersheds (Newcomer Johnson et al., 2014; Bettez  and Groffman, 2012). Sanitary
infrastructure (i.e., leaky sewer lines and septic systems) can also be a
source of N via leaching into groundwater (Shields et al., 2008; Kaushal et al., 2015; Pennino et al., 2016).</p>
      <p>In previous studies, carbon quantity and/or organic matter quality was
correlated with N uptake or removal in urban streams and wetlands (Newcomer
et al., 2012; Pennino et al., 2014; Beaulieu et al., 2015; Bettez and Groffman, 2012;
Kaushal et al., 2014c). Inverse relationships between dissolved organic carbon
(DOC) and nitrate (NO<inline-formula><mml:math id="M47" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> concentrations have been found to persist
across a wide variety of ecosystems ranging from soils to streams to oceans
(e.g., Aitkenhead-Peterson and McDowell, 2000; Dodds et al., 2004; Kaushal and
Lewis, 2005; Taylor and Townsend, 2010). Recently, inverse relationships
between DOC and NO<inline-formula><mml:math id="M48" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> have also been reported for urban
environments ranging from groundwater to streams to river networks (Mayer et al., 2010; Kaushal and Belt, 2012; Kaushal et al., 2014c). A suite of competing
biotic processes may control this relationship, by either (1) assimilating or
reducing NO<inline-formula><mml:math id="M49" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> in the presence of bioavailable DOC or (2) by producing
NO<inline-formula><mml:math id="M50" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> regardless of DOC status (Hedin et al., 1998; Dodds et al., 2004; Kaushal and Lewis, 2005; Taylor and Townsend, 2010). The former category
includes heterotrophic denitrification, which oxidizes organic carbon to
CO<inline-formula><mml:math id="M51" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and reduces NO<inline-formula><mml:math id="M52" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> to N<inline-formula><mml:math id="M53" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O <inline-formula><mml:math id="M54" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> N<inline-formula><mml:math id="M55" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> (Knowles, 1982)
as well as assimilation of inorganic N (Wymore et al., 2015; Caraco et al., 1998;
Kaushal and Lewis, 2005). In the second category, nitrification
chemoautotrophically produces NO<inline-formula><mml:math id="M56" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> by oxidizing NH<inline-formula><mml:math id="M57" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">4</mml:mn><mml:mo>+</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>
and consuming CO<inline-formula><mml:math id="M58" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>. Nitrification also yields N<inline-formula><mml:math id="M59" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O as an
intermediate product and has been shown to dominate N cycling processes in
low-DOC environments (Schlesinger, 1997; Taylor and Townsend, 2010; Helton et al., 2015).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F1" specific-use="star"><caption><p>Site map of headwater stream sites within Red Run and Dead Run
watersheds. Green stars signify biweekly sampling sites, and black dots
signify longitudinal sampling points sampled seasonally. Land cover
categories are colored based on the National Land Cover Database, with dark
red areas signifying dense urban land cover, light red signifying medium
urban land cover, and green colors signifying forested or undeveloped areas.
Close-up views of Dead Run and Red Run on the right represent the study
watersheds.</p></caption>
          <?xmltex \igopts{width=398.338583pt}?><graphic xlink:href="https://bg.copernicus.org/articles/14/2831/2017/bg-14-2831-2017-f01.png"/>

        </fig>

      <p>In urban watersheds, denitrification is often limited by DOC due to
increased N loading and/or decreased connectivity with carbon-rich soils in
the riparian zone (Mayer et al., 2010; Newcomer et al., 2012). The C : N
stoichiometry is likely to be affected by stormwater and sanitary sewer
infrastructure designs as well (Søvik et al., 2006; Collins et al., 2010;
Kaushal et al., 2011). Stormwater wetlands may promote anoxic conditions and
increase the C : N ratio of stream water by increasing flow through carbon-rich
soils (e.g., Søvik et al., 2006; Newcomer et al., 2012). Stream burial can
reduce C : N ratios, if streams are buried in storm drains (Pennino et al., 2016; Beaulieu et al., 2014). Leaky sanitary infrastructure may additionally
reduce the C : N ratio and/or alter the form of carbon in streams (Newcomer
et al., 2012).</p>
</sec>
<sec id="Ch1.S1.SS4">
  <title>Study goals</title>
      <p>The goal of the present study was to identify patterns and drivers related
to GHG dynamics in urban headwater streams draining different forms of
infrastructure (stream burial, septic systems, inline SWM wetlands, and
riparian/floodplain preservation). Although less considered compared with
nutrient loading, increased GHG emissions may be an unintended consequence
of urban water quality impairments and biogeochemical processes occurring
within and downstream of urban infrastructure. A growing body of work has
shown that nutrient and carbon loads to streams are related not only to land
cover metrics (% impervious surface, urban density, etc.) but also to urban
infrastructure (Shields et al., 2008; Kaushal et al., 2014b). Connectivity
between runoff-generating water sources (groundwater, overland flow, and shallow
subsurface flow) and urban infrastructure (sanitary sewer lines, storm
sewers, drinking water pipes, constructed wetlands, etc.) is likely to
influence nutrient export and the biogeochemical function of waterways. An
improved understanding of the relationship between infrastructure type and
biogeochemical functions is critical for minimizing unintended consequences
of water quality management, especially as growing urban populations place
greater burden on watershed infrastructure (Doyle et al., 2008; Foley et al., 2005; Strokal and Kroeze, 2014).</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T1" specific-use="star"><caption><p>Summary of site characteristics including drainage area (km<inline-formula><mml:math id="M60" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>,
percent impervious cover (%IC), and percent of the watershed drained by
GI stormwater best management practices (i %GI SWM drainage).</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="6">
     <oasis:colspec colnum="1" colname="col1" align="justify" colwidth="56.905512pt"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="left"/>
     <oasis:colspec colnum="4" colname="col4" align="left"/>
     <oasis:colspec colnum="5" colname="col5" align="left"/>
     <oasis:colspec colnum="6" colname="col6" align="justify" colwidth="199.169291pt"/>
     <oasis:thead>
       <oasis:row>  
         <oasis:entry colname="col1">Infrastructure</oasis:entry>  
         <oasis:entry colname="col2">Site</oasis:entry>  
         <oasis:entry colname="col3">Drainage area</oasis:entry>  
         <oasis:entry colname="col4">% IC</oasis:entry>  
         <oasis:entry colname="col5">% GI SWM</oasis:entry>  
         <oasis:entry colname="col6">Description</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">feature</oasis:entry>  
         <oasis:entry colname="col2"/>  
         <oasis:entry colname="col3">(km<inline-formula><mml:math id="M61" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">cover</oasis:entry>  
         <oasis:entry colname="col5">drainage</oasis:entry>  
         <oasis:entry colname="col6"/>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">Septic   <?xmltex \hack{\hfill\break}?>systems</oasis:entry>  
         <oasis:entry colname="col2">RRSD</oasis:entry>  
         <oasis:entry colname="col3">0.23</oasis:entry>  
         <oasis:entry colname="col4">7.9</oasis:entry>  
         <oasis:entry colname="col5">0.00</oasis:entry>  
         <oasis:entry colname="col6">Low-density residential development with septic systems, minimal stormwater management with some stream burial.</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">RRSM</oasis:entry>  
         <oasis:entry colname="col3">0.68</oasis:entry>  
         <oasis:entry colname="col4">3.78</oasis:entry>  
         <oasis:entry colname="col5">13.97</oasis:entry>  
         <oasis:entry colname="col6"/>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Floodplain  <?xmltex \hack{\hfill\break}?>preservation</oasis:entry>  
         <oasis:entry colname="col2">RRRM</oasis:entry>  
         <oasis:entry colname="col3">0.63</oasis:entry>  
         <oasis:entry colname="col4">16.4</oasis:entry>  
         <oasis:entry colname="col5">100.00</oasis:entry>  
         <oasis:entry colname="col6">Suburban and commercial low-impact development converted from agriculture in early 2000s. Stormwater wetlands in upland <inline-formula><mml:math id="M62" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> wide riparian buffer zones surround each stream and sanitary sewer infrastructure.</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">RRRB</oasis:entry>  
         <oasis:entry colname="col3">0.21</oasis:entry>  
         <oasis:entry colname="col4">22.81</oasis:entry>  
         <oasis:entry colname="col5">54.67</oasis:entry>  
         <oasis:entry colname="col6"/>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Inline SWM <?xmltex \hack{\hfill\break}?>wetlands</oasis:entry>  
         <oasis:entry colname="col2">DRKV</oasis:entry>  
         <oasis:entry colname="col3">0.31</oasis:entry>  
         <oasis:entry colname="col4">39.16</oasis:entry>  
         <oasis:entry colname="col5">100.00</oasis:entry>  
         <oasis:entry colname="col6">Older suburban development (1950s) with GI located inline with stream channels, rather than dispersed across the landscape. Watershed is serviced by sanitary sewers.</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">DRGG</oasis:entry>  
         <oasis:entry colname="col3">0.6</oasis:entry>  
         <oasis:entry colname="col4">36.68</oasis:entry>  
         <oasis:entry colname="col5">47.60</oasis:entry>  
         <oasis:entry colname="col6"/>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Stream  <?xmltex \hack{\hfill\break}?>burial</oasis:entry>  
         <oasis:entry colname="col2">DRAL</oasis:entry>  
         <oasis:entry colname="col3">0.26</oasis:entry>  
         <oasis:entry colname="col4">41.9</oasis:entry>  
         <oasis:entry colname="col5">1.10</oasis:entry>  
         <oasis:entry colname="col6">Older suburban and commercial development (1950s) with piped headwaters upstream of the sampling point. Watershed is serviced by sanitary sewers. No management of stormwater other than the pipe network, which also contains buried streams.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">DRIS</oasis:entry>  
         <oasis:entry colname="col3">0.18</oasis:entry>  
         <oasis:entry colname="col4">30.57</oasis:entry>  
         <oasis:entry colname="col5">0.00</oasis:entry>  
         <oasis:entry colname="col6"/>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

</sec>
<sec id="Ch1.S1.SS5">
  <title>Sampling methods</title>
<sec id="Ch1.S1.SS5.SSS1">
  <title>Study sites</title>
      <p>This study took place in collaboration with the Baltimore Ecosystem Study
Long-Term Ecological Research project (<uri>www.beslter.org</uri>). We
identified four categories based on distinct combinations of stormwater and
sanitary infrastructure dominating the greater Baltimore region, based on
maps of stormwater control structures, housing age, and intensive field
surveys. We then selected eight first-order streams paired across the four
categories. First-order stream sites were spread equally across two
sub-watersheds of Gwynns Falls: Dead Run and Read Run (Fig. 1).
We
have abbreviated the categories based on the dominant infrastructure feature
as follows: (1) stream burial, (2) inline stormwater management
wetlands, (3) riparian/floodplain preservation, and (4) septic systems (Table 1).</p>
      <p>Sites in the “stream burial” category (DRAL and DIRS) drain watersheds with
streams contained in storm sewers. Sanitary infrastructure in these
watersheds is composed of aged sanitary sewer lines, installed prior to 1970
(Baltimore County Department of Planning, 2010). Streams in the “inline
stormwater management” category (DRKV and DRGG) originate in stormwater
ponds or wetlands and also flow adjacent to aging sanitary sewer lines.
Streams in the “riparian/floodplain preservation” category (RRRM and RRSM)
drain watersheds with newer development (after 2000), upland infiltration
wetlands, and 100 m wide undeveloped floodplains (Baltimore County
Department of Planning, 2010). Sanitary sewers were constructed in these
watersheds between 2000 and 2010 (Baltimore County Department of Planning,
2010). Sites in the “septic systems” category (RRSM and RRSD) drain lower
density development with stormwater management in the form of stormwater
sewer pipes (Fig. 1). All eight first-order stream sites were sampled every
2 weeks for dissolved carbon and nitrogen concentrations.</p>
</sec>
<sec id="Ch1.S1.SS5.SSS2">
  <title>Temporal sampling of dissolved gases and stream chemistry</title>
      <p>Headwater stream sites were sampled every 2 weeks for solutes (DOC; total dissolved nitrogen,
TDN;
humification index, HIX; and biological autochthonous inputs index, BIX) and dissolved gas (CO<inline-formula><mml:math id="M63" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math id="M64" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> and N<inline-formula><mml:math id="M65" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O)
concentrations. Chemistry sampling took place for 2 years, between January 2013 and December 2014, and gas sampling took place between July 2013 and
July 2014. Sites were visited between 09:00 and 14:00 local time. Five
dissolved gas samples were collected per stream on each date, along an
established 20 m study reach either upstream or adjacent to the gaging station.
Gas samples were collected at 0, 5, 10, 15, and 20 m from the fixed starting
point of the study reach. Samples were collected by submerging a 140 mL
syringe with a three-way Luer lock and pulling 115 mL of stream water into the
syringe. We added 25 mL of ultra-high purity helium to the syringe in the
field and then shook the syringes vigorously for 5 min to promote equilibration
of gases between aqueous and gas phases. After equilibration, 20 mL of the
headspace was immediately transferred into a pre-evacuated glass vial capped
with a screw-top rubber septum (LabCo Limited, Lampeter, UK) and then transported
to the laboratory, where samples were stored at room temperature for up to
4 weeks prior to analyses. Water temperature and barometric pressure
during the equilibration were recorded in the field. We collected three
helium headspace blanks by injecting 25 mL of helium into pre-evacuated vials
in the field.</p>
      <p>We collected stream water samples in a 250 mL high-density polyethylene
bottles, one sample per site. One duplicate sample was collected on
each sampling date, and the site for duplicate sample collection rotated
among the sampling dates. Dissolved oxygen (DO) concentration and pH were
measured at the upstream end of each study reach using a handheld YSI 550-A
dissolved oxygen meter (YSI Inc., Yellow Springs, OH) and an Oakton handheld
pH meter (Oakton Instruments, Vernon Hills, IL).</p>
</sec>
<sec id="Ch1.S1.SS5.SSS3">
  <title>Longitudinal sampling of dissolved gases</title>
      <p>Longitudinal surveys were conducted in June 2012, March 2014, and December 2014 in Red Run and Dead Run. Longitudinal sampling started at the outlet of
each major tributary (Dead Run or Red Run) and extended every 500 m
upstream to include the four biweekly sampled headwater sites in each
watershed (Fig. 1). During spring and fall months, solute and gas samples
were collected along all major tributaries (&gt; 5 % main stem
flow) as well as every 500 m along the main stem of Dead Run and Red Run.
Minor tributaries (&lt; 5 % of main stem flow) were not sampled.
Stream discharge was measured at each sampling point using a Marsh-McBirney
Flo-Mate handheld velocity meter (Marsh-McBirney Inc., Frederick, MD, USA).
We used cross-sectional measurements of stream velocity and water depth to
calculate instantaneous discharge at each sampling site. We measured
velocity and depth at a minimum of 10 points at each cross section in order
to properly characterize flow across the channel. Discharge data were
provided by USGS when sampling sites were co-located with a USGS gaging
station (US Geological Survey, 2017).</p>
      <p>We calculated the watershed contributing area above each sampling point and
flow length from each sampling point to the watershed outlet using the
“Hydrology”
toolbox in ArcMap 10. Sampling locations were designated pour points in the
hydrology tools workflow. Because sampling points were always co-located
with road crossings, we were able to acquire the latitude and longitude of
sampling sites using Google Earth software (Google Inc., 2009). Watersheds
were delineated using a 2 m resolution digital elevation model (DEM; Baltimore County Government,
2002). We first corrected the DEM for spurious depressions using the
“Fill” tool in the ArcMap10.0 Hydrology toolbox. Next, we calculated flow
direction for each pixel of this filled DEM raster. We then used the “Flow
Accumulation” tool to evaluate the number of pixels contributing to each
downstream pixel. After ensuring that each pour point was co-located on the
map streams (i.e., areas with flow accumulation &gt; 500 pixels), we
used the “Watershed” tool to delineate the pixels draining into each sampled
location.</p>
</sec>
</sec>
<sec id="Ch1.S1.SS6">
  <title>Laboratory methods</title>
<sec id="Ch1.S1.SS6.SSS1">
  <title>Dissolved gas concentrations</title>
      <p>Samples of headspace equilibrated gas concentrations (CO<inline-formula><mml:math id="M66" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math id="M67" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>,
and N<inline-formula><mml:math id="M68" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O) were stored at room temperature for up to 1 month in airtight
exetainer vials and transported to the EPA National Risk Management Research
Laboratory, Cincinnati, Ohio, for analysis. Concentrations of CO<inline-formula><mml:math id="M69" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>,
CH<inline-formula><mml:math id="M70" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, and N<inline-formula><mml:math id="M71" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O were measured using a Bruker 450 (Bruker, Billerica, MA,
USA) gas chromatograph equipped with a methanizer, flame ionization
detector, and electron capture
detector. Instrument detection
limits were 100 ppb for N<inline-formula><mml:math id="M72" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, 10 ppm for CO<inline-formula><mml:math id="M73" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, and 0.1 ppm for
CH<inline-formula><mml:math id="M74" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>.</p>
</sec>
<sec id="Ch1.S1.SS6.SSS2">
  <title>Solute concentrations</title>
      <p>Water samples were transported on ice to the University of Maryland, College
Park, and filtered using pre-combusted 0.7 <inline-formula><mml:math id="M75" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>m glass fiber filters
within 24 h. A Shimadzu TOC analyzer (Shimadzu Scientific, Kyoto, Japan)
was used to measure total dissolved nitrogen and dissolved organic
carbon. The non-purgeable organic carbon (NPOC) method was utilized
for DOC, despite potential underestimation of volatile compounds because the
NPOC method is insensitive to variations in dissolved inorganic carbon (DIC; Findlay et al., 2010). TDN
was measured on the same instrument using the “TDN” method, which consists
of high-temperature combustion in the presence of a platinum catalyst.
Nitrate (NO<inline-formula><mml:math id="M76" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> concentrations were measured via   colorimetric
reaction using a cadmium reduction column (Lachat method 10-107- 04-1-A) on
a Lachat flow injection analyzer (Hach, Loveland, CO).</p>
</sec>
<sec id="Ch1.S1.SS6.SSS3">
  <title>DOM characterization</title>
      <p>Filtered water samples were analyzed for optical properties in order to
characterize dissolved organic matter (DOM) sources. After filtering (0.7 <inline-formula><mml:math id="M77" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>m GF/F filter grade),
samples were stored in amber glass vials at
4 <inline-formula><mml:math id="M78" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C for a maximum of 2 weeks prior to analyses. The detailed
methodology for optical properties and fluorescence indices can be found in
Smith and Kaushal (2015), and numerous other studies have followed a similar
filtration and storage procedure (Singh et al., 2014,  2015;
Huguet et al., 2009; Dubnick et al., 2010; Gabor et al., 2014). Fluorescently
active DOM constitutes a wide range of lability. While some highly labile
compounds may break down within hours of sample collection, more
recalcitrant forms can remain stable for months. The 2-week window is a
convention meant to facilitate comparisons between sites, rather than a
biologically based limit to storage (R. Gabor and  S. Duan, personal communication, 2017). Briefly, fluorescence and absorbance
properties of DOM were measured in order to evaluate the relative abundance
of terrestrial and aquatic sources to the overall DOM pool.</p>
      <p>A FluoroMax-4 Spectrofluorometer (Horiba Jobin Yvon, Edison, NJ, USA) was
used to measure the emission spectra of samples in response to a variety of
excitation wavelengths. Excitation–emission matrices (EEMs) were used for
characterizing indices of terrestrial vs. aquatic DOM sources. The
humification index is defined as the ratio of emission intensity of
the 435–480 nm region of the EEM to the emission intensity of the 300–345 nm
region of the EEM at the excitation wavelength of 254 nm (Zsolnay et al., 1999;
Ohno, 2002). HIX varies from 0 to 1, with higher values signifying
high-molecular-weight DOM molecules characteristic of humic terrestrial
sources. Lower HIX indicates DOM of bacterial or aquatic origin (Zsolnay et al., 1999). The biological autochthonous inputs index is defined as the ratio of
fluorescence intensity at the emission wavelength 380 nm to the intensity
emitted at 430 nm at the excitation wavelength of 310 nm (Huguet et al., 2009).
Lower BIX values (&lt; 0.7) represent terrestrial sources, and higher
BIX values (&gt; 0.8) represent algal or bacterial sources (Huguet
et al., 2009).</p>
</sec>
</sec>
<sec id="Ch1.S1.SS7">
  <title>Calculations</title>
      <p>Dissolved gas concentrations were calculated using Eqs. (1)–(3). First, we
used Henry's law to convert measured mixing ratios (ppmv) to the molar
concentration of each gas in the headspace vial [Cg] (<inline-formula><mml:math id="M79" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>mol L<inline-formula><mml:math id="M80" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>
following Eq. (1):

                <disp-formula id="Ch1.E1" content-type="numbered"><mml:math id="M81" display="block"><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mo>[</mml:mo><mml:mi>C</mml:mi><mml:mo>]</mml:mo><mml:mo>=</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:mi>P</mml:mi><mml:mi>V</mml:mi></mml:mrow><mml:mrow><mml:mi>R</mml:mi><mml:mi>T</mml:mi></mml:mrow></mml:mfrac></mml:mstyle><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>

          where <inline-formula><mml:math id="M82" display="inline"><mml:mi>P</mml:mi></mml:math></inline-formula> is pressure (1 atm), <inline-formula><mml:math id="M83" display="inline"><mml:mi>V</mml:mi></mml:math></inline-formula> is the measured partial pressure of the gas
of interest (ppmv), <inline-formula><mml:math id="M84" display="inline"><mml:mi>R</mml:mi></mml:math></inline-formula> is the universal gas constant
(0.0821 L atm mol<inline-formula><mml:math id="M85" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">1</mml:mn></mml:msup></mml:math></inline-formula> K<inline-formula><mml:math id="M86" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, and <inline-formula><mml:math id="M87" display="inline"><mml:mi>T</mml:mi></mml:math></inline-formula> is the temperature of a water sample (Kelvin) during
headspace equilibration. We used Henry's law and a temperature-corrected
Bunsen solubility coefficient to calculate [<inline-formula><mml:math id="M88" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">aq</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>], which is the concentration of
residual gas remaining in water following headspace equilibration (Eq. 2;
Stumm and Morgan, 1981):

                <disp-formula id="Ch1.E2" content-type="numbered"><mml:math id="M89" display="block"><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mo>[</mml:mo><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">aq</mml:mi></mml:msub><mml:mo>]</mml:mo><mml:mo>=</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:mi>V</mml:mi><mml:mo>⋅</mml:mo><mml:mi mathvariant="normal">Bp</mml:mi><mml:mo>⋅</mml:mo><mml:mi mathvariant="normal">Bunsen</mml:mi></mml:mrow><mml:mrow><mml:mi>R</mml:mi><mml:mi>T</mml:mi></mml:mrow></mml:mfrac></mml:mstyle><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>

          where <inline-formula><mml:math id="M90" display="inline"><mml:mi>V</mml:mi></mml:math></inline-formula> is measured gas mixing ratio (ppmv), Bp is the barometric pressure
(atm), and Bunsen is the solubility coefficient in the vessel
(L L<inline-formula><mml:math id="M91" 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 1 atm).
Calculations of the Bunsen coefficient were based on Weiss (1974) for
CO<inline-formula><mml:math id="M92" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, Weiss (1970) for N<inline-formula><mml:math id="M93" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, and Yamamoto et al. (1976) for CH<inline-formula><mml:math id="M94" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>.</p>
      <p>The final stream water concentration [<inline-formula><mml:math id="M95" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">str</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>] was then calculated
using mass balance of these two pools, described in Eq. (3), where
<inline-formula><mml:math id="M96" display="inline"><mml:mrow><mml:msub><mml:mi>V</mml:mi><mml:mi mathvariant="normal">aq</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M97" display="inline"><mml:mrow><mml:msub><mml:mi>V</mml:mi><mml:mi mathvariant="normal">g</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> were the volumes of water and gas
respectively in a water sample with helium headspace.

                <disp-formula id="Ch1.E3" content-type="numbered"><mml:math id="M98" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:mo>[</mml:mo><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">str</mml:mi></mml:msub><mml:mo>]</mml:mo><mml:mo>=</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:mfenced open="[" close="]"><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">aq</mml:mi></mml:msub></mml:mfenced><mml:mo>⋅</mml:mo><mml:msub><mml:mi>V</mml:mi><mml:mi mathvariant="normal">aq</mml:mi></mml:msub><mml:mo>+</mml:mo><mml:mfenced close="]" open="["><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">g</mml:mi></mml:msub></mml:mfenced><mml:mo>⋅</mml:mo><mml:msub><mml:mi>V</mml:mi><mml:mi mathvariant="normal">g</mml:mi></mml:msub></mml:mrow><mml:mrow><mml:mi>R</mml:mi><mml:mi>T</mml:mi></mml:mrow></mml:mfrac></mml:mstyle></mml:mrow></mml:math></disp-formula>

          Because gas solubility is temperature dependent, it was useful to display
gas concentrations as the percent saturation, or the ratio of the measured
dissolved gas concentration to the equilibrium concentration. To determine
gas saturation, the equilibrium concentration, [<inline-formula><mml:math id="M99" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">eq</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>], was calculated
based on water temperature, atmospheric pressure, and an assumed value for
the current atmospheric mixing ratios of each gas following Eq. (2). We
obtained current ratios for CO<inline-formula><mml:math id="M100" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> from The Keeling Curve (Scripps
Institution of Oceanography, 2017) and N<inline-formula><mml:math id="M101" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O and CH<inline-formula><mml:math id="M102" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> from the NOAA
Earth Systems Research Laboratory (NOAA ESRL, 2017;
Dlugokencky,
2017). The saturation ratio is defined as a ratio [<inline-formula><mml:math id="M103" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">str</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>] <inline-formula><mml:math id="M104" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> [<inline-formula><mml:math id="M105" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">eq</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>], and excess (i.e., <italic>xs</italic>CO<inline-formula><mml:math id="M106" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> is described as a mass difference
([<inline-formula><mml:math id="M107" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">str</mml:mi></mml:msub><mml:mo>]</mml:mo><mml:mo>-</mml:mo><mml:mo>[</mml:mo><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">eq</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>]). Supersaturation is the condition when the
saturation ratio is greater than 1 or gas excess (i.e., <inline-formula><mml:math id="M108" display="inline"><mml:mrow><mml:mi>x</mml:mi><mml:mi>s</mml:mi></mml:mrow></mml:math></inline-formula>CO<inline-formula><mml:math id="M109" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> is
greater than 0.</p>
<sec id="Ch1.S1.SS7.SSS1">
  <title>Apparent oxygen utilization</title>
      <p>Apparent oxygen utilization (AOU) is defined as the difference between the O<inline-formula><mml:math id="M110" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>
concentrations (<inline-formula><mml:math id="M111" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M) at equilibrium with the atmosphere vs. ambient
measured O<inline-formula><mml:math id="M112" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> concentrations in the stream. A positive value of AOU
represents net oxygen consumption conditions along the
soil–groundwater–stream flow path, while a negative AOU (<inline-formula><mml:math id="M113" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M) represents
net O<inline-formula><mml:math id="M114" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> production within the stream. Because aerobic respiration and
photosynthesis couples CO<inline-formula><mml:math id="M115" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> production and O<inline-formula><mml:math id="M116" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> consumption, we can
assume that AOU is equivalent to the CO<inline-formula><mml:math id="M117" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> produced/consumed along the
same flow path (Richey et al., 1998). Under aerobic conditions, respiration of
organic matter consumes O<inline-formula><mml:math id="M118" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and produces CO<inline-formula><mml:math id="M119" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> at approximately a
<inline-formula><mml:math id="M120" display="inline"><mml:mrow><mml:mn mathvariant="normal">1</mml:mn><mml:mo>:</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula>
molar ratio (Schlesinger, 1997). Therefore, 1 mol of AOU should result in 1 mol of <italic>xs</italic>CO<inline-formula><mml:math id="M121" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>
(measured minus equilibrium CO<inline-formula><mml:math id="M122" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> concentration).
This ratio
was then used, with an offset to <inline-formula><mml:math id="M123" display="inline"><mml:mrow><mml:mn mathvariant="normal">1.2</mml:mn><mml:mo>:</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> to account for differences in
diffusion constants for the two gases (Stumm and Morgan, 1981; Richey et al., 1988), to determine the proportion of CO<inline-formula><mml:math id="M124" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> produced by aerobic
respiration. When CO<inline-formula><mml:math id="M125" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> concentrations are greater than AOU, the
difference between measured CO<inline-formula><mml:math id="M126" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and AOU (<italic>xs</italic>CO<inline-formula><mml:math id="M127" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>-AOU) represents
additional sources from either anaerobic respiration or abiotic sources. We
split our analysis of CO<inline-formula><mml:math id="M128" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> into these two categories (AOU and
<italic>xs</italic>CO<inline-formula><mml:math id="M129" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>-AOU) in order to determine whether patterns in CO<inline-formula><mml:math id="M130" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> saturation
were solely represented by aerobic respiration or other processes and sources as
well.</p>
</sec>
<sec id="Ch1.S1.SS7.SSS2">
  <title>Greenhouse gas emissions</title>
      <p>We calculated the gas flux rate using Eq. (4), where <inline-formula><mml:math id="M131" display="inline"><mml:mrow><mml:msub><mml:mi>F</mml:mi><mml:mi mathvariant="normal">GT</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> is the flux
(g m<inline-formula><mml:math id="M132" 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="M133" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> of a given gas (<inline-formula><mml:math id="M134" display="inline"><mml:mi>G</mml:mi></mml:math></inline-formula>) at ambient temperature (<inline-formula><mml:math id="M135" display="inline"><mml:mi>T</mml:mi></mml:math></inline-formula>) and <inline-formula><mml:math id="M136" display="inline"><mml:mi>d</mml:mi></mml:math></inline-formula> is
water depth (m). <inline-formula><mml:math id="M137" display="inline"><mml:mrow><mml:msub><mml:mi>K</mml:mi><mml:mi mathvariant="normal">GT</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> (d<inline-formula><mml:math id="M138" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> is the re-aeration coefficient for a
given <inline-formula><mml:math id="M139" display="inline"><mml:mi>G</mml:mi></mml:math></inline-formula> at ambient <inline-formula><mml:math id="M140" display="inline"><mml:mi>T</mml:mi></mml:math></inline-formula>. Measured and equilibrium gas concentrations
[<inline-formula><mml:math id="M141" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">str</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>] and [<inline-formula><mml:math id="M142" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">eq</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>] were calculated following Eqs. (3) and (4) and then
converted to units of g m<inline-formula><mml:math id="M143" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>.

                  <disp-formula id="Ch1.E4" content-type="numbered"><mml:math id="M144" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:msub><mml:mi>F</mml:mi><mml:mi mathvariant="normal">GT</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:msub><mml:mi>K</mml:mi><mml:mi mathvariant="normal">GT</mml:mi></mml:msub><mml:mo>⋅</mml:mo><mml:mi>d</mml:mi><mml:mo>⋅</mml:mo><mml:mo>(</mml:mo><mml:mo>[</mml:mo><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">str</mml:mi></mml:msub><mml:mo>]</mml:mo><mml:mo>-</mml:mo><mml:mo>[</mml:mo><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">eq</mml:mi></mml:msub><mml:mo>]</mml:mo><mml:mo>)</mml:mo></mml:mrow></mml:math></disp-formula>

            We modeled <inline-formula><mml:math id="M145" display="inline"><mml:mrow><mml:msub><mml:mi>K</mml:mi><mml:mi mathvariant="normal">GT</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> for each site and sampling date using the energy
dissipation model (Tsivoglou and Neal, 1976). The energy dissipation model
predicts K from the product of water velocity (<inline-formula><mml:math id="M146" display="inline"><mml:mi>V</mml:mi></mml:math></inline-formula>, m d<inline-formula><mml:math id="M147" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, water
surface gradient (<inline-formula><mml:math id="M148" display="inline"><mml:mi>S</mml:mi></mml:math></inline-formula>), and the escape coefficient, <inline-formula><mml:math id="M149" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">esc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>
(m<inline-formula><mml:math id="M150" 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>;
Eq. 5).

                  <disp-formula id="Ch1.E5" content-type="numbered"><mml:math id="M151" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:mi>K</mml:mi><mml:mo>=</mml:mo><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">esc</mml:mi></mml:msub><mml:mo>⋅</mml:mo><mml:mi>S</mml:mi><mml:mo>⋅</mml:mo><mml:mi>V</mml:mi></mml:mrow></mml:math></disp-formula>

            <inline-formula><mml:math id="M152" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">esc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> is a parameter related to additional factors other than
streambed slope and velocity that affect gas exchange, such as streambed
roughness and the relative abundance of pools and riffles. The <inline-formula><mml:math id="M153" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">esc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>
value used in this study was derived from 22 measurements of K, made using
the SF<inline-formula><mml:math id="M154" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msub></mml:math></inline-formula> gas tracer method, carried out across a range of flow
conditions in four streams within 5 km of our study sites and reported in
Pennino et al. (2014). <inline-formula><mml:math id="M155" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">esc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> was calculated as the slope of the
regression of K vs. <inline-formula><mml:math id="M156" display="inline"><mml:mrow><mml:mi>S</mml:mi><mml:mo>⋅</mml:mo><mml:mi>V</mml:mi></mml:mrow></mml:math></inline-formula> from data in Pennino et al. (2014) and was  assumed to be representative
of our headwater stream sites in Dead Run and
Red Run.</p>
      <p>We calculated <inline-formula><mml:math id="M157" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">esc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> to be 0.653 m<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> (<inline-formula><mml:math id="M159" display="inline"><mml:mrow><mml:mi>n</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">22</mml:mn></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M160" display="inline"><mml:mrow><mml:msup><mml:mi>r</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>=</mml:mo></mml:mrow></mml:math></inline-formula> 0.42, <inline-formula><mml:math id="M161" display="inline"><mml:mrow><mml:mi>p</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.001</mml:mn></mml:mrow></mml:math></inline-formula>). The 95 % confidence interval of this <inline-formula><mml:math id="M162" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">esc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> based on measured
<inline-formula><mml:math id="M163" display="inline"><mml:mrow><mml:msub><mml:mi>K</mml:mi><mml:mrow><mml:mn mathvariant="normal">20</mml:mn><mml:mo>,</mml:mo><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> values was <inline-formula><mml:math id="M164" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula>0.359 m<inline-formula><mml:math id="M165" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>, which corresponds to
<inline-formula><mml:math id="M166" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula>55 % of a given gas flux estimate. This estimate of <inline-formula><mml:math id="M167" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">esc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> from these
nearby sites was assumed to be representative of the eight stream reaches
investigated in this study. Given the moderate range of uncertainty in
<inline-formula><mml:math id="M168" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">esc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>, as well as additional uncertainties associated with slope
estimation and relating <inline-formula><mml:math id="M169" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">esc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> to different stream sites, gas flux
estimates must be interpreted with caution.</p>
      <p>Measurements of K  were converted to K for each GHG  (as well as
O<inline-formula><mml:math id="M170" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> for general comparisons) by multiplying by the ratio of their
Schmidt numbers (Stumm and Morgan, 1981). <inline-formula><mml:math id="M171" display="inline"><mml:mi>K</mml:mi></mml:math></inline-formula> measured at ambient temperature
(<inline-formula><mml:math id="M172" display="inline"><mml:mrow><mml:msub><mml:mi>K</mml:mi><mml:mi>T</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>)
was converted to K (d<inline-formula><mml:math id="M173" 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 20 <inline-formula><mml:math id="M174" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C  (<inline-formula><mml:math id="M175" display="inline"><mml:mrow><mml:msub><mml:mi>K</mml:mi><mml:mn mathvariant="normal">20</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> following Eq. (6).

                  <disp-formula id="Ch1.E6" content-type="numbered"><mml:math id="M176" display="block"><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:msub><mml:mi>K</mml:mi><mml:mn mathvariant="normal">20</mml:mn></mml:msub><mml:mo>=</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:msub><mml:mi>K</mml:mi><mml:mi>T</mml:mi></mml:msub></mml:mrow><mml:mrow><mml:msup><mml:mn mathvariant="normal">1.0421</mml:mn><mml:mrow><mml:mi>T</mml:mi><mml:mo>-</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:msup></mml:mrow></mml:mfrac></mml:mstyle></mml:mrow></mml:math></disp-formula>

            In  order to compare re-aeration rates across sites and prior studies, we
calculated the gas transfer velocity, <inline-formula><mml:math id="M177" display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">600</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, which is defined as
<inline-formula><mml:math id="M178" display="inline"><mml:mrow><mml:msub><mml:mi>K</mml:mi><mml:mrow><mml:mn mathvariant="normal">20</mml:mn><mml:mo>,</mml:mo><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> multiplied by water depth, with units of m d<inline-formula><mml:math id="M179" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>.</p>
      <p>We estimated <inline-formula><mml:math id="M180" display="inline"><mml:mi>S</mml:mi></mml:math></inline-formula> of headwater streams with GHG sampling sites by measuring the
change in elevation along the stream above and below stream gaging stations.
We determined the latitude and longitude of the stream gage, which was
co-located with GHG sampling sites in Red Run and Dead Run using a Trimble
GeoXH handheld 3.5G edition GPS unit (10 cm accuracy). We then plotted this
location atop a 1 m resolution lidar-based DEM (Baltimore County Government,
2002) in ArcMap 10. Using low points in the DEM to represent the stream
channel, we then selected one point above and one point below the stream
gaging station and measured the distance between these two points along the
stream channel with the “Measure” tool. We calculated <inline-formula><mml:math id="M181" display="inline"><mml:mi>S</mml:mi></mml:math></inline-formula> based on the change
in elevation divided by distance. The slope measurement reach overlapped
with, but did not coincide exactly with, the gas sampling reach in order to
ensure measurable differences in elevation. We followed the same protocol
to estimate <inline-formula><mml:math id="M182" display="inline"><mml:mi>S</mml:mi></mml:math></inline-formula> for reaches in Pennino et al. (2014), except, rather than
estimating points above and below a gaging station, we determined the change
in elevation over the specific reach where SF<inline-formula><mml:math id="M183" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msub></mml:math></inline-formula> injections took place.
Pennino et al. (2014) provided data on the latitude and longitude of their
SF<inline-formula><mml:math id="M184" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msub></mml:math></inline-formula> injection reaches.</p>
      <p>Pennino et al.'s (2014) measurements of <inline-formula><mml:math id="M185" display="inline"><mml:mi>V</mml:mi></mml:math></inline-formula> during gas injections ranged from
0.02 to 0.15 m s<inline-formula><mml:math id="M186" 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>. <inline-formula><mml:math id="M187" display="inline"><mml:mi>V</mml:mi></mml:math></inline-formula> measured at headwater gaging stations in our
sites ranged from undetectable to 0.34 m s<inline-formula><mml:math id="M188" 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 order to avoid
extrapolation, we limited our estimation of gas fluxes to sampling sites and
dates with <inline-formula><mml:math id="M189" display="inline"><mml:mi>V</mml:mi></mml:math></inline-formula> in the range measured by Pennino et al. (2014). These
conditions corresponded to 37 measurements in total, which were spread unevenly across the
four headwater sites with complete rating curves (DRAL, DRKV, RRRB, DRGG). K
estimates were restricted to 5 dates at DRAL, 18 dates at DRKV, 11 dates
at RRRB, and 3 dates at DRGG.</p>
</sec>
</sec>
<sec id="Ch1.S1.SS8">
  <title>Statistical analyses</title>
<sec id="Ch1.S1.SS8.SSS1">
  <title>Role of infrastructure and seasonality</title>
      <p>A linear mixed effects modeling approach was used to determine the
significant drivers of each gas across streams in different headwater
infrastructure categories. Due to uncertainties in the gas flux parameters,
GHG saturation ratios were used rather than GHG emissions to compare spatial
and temporal patterns across sites. Mixed effects modeling was carried out
using R (R Core Team, 2014) and the “nlme” package (Pinheiro et al., 2012) following
guidance outlined in Zurr et al. (2009). Separate mixed effects models were
used to detect the role of infrastructure category and date on each response
variable. Response variables included saturation ratios for each gas
(CO<inline-formula><mml:math id="M190" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, N<inline-formula><mml:math id="M191" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, and CH<inline-formula><mml:math id="M192" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>), solute concentrations (DOC, DIC, TDN,
and NO<inline-formula><mml:math id="M193" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, and organic matter source indices (HIX and BIX). Fixed effects
were “infrastructure category” and “sampling date” as well as an
interaction term for the two. The effect of a random intercept for “site”
was included in each model. The statistical assumptions of normality and
equal variances were validated by inspecting model residuals. When
necessary, variances were weighted based on infrastructure category to
remove heteroscedasticity in model residuals (Zuur et al., 2009). The
assumption of temporal independence was examined by testing for temporal
autocorrelation in each response variable. This test was performed using the
function “corAR1”, which is part of the package “nlme” in R. The
significance of random effects, weighting variances, and temporal
autocorrelation was tested by comparing Akaike information criterion (AIC)
scores for models with and without each of these attributes. Additionally,
pairwise ANOVA tests were run to determine whether each additional level of
model complexity significantly reduced the residual sum of squares. Final
model selection was based on meeting model assumptions, minimizing the AIC
value, and minimizing the residual standard error. Pairwise comparisons among
infrastructure categories were examined using the Tukey HSD post-hoc test
(“lsmeans” package, Lenth, 2016) for each response variable where “infrastructure
category” had a significant effect. Where “infrastructure category” did not
have a significant effect on a response variable after incorporating “site”
as a random effect, a separate set of linear models was run with “site” and
“date” as main effects rather than “infrastructure category”. The role of
“site” was evaluated in these cases to determine the degree to which
site-specific factors overwhelmed the effect of infrastructure category.</p>
</sec>
</sec>
<sec id="Ch1.S1.SS9">
  <title>Role of environmental variables on gas saturation</title>
      <p>A stepwise linear regression approach was used to examine the role of
multiple environmental variables on CO<inline-formula><mml:math id="M194" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, N<inline-formula><mml:math id="M195" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, and CH<inline-formula><mml:math id="M196" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation across sites and dates. Predictor variables were selected via a backward
stepwise procedure, using the “Step” function in R. This involves first
running a model that includes all potential driving factors and then running
sequential iterations of that model after removing one variable at a time
until the simplest and most robust combination of predictors was achieved.
Model fit at each step was evaluated using the AIC score. Parameters that
did not reduce AIC when comparing models were removed until the model had
the best fit with the minimum number of factors. The initial list of
potential drivers included temperature, DO, DOC, TDN, DIC, HIX, and the BIX.
Prior to the stepwise regression, we calculated the variance inflation
factor (VIF) for each response variable to test for multicolinearity. VIF &gt; 3 was
the cut off for assessing multicolinearity. All variables
in this study were below the VIF &gt; 3 threshold (Zuur et al., 2010).</p>
      <p>Analysis of covariance (ANCOVA) was carried out to determine whether
relationships among gases (CO<inline-formula><mml:math id="M197" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> vs. N<inline-formula><mml:math id="M198" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O and CO<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> vs. CH<inline-formula><mml:math id="M200" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> and
solutes (log of DOC : NO<inline-formula><mml:math id="M201" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> ratio) varied systematically across
infrastructure categories. ANCOVA involved comparing two generalized least
squares models. The first linear model included an interaction term between
one of the predictor variables (i.e., DOC or CO<inline-formula><mml:math id="M202" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> and infrastructure
category to predict the response variable (N<inline-formula><mml:math id="M203" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O or CH<inline-formula><mml:math id="M204" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>. The second
was a linear model with the same two independent variables but no
interaction term. When infrastructure category had a significant influence
on both the intercept (first model) and slope (second model) of a
relationship, this refuted the null hypothesis that infrastructure category
had no influence on a relationship.</p>
      <p>Because we used three separate models to evaluate variations in three GHG
concentrations (for across infrastructure categories, continuous variables,
and ANCOVA), we used a Bonferroni correction for the 95 % confidence
level. We determined the new confidence level by dividing the 95 % level
(0.05) by the number of models used on all gases across headwater stream
sites (6). This new <inline-formula><mml:math id="M205" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value (0.008) was then used to determine significance
rather than 0.05.</p>
<sec id="Ch1.S1.SS9.SSS1">
  <title>Longitudinal variability in gas saturation</title>
      <p>We analyzed longitudinal data using multiple linear regressions in order to
evaluate whether patterns observed in headwater sites were representative of
the broader stream network. We compiled data from four surveys – Red Run
and Dead Run in spring and fall – and used a stepwise linear regression
approach to determine the significant drivers for each gas (Table 6).
Covariates included the log of drainage area above each point, watershed (Red
Run vs. Dead Run), season (spring vs. fall), DOC concentration, DIC
concentration, TDN concentration, log of discharge, location (tributary vs.
main stem), DOC : TDN molar ratio, a TDN by drainage area interaction term,
and a DOC by drainage area interaction term. We used the stepAIC  function
in R to determine the optimal model formulation, selecting the model with
minimum AIC.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T2" specific-use="star"><caption><p>Summary of results (main effects <inline-formula><mml:math id="M206" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> values) from mixed effects models
examining the role of infrastructure typology and date on the following
response variables: CO<inline-formula><mml:math id="M207" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, N<inline-formula><mml:math id="M208" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, and CH<inline-formula><mml:math id="M209" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation ratios; TDN
and DOC concentrations (mg L<inline-formula><mml:math id="M210" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, BIX, and HIX (unitless).</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="9">
     <oasis:colspec colnum="1" colname="col1" align="justify" colwidth="128.037402pt"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="left"/>
     <oasis:colspec colnum="4" colname="col4" align="left"/>
     <oasis:colspec colnum="5" colname="col5" align="left"/>
     <oasis:colspec colnum="6" colname="col6" align="left"/>
     <oasis:colspec colnum="7" colname="col7" align="left"/>
     <oasis:colspec colnum="8" colname="col8" align="left"/>
     <oasis:colspec colnum="9" colname="col9" align="left"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Main effects</oasis:entry>  
         <oasis:entry colname="col2">CO<inline-formula><mml:math id="M212" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">CH<inline-formula><mml:math id="M213" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">N<inline-formula><mml:math id="M214" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O</oasis:entry>  
         <oasis:entry colname="col5">TDN</oasis:entry>  
         <oasis:entry colname="col6">DOC</oasis:entry>  
         <oasis:entry colname="col7">BIX</oasis:entry>  
         <oasis:entry colname="col8">HIX</oasis:entry>  
         <oasis:entry colname="col9">DOC : NO<inline-formula><mml:math id="M215" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula></oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">Infrastructure typology <?xmltex \hack{\hfill\break}?> <inline-formula><mml:math id="M216" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value</oasis:entry>  
         <oasis:entry colname="col2">0.496</oasis:entry>  
         <oasis:entry colname="col3">0.298</oasis:entry>  
         <oasis:entry colname="col4">0.488</oasis:entry>  
         <oasis:entry colname="col5">0.068</oasis:entry>  
         <oasis:entry colname="col6">0.200</oasis:entry>  
         <oasis:entry colname="col7">0.441</oasis:entry>  
         <oasis:entry colname="col8">0.020</oasis:entry>  
         <oasis:entry colname="col9">&lt; 0.008<inline-formula><mml:math id="M217" 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">Date <inline-formula><mml:math id="M218" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value</oasis:entry>  
         <oasis:entry colname="col2">0.957</oasis:entry>  
         <oasis:entry colname="col3">&lt; 0.008<inline-formula><mml:math id="M219" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">&lt; 0.008<inline-formula><mml:math id="M220" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col5">0.086</oasis:entry>  
         <oasis:entry colname="col6">0.387</oasis:entry>  
         <oasis:entry colname="col7">0.155</oasis:entry>  
         <oasis:entry colname="col8">0.765</oasis:entry>  
         <oasis:entry colname="col9">0.492</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Date by infrastructure typology  <?xmltex \hack{\hfill\break}?>Interaction <inline-formula><mml:math id="M221" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value</oasis:entry>  
         <oasis:entry colname="col2">&lt; 0.008<inline-formula><mml:math id="M222" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">&lt; 0.008<inline-formula><mml:math id="M223" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">&lt; 0.008<inline-formula><mml:math id="M224" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col5">0.114</oasis:entry>  
         <oasis:entry colname="col6">0.978</oasis:entry>  
         <oasis:entry colname="col7">0.490</oasis:entry>  
         <oasis:entry colname="col8">0.899</oasis:entry>  
         <oasis:entry colname="col9">0.894</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table><table-wrap-foot><p><inline-formula><mml:math id="M211" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula> indicate variables that are significant at the 0.008 level.</p></table-wrap-foot></table-wrap>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T3" specific-use="star"><caption><p>Mean with standard error in parentheses of GHG saturation ratios,
TDN and DOC concentrations (mg L<inline-formula><mml:math id="M225" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, BIX values, and HIX values for each
site.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="10">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="left"/>
     <oasis:colspec colnum="4" colname="col4" align="left"/>
     <oasis:colspec colnum="5" colname="col5" align="left"/>
     <oasis:colspec colnum="6" colname="col6" align="left"/>
     <oasis:colspec colnum="7" colname="col7" align="left"/>
     <oasis:colspec colnum="8" colname="col8" align="left"/>
     <oasis:colspec colnum="9" colname="col9" align="left"/>
     <oasis:colspec colnum="10" colname="col10" align="left"/>
     <oasis:thead>
       <oasis:row>  
         <oasis:entry colname="col1">Infrastructure</oasis:entry>  
         <oasis:entry colname="col2">Site</oasis:entry>  
         <oasis:entry colname="col3">CO<inline-formula><mml:math id="M226" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">CH<inline-formula><mml:math id="M227" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col5">N<inline-formula><mml:math id="M228" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O</oasis:entry>  
         <oasis:entry colname="col6">TDN</oasis:entry>  
         <oasis:entry colname="col7">DOC</oasis:entry>  
         <oasis:entry colname="col8">BIX</oasis:entry>  
         <oasis:entry colname="col9">HIX</oasis:entry>  
         <oasis:entry colname="col10">DOC : NO<inline-formula><mml:math id="M229" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">typology</oasis:entry>  
         <oasis:entry colname="col2"/>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4"/>  
         <oasis:entry colname="col5"/>  
         <oasis:entry colname="col6"/>  
         <oasis:entry colname="col7"/>  
         <oasis:entry colname="col8"/>  
         <oasis:entry colname="col9"/>  
         <oasis:entry colname="col10"/>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">Septic systems</oasis:entry>  
         <oasis:entry colname="col2">RRSD</oasis:entry>  
         <oasis:entry colname="col3">52.9</oasis:entry>  
         <oasis:entry colname="col4">14.9</oasis:entry>  
         <oasis:entry colname="col5">28.0</oasis:entry>  
         <oasis:entry colname="col6">6.40</oasis:entry>  
         <oasis:entry colname="col7">0.76</oasis:entry>  
         <oasis:entry colname="col8">0.89</oasis:entry>  
         <oasis:entry colname="col9">0.74</oasis:entry>  
         <oasis:entry colname="col10">0.06</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry rowsep="1" colname="col2"/>  
         <oasis:entry rowsep="1" colname="col3">(1.1)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col4">(0.5)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col5">(0.7)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col6">(0.20)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col7">(0.12)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col8">(0.02)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col9">(0.01)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col10">(0.01)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">RRSM</oasis:entry>  
         <oasis:entry colname="col3">13.5</oasis:entry>  
         <oasis:entry colname="col4">25.6</oasis:entry>  
         <oasis:entry colname="col5">5.9</oasis:entry>  
         <oasis:entry colname="col6">3.49</oasis:entry>  
         <oasis:entry colname="col7">1.40</oasis:entry>  
         <oasis:entry colname="col8">0.70</oasis:entry>  
         <oasis:entry colname="col9">0.782</oasis:entry>  
         <oasis:entry colname="col10">0.27</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2"/>  
         <oasis:entry colname="col3">(0.5)</oasis:entry>  
         <oasis:entry colname="col4">(1.5)</oasis:entry>  
         <oasis:entry colname="col5">(0.2)</oasis:entry>  
         <oasis:entry colname="col6">(0.13)</oasis:entry>  
         <oasis:entry colname="col7">(0.25)</oasis:entry>  
         <oasis:entry colname="col8">(0.02)</oasis:entry>  
         <oasis:entry colname="col9">(0.015)</oasis:entry>  
         <oasis:entry colname="col10">(0.04)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Riparian/floodplain</oasis:entry>  
         <oasis:entry colname="col2">RRRM</oasis:entry>  
         <oasis:entry colname="col3">6.6</oasis:entry>  
         <oasis:entry colname="col4">207.3</oasis:entry>  
         <oasis:entry colname="col5">1.7</oasis:entry>  
         <oasis:entry colname="col6">0.59</oasis:entry>  
         <oasis:entry colname="col7">2.89</oasis:entry>  
         <oasis:entry colname="col8">0.67</oasis:entry>  
         <oasis:entry colname="col9">0.85</oasis:entry>  
         <oasis:entry colname="col10">12.16</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">preservation</oasis:entry>  
         <oasis:entry rowsep="1" colname="col2"/>  
         <oasis:entry rowsep="1" colname="col3">(0.3)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col4">(36.2)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col5">(0.04)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col6">(0.08)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col7">(0.27)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col8">(0.01)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col9">(0.02)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col10">(3.45)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">RRRB</oasis:entry>  
         <oasis:entry colname="col3">9.6</oasis:entry>  
         <oasis:entry colname="col4">103.6</oasis:entry>  
         <oasis:entry colname="col5">3.6</oasis:entry>  
         <oasis:entry colname="col6">0.35</oasis:entry>  
         <oasis:entry colname="col7">1.58</oasis:entry>  
         <oasis:entry colname="col8">0.716</oasis:entry>  
         <oasis:entry colname="col9">0.85</oasis:entry>  
         <oasis:entry colname="col10">9.24</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2"/>  
         <oasis:entry colname="col3">(0.4)</oasis:entry>  
         <oasis:entry colname="col4">(8.6)</oasis:entry>  
         <oasis:entry colname="col5">(0.1)</oasis:entry>  
         <oasis:entry colname="col6">(0.02)</oasis:entry>  
         <oasis:entry colname="col7">(0.18)</oasis:entry>  
         <oasis:entry colname="col8">(0.01)</oasis:entry>  
         <oasis:entry colname="col9">(0.01)</oasis:entry>  
         <oasis:entry colname="col10">(2.43)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Inline SWM</oasis:entry>  
         <oasis:entry colname="col2">DRKV</oasis:entry>  
         <oasis:entry colname="col3">28.1</oasis:entry>  
         <oasis:entry colname="col4">50.8</oasis:entry>  
         <oasis:entry colname="col5">19.1</oasis:entry>  
         <oasis:entry colname="col6">2.52</oasis:entry>  
         <oasis:entry colname="col7">2.65</oasis:entry>  
         <oasis:entry colname="col8">0.75</oasis:entry>  
         <oasis:entry colname="col9">0.86</oasis:entry>  
         <oasis:entry colname="col10">2.38</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry rowsep="1" colname="col2"/>  
         <oasis:entry rowsep="1" colname="col3">(1.0)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col4">(8.5)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col5">(0.6)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col6">(0.16)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col7">(0.24)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col8">(0.01)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col9">(0.003)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col10">(0.67)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">DRGG</oasis:entry>  
         <oasis:entry colname="col3">16.3</oasis:entry>  
         <oasis:entry colname="col4">225.8</oasis:entry>  
         <oasis:entry colname="col5">7.9</oasis:entry>  
         <oasis:entry colname="col6">1.16</oasis:entry>  
         <oasis:entry colname="col7">5.32</oasis:entry>  
         <oasis:entry colname="col8">0.73</oasis:entry>  
         <oasis:entry colname="col9">0.83</oasis:entry>  
         <oasis:entry colname="col10">8.72</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2"/>  
         <oasis:entry colname="col3">(1.1)</oasis:entry>  
         <oasis:entry colname="col4">(31.9)</oasis:entry>  
         <oasis:entry colname="col5">(0.4)</oasis:entry>  
         <oasis:entry colname="col6">(0.07)</oasis:entry>  
         <oasis:entry colname="col7">(0.60)</oasis:entry>  
         <oasis:entry colname="col8">(0.02)</oasis:entry>  
         <oasis:entry colname="col9">(0.01)</oasis:entry>  
         <oasis:entry colname="col10">(2.23)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Stream burial</oasis:entry>  
         <oasis:entry colname="col2">DRAL</oasis:entry>  
         <oasis:entry colname="col3">7.9</oasis:entry>  
         <oasis:entry colname="col4">11.3</oasis:entry>  
         <oasis:entry colname="col5">5.1</oasis:entry>  
         <oasis:entry colname="col6">2.68</oasis:entry>  
         <oasis:entry colname="col7">2.64</oasis:entry>  
         <oasis:entry colname="col8">0.81</oasis:entry>  
         <oasis:entry colname="col9">0.83</oasis:entry>  
         <oasis:entry colname="col10">1.42</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry rowsep="1" colname="col2"/>  
         <oasis:entry rowsep="1" colname="col3">(0.3)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col4">(0.6)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col5">(0.2)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col6">(0.09)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col7">(0.37)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col8">(0.01)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col9">(0.01)</oasis:entry>  
         <oasis:entry rowsep="1" colname="col10">(0.40)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">DRIS</oasis:entry>  
         <oasis:entry colname="col3">22.6</oasis:entry>  
         <oasis:entry colname="col4">78.4</oasis:entry>  
         <oasis:entry colname="col5">10.7</oasis:entry>  
         <oasis:entry colname="col6">2.42</oasis:entry>  
         <oasis:entry colname="col7">2.51</oasis:entry>  
         <oasis:entry colname="col8">0.79</oasis:entry>  
         <oasis:entry colname="col9">0.82</oasis:entry>  
         <oasis:entry colname="col10">1.82</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2"/>  
         <oasis:entry colname="col3">(1.0)</oasis:entry>  
         <oasis:entry colname="col4">(5.8)</oasis:entry>  
         <oasis:entry colname="col5">(0.5)</oasis:entry>  
         <oasis:entry colname="col6">(0.09)</oasis:entry>  
         <oasis:entry colname="col7">(0.27)</oasis:entry>  
         <oasis:entry colname="col8">(0.01)</oasis:entry>  
         <oasis:entry colname="col9">(0.01)</oasis:entry>  
         <oasis:entry colname="col10">(0.44)</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

</sec>
</sec>
</sec>
<sec id="Ch1.S2">
  <title>Results</title>
<sec id="Ch1.S2.SS1">
  <?xmltex \opttitle{Effect of infrastructure on water quality and DOC\,:\,NO${}_{{3}}{}^{{-}}$
ratios}?><title>Effect of infrastructure on water quality and DOC : NO<inline-formula><mml:math id="M230" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>
ratios</title>
      <p>We detected significant differences among TDN, NO<inline-formula><mml:math id="M231" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>, and DOC : NO<inline-formula><mml:math id="M232" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> ratios across infrastructure categories (Table 2). TDN
concentrations ranged from 0.12 to 8.7 mg N L<inline-formula><mml:math id="M233" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> (Table 3). Pairwise
comparisons yielded significantly higher TDN concentrations in sites in the
typology of “septic systems”, compared with the “inline SWM wetlands”
typology, and sites in the “riparian/floodplain preservation” typology.
Sites in the “stream burial” typology fell within the mid-range of TDN
concentrations and were not different from any other category. DOC
concentrations varied widely from 0.19 to 16.89 mg L<inline-formula><mml:math id="M234" 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> but were not
significantly predicted by infrastructure typology (Table 2). DOC : NO<inline-formula><mml:math id="M235" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> ratios varied over 4 orders of magnitude, from 0.02 to 112
(Fig. 2). Infrastructure typology was a significant predictor of DOC : NO<inline-formula><mml:math id="M236" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>, with the lowest ratios in sites with septic systems and
highest in sites with riparian/floodplain preservation (Fig. 2). Pairwise
comparisons showed no difference in DOC : NO<inline-formula><mml:math id="M237" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> ratios between in
the inline SWM wetland and complete stream burial typologies, however (Fig. 2).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F2"><caption><p>Boxplot of molar DOC : NO<inline-formula><mml:math id="M238" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> ratio across sites in
watersheds with differing infrastructure typologies. The median of each
dataset is signified by the middle horizontal line for each category. Boxes
signify the range between the first and third quartiles (25th and 75th
percentiles). Vertical lines extend to the minimum and maximum points in the
dataset that are within 1.5 times the interquartile range. Points signify
data that fall above or below this range. Letters represent significant (<inline-formula><mml:math id="M239" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> &lt; 0.01) differences between infrastructure typologies for
DOC : NO<inline-formula><mml:math id="M240" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> across all sampling dates, determined using a linear
mixed effects model.</p></caption>
          <?xmltex \igopts{width=241.848425pt}?><graphic xlink:href="https://bg.copernicus.org/articles/14/2831/2017/bg-14-2831-2017-f02.pdf"/>

        </fig>

</sec>
<sec id="Ch1.S2.SS2">
  <title>Effect of urban infrastructure on DOM quality</title>
      <p>Measurements of HIX ranged from 0.30 to 0.90, while BIX ranged from 0.40 to
1.15 across all sites and sampling dates in headwater streams. Streams
draining septic system infrastructure had significantly lower HIX values
than any other infrastructure typology. BIX values showed no significant
pattern across infrastructure typologies (Table 2).</p>
</sec>
<sec id="Ch1.S2.SS3">
  <title>Effect of urban infrastructure on gas concentrations</title>
      <p>Mixed effects models did not detect significant influence of infrastructure
typology alone on CO<inline-formula><mml:math id="M241" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math id="M242" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, and N<inline-formula><mml:math id="M243" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation in streams.
There was, however, a significant interaction effect between sampling date
and infrastructure typology on the saturation ratios of all three gases
(Table 2). This indicated that sampling date was important to GHG saturation
for some infrastructure typologies or that the effect of infrastructure is
dependent upon sampling date. The second set of linear models, which used
site rather than infrastructure category as a main effect, yielded
significant differences across all sites for N<inline-formula><mml:math id="M244" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O (Fig. 3). Similarly,
for CO<inline-formula><mml:math id="M245" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, there were significant differences in 25 out of 28 pairwise
comparisons. Pairwise comparisons across sites for CH<inline-formula><mml:math id="M246" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation were
significant in 23 out of 28 cases. These patterns suggest that site-specific
effects overwhelmed the role of infrastructure categories on GHG saturation.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F3"><caption><p>Boxplot of CO<inline-formula><mml:math id="M247" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math id="M248" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, and N<inline-formula><mml:math id="M249" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation ratios
across stream sites in varying infrastructure categories. Letters denote
significant pairwise differences across streams for a given gas from linear
mixed effects models with “Watershed” as a main effect. Boxes signify the
range between the first and third quartiles (25th and 75th
percentiles). Vertical lines extend to the minimum and maximum points in the
dataset that are within 1.5 times the interquartile range. Points signify
outliers outside of 1.5 times the interquartile range.</p></caption>
          <?xmltex \igopts{width=236.157874pt}?><graphic xlink:href="https://bg.copernicus.org/articles/14/2831/2017/bg-14-2831-2017-f03.pdf"/>

        </fig>

</sec>
<sec id="Ch1.S2.SS4">
  <title>Effect of environmental variables on gas concentrations</title>
      <p>Stepwise model parameter selection yielded several variables that correlate
with each GHG saturation ratio (Table 4). TDN was the strongest predictor of
N<inline-formula><mml:math id="M250" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation, followed by DO. The final model for N<inline-formula><mml:math id="M251" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
(<inline-formula><mml:math id="M252" display="inline"><mml:mrow><mml:msup><mml:mi>r</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>=</mml:mo></mml:mrow></mml:math></inline-formula> 0.78) also included temperature, HIX, BIX, %SWM, and
DOC : NO<inline-formula><mml:math id="M253" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>. CO<inline-formula><mml:math id="M254" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> saturation had a similar pattern of predictors
and nearly identical model fit (<inline-formula><mml:math id="M255" display="inline"><mml:mrow><mml:msup><mml:mi>r</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>=</mml:mo></mml:mrow></mml:math></inline-formula> 0.78). The DOC : NO<inline-formula><mml:math id="M256" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> ratio
was the strongest predictor of CH<inline-formula><mml:math id="M257" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation followed by DO and
temperature. HIX, %IC, and %SWM were also related to CH<inline-formula><mml:math id="M258" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>
saturation, but TDN and BIX were not.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T4"><caption><p>Main effects, model coefficients, adjusted <inline-formula><mml:math id="M259" 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>, and overall
model <inline-formula><mml:math id="M260" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value for stepwise regression models examining the relationship
between continuous variables and GHG saturation ratios. The model
coefficient is the main effect of each parameter, and the absolute value of
this coefficient signifies the relative contribution of each predictor. A <inline-formula><mml:math id="M261" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula>
indicates the predictor with the greatest influence for each response
variable (CO<inline-formula><mml:math id="M262" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math id="M263" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, and N<inline-formula><mml:math id="M264" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O). Rows with “n.a.”
indicate that the predictor variable was not retained in the final model.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="4">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="left"/>
     <oasis:colspec colnum="4" colname="col4" align="left"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">CO<inline-formula><mml:math id="M265" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">CH<inline-formula><mml:math id="M266" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">N<inline-formula><mml:math id="M267" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Predictor</oasis:entry>  
         <oasis:entry colname="col2">Coefficient</oasis:entry>  
         <oasis:entry colname="col3">Coefficient</oasis:entry>  
         <oasis:entry colname="col4">Coefficient</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">TDN</oasis:entry>  
         <oasis:entry colname="col2">1.08<inline-formula><mml:math id="M268" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">n.a.</oasis:entry>  
         <oasis:entry colname="col4">1.10<inline-formula><mml:math id="M269" 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">Temperature</oasis:entry>  
         <oasis:entry colname="col2"><inline-formula><mml:math id="M270" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.22</oasis:entry>  
         <oasis:entry colname="col3">0.25</oasis:entry>  
         <oasis:entry colname="col4"><inline-formula><mml:math id="M271" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.26</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">DO</oasis:entry>  
         <oasis:entry colname="col2"><inline-formula><mml:math id="M272" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.46</oasis:entry>  
         <oasis:entry colname="col3"><inline-formula><mml:math id="M273" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.27</oasis:entry>  
         <oasis:entry colname="col4"><inline-formula><mml:math id="M274" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.37</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">HIX</oasis:entry>  
         <oasis:entry colname="col2">0.09</oasis:entry>  
         <oasis:entry colname="col3"><inline-formula><mml:math id="M275" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.15</oasis:entry>  
         <oasis:entry colname="col4">0.13</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BIX</oasis:entry>  
         <oasis:entry colname="col2">0.11</oasis:entry>  
         <oasis:entry colname="col3">n.a.</oasis:entry>  
         <oasis:entry colname="col4">0.15</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">%IC</oasis:entry>  
         <oasis:entry colname="col2">n.a.</oasis:entry>  
         <oasis:entry colname="col3"><inline-formula><mml:math id="M276" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.16</oasis:entry>  
         <oasis:entry colname="col4">0.14</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">%SWM</oasis:entry>  
         <oasis:entry colname="col2">0.18</oasis:entry>  
         <oasis:entry colname="col3">0.16</oasis:entry>  
         <oasis:entry colname="col4">0.31</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">log(DOC : NO<inline-formula><mml:math id="M277" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col2">0.32</oasis:entry>  
         <oasis:entry colname="col3">0.55<inline-formula><mml:math id="M278" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">0.19</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Overall model fit</oasis:entry>  
         <oasis:entry colname="col2"/>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4"/>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Adjusted <inline-formula><mml:math id="M279" 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></oasis:entry>  
         <oasis:entry colname="col2">0.78</oasis:entry>  
         <oasis:entry colname="col3">0.5</oasis:entry>  
         <oasis:entry colname="col4">0.78</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"><inline-formula><mml:math id="M280" display="inline"><mml:mi>P</mml:mi></mml:math></inline-formula> value</oasis:entry>  
         <oasis:entry colname="col2">&lt; 0.008<inline-formula><mml:math id="M281" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">&lt; 0.0008<inline-formula><mml:math id="M282" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">&lt; 0.008<inline-formula><mml:math id="M283" display="inline"><mml:msup><mml:mi/><mml:mo>∗</mml:mo></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

</sec>
<sec id="Ch1.S2.SS5">
  <?xmltex \opttitle{Covariance among GHG abundance and C\,:\,N stoichiometry}?><title>Covariance among GHG abundance and C : N stoichiometry</title>
      <p>AOU ranged from <inline-formula><mml:math id="M284" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>180.9 to 293.9 across all sites and sampling dates;
however,
AOU was only negative (net oxygen production along surface and subsurface
flow paths) in 6 % of samples, or 43 out of 691 measurements. N<inline-formula><mml:math id="M285" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O was
significantly but weakly correlated with AOU (<inline-formula><mml:math id="M286" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> &lt; 0.008, <inline-formula><mml:math id="M287" 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> <inline-formula><mml:math id="M288" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 0.12) and
strongly correlated with <italic>xs</italic>CO<inline-formula><mml:math id="M289" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>-AOU (<inline-formula><mml:math id="M290" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> &lt; 0.008,
<inline-formula><mml:math id="M291" display="inline"><mml:mrow><mml:msup><mml:mi>r</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>=</mml:mo></mml:mrow></mml:math></inline-formula> 0.87). The log of CH<inline-formula><mml:math id="M292" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation ratio was very weakly correlated
with AOU (<inline-formula><mml:math id="M293" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> &lt; 0.008, <inline-formula><mml:math id="M294" display="inline"><mml:mrow><mml:msup><mml:mi>r</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>=</mml:mo></mml:mrow></mml:math></inline-formula> 0.01) as well as <italic>xs</italic>CO<inline-formula><mml:math id="M295" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>-AOU
(<inline-formula><mml:math id="M296" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> &lt; 0.008, <inline-formula><mml:math id="M297" display="inline"><mml:mrow><mml:msup><mml:mi>r</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>=</mml:mo></mml:mrow></mml:math></inline-formula> 0.07). The relationships between <italic>xs</italic>CO<inline-formula><mml:math id="M298" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>-AOU and both N<inline-formula><mml:math id="M299" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O and CH<inline-formula><mml:math id="M300" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation ratios were also
significantly different between categories (Fig. 4). There was an overall
negative relationship between DOC and NO<inline-formula><mml:math id="M301" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>, with a significant
interaction with infrastructure category (Fig. 4c; ANCOVA, <inline-formula><mml:math id="M302" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value &lt; 0.008).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F4"><caption><p>Scatterplots of <bold>(a)</bold> N<inline-formula><mml:math id="M303" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation vs. <italic>xs</italic>CO<inline-formula><mml:math id="M304" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>-AOU
(<inline-formula><mml:math id="M305" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M),
<bold>(b)</bold> CH<inline-formula><mml:math id="M306" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation vs. anaerobic CO<inline-formula><mml:math id="M307" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, and <bold>(c)</bold> relationships between
NO<inline-formula><mml:math id="M308" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> and DOC. Lines denote significant (<inline-formula><mml:math id="M309" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> &lt; 0.01)
correlations among gas or solute concentrations, which vary by
infrastructure category.</p></caption>
          <?xmltex \igopts{width=241.848425pt}?><graphic xlink:href="https://bg.copernicus.org/articles/14/2831/2017/bg-14-2831-2017-f04.pdf"/>

        </fig>

      <?xmltex \floatpos{t}?><fig id="Ch1.F5" specific-use="star"><caption><p>Longitudinal variability in CO<inline-formula><mml:math id="M310" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> <bold>(a–b)</bold>, CH<inline-formula><mml:math id="M311" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> <bold>(c–d)</bold>, and
N<inline-formula><mml:math id="M312" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O <bold>(e–f)</bold> saturation ratios from spring and fall synoptic surveys of
Dead Run and Red Run. Dotted lines denote tributaries to each watershed,
while straight lines denote the main stem sites.</p></caption>
          <?xmltex \igopts{width=369.885827pt}?><graphic xlink:href="https://bg.copernicus.org/articles/14/2831/2017/bg-14-2831-2017-f05.pdf"/>

        </fig>

</sec>
<sec id="Ch1.S2.SS6">
  <title>Longitudinal patterns in GHG saturation</title>
      <p>Spatial variability in GHG saturation was examined in order to evaluate
whether concentrations measured in tributaries were consistent between
headwaters and the larger third-order watersheds of Red Run and Dead Run
respectively (Fig. 5). Multiple linear regressions yielded a set of distinct
controlling factors on saturation of each gas. The optimal models for
CO<inline-formula><mml:math id="M313" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and N<inline-formula><mml:math id="M314" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O were similar and included the log of drainage area,
TDN concentration, log of discharge, and TDN <inline-formula><mml:math id="M315" display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> discharge interaction term.
The CO<inline-formula><mml:math id="M316" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> model also included the DOC : TDN molar ratio. The optimal model for
CH<inline-formula><mml:math id="M317" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation was slightly different and included the log of drainage
area, season (spring vs. fall), DOC concentration, and DOC : TDN molar ratio
(Table 6). TDN concentration was not included in the optimal model for
CH<inline-formula><mml:math id="M318" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>. Watershed location (tributary vs. main stem) was not included in
the final model for any of the three gases.</p>
</sec>
<sec id="Ch1.S2.SS7">
  <title>Greenhouse gas emissions</title>
      <p>GHG emission rates were sensitive to differences in modeled <inline-formula><mml:math id="M319" display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">600</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>.
Despite having medium-to-low gas saturation ratios compared with other
sites, DRKV had the highest GHG emission rates on all dates. This is due in
part to having the highest slope (0.10 m m<inline-formula><mml:math id="M320" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) and thus the highest modeled
<inline-formula><mml:math id="M321" display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">600</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> (m d<inline-formula><mml:math id="M322" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>. Our 37 estimates of <inline-formula><mml:math id="M323" display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">600</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> ranged from 2.4 to
122.6.1 m d<inline-formula><mml:math id="M324" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>. Site-averages for
<inline-formula><mml:math id="M325" display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">600</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> varied from 5.39 <inline-formula><mml:math id="M326" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.73 to 28.0 <inline-formula><mml:math id="M327" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 7.0 m d<inline-formula><mml:math id="M328" 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 median value for all <inline-formula><mml:math id="M329" display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">600</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
estimates was 13.24 m d<inline-formula><mml:math id="M330" 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>. This range of values and site-averaged
values extends beyond that measured by Pennino et al. (2014) of 0.5 to
9.0 m d<inline-formula><mml:math id="M331" 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 discrepancy between Pennino et al.'s (2014) <inline-formula><mml:math id="M332" display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">600</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
measurements is driven by differences in channel gradient. Gradients in the
present study ranged from 0.01 to 0.1, while Pennino's ranged from 0.001 to
0.016 m d<inline-formula><mml:math id="M333" 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>. Channel gradient (<inline-formula><mml:math id="M334" display="inline"><mml:mi>S</mml:mi></mml:math></inline-formula>) is also the parameter with the
greatest uncertainty, thus warranting cautious interpretation of our gas
emission estimates.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T5" specific-use="star"><caption><p>Summary of gas flux estimations for the four sites with continuous
flow data. Average, standard error (SE), and number of measurements (<inline-formula><mml:math id="M335" display="inline"><mml:mi>n</mml:mi></mml:math></inline-formula>)
are listed for CO<inline-formula><mml:math id="M336" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> (g C m<inline-formula><mml:math id="M337" 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="M338" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, CH<inline-formula><mml:math id="M339" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>
(mg C m<inline-formula><mml:math id="M340" 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="M341" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mo>-</mml:mo></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, N<inline-formula><mml:math id="M342" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O (mg N m<inline-formula><mml:math id="M343" 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="M344" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mo>-</mml:mo></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, and predicted <inline-formula><mml:math id="M345" display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">600</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
(m d<inline-formula><mml:math id="M346" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="8">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="left"/>
     <oasis:colspec colnum="4" colname="col4" align="left"/>
     <oasis:colspec colnum="5" colname="col5" align="left"/>
     <oasis:colspec colnum="6" colname="col6" align="left"/>
     <oasis:colspec colnum="7" colname="col7" align="left"/>
     <oasis:colspec colnum="8" colname="col8" align="left"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Infrastructure typology</oasis:entry>  
         <oasis:entry colname="col2">Site</oasis:entry>  
         <oasis:entry colname="col3">Parameter</oasis:entry>  
         <oasis:entry colname="col4">Minimum</oasis:entry>  
         <oasis:entry colname="col5">Maximum</oasis:entry>  
         <oasis:entry colname="col6">Mean</oasis:entry>  
         <oasis:entry colname="col7">SE</oasis:entry>  
         <oasis:entry colname="col8"><inline-formula><mml:math id="M347" display="inline"><mml:mi>n</mml:mi></mml:math></inline-formula></oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">Stream burial</oasis:entry>  
         <oasis:entry colname="col2">DRAL</oasis:entry>  
         <oasis:entry colname="col3">CO<inline-formula><mml:math id="M348" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">2.37</oasis:entry>  
         <oasis:entry colname="col5">23.12</oasis:entry>  
         <oasis:entry colname="col6">11.51</oasis:entry>  
         <oasis:entry colname="col7">6.12</oasis:entry>  
         <oasis:entry colname="col8">5</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Inline SWM</oasis:entry>  
         <oasis:entry colname="col2">DRGG</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">53.28</oasis:entry>  
         <oasis:entry colname="col5">548.01</oasis:entry>  
         <oasis:entry colname="col6">134.55</oasis:entry>  
         <oasis:entry colname="col7">30.18</oasis:entry>  
         <oasis:entry colname="col8">3</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Inline SWM</oasis:entry>  
         <oasis:entry colname="col2">DRKV</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">3.39</oasis:entry>  
         <oasis:entry colname="col5">23.81</oasis:entry>  
         <oasis:entry colname="col6">10.30</oasis:entry>  
         <oasis:entry colname="col7">1.74</oasis:entry>  
         <oasis:entry colname="col8">18</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Floodplain preservation</oasis:entry>  
         <oasis:entry colname="col2">RRRB</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">0.61</oasis:entry>  
         <oasis:entry colname="col5">5.51</oasis:entry>  
         <oasis:entry colname="col6">2.55</oasis:entry>  
         <oasis:entry colname="col7">1.10</oasis:entry>  
         <oasis:entry colname="col8">11</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Stream burial</oasis:entry>  
         <oasis:entry colname="col2">DRAL</oasis:entry>  
         <oasis:entry colname="col3">CH<inline-formula><mml:math id="M349" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">7.71</oasis:entry>  
         <oasis:entry colname="col5">23.67</oasis:entry>  
         <oasis:entry colname="col6">14.09</oasis:entry>  
         <oasis:entry colname="col7">4.88</oasis:entry>  
         <oasis:entry colname="col8">5</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Inline SWM</oasis:entry>  
         <oasis:entry colname="col2">DRGG</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">2.27</oasis:entry>  
         <oasis:entry colname="col5">1339.62</oasis:entry>  
         <oasis:entry colname="col6">102.51</oasis:entry>  
         <oasis:entry colname="col7">75.57</oasis:entry>  
         <oasis:entry colname="col8">3</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Inline SWM</oasis:entry>  
         <oasis:entry colname="col2">DRKV</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">3.26</oasis:entry>  
         <oasis:entry colname="col5">62.98</oasis:entry>  
         <oasis:entry colname="col6">16.80</oasis:entry>  
         <oasis:entry colname="col7">5.29</oasis:entry>  
         <oasis:entry colname="col8">18</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Floodplain preservation</oasis:entry>  
         <oasis:entry colname="col2">RRRB</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">2.19</oasis:entry>  
         <oasis:entry colname="col5">12.11</oasis:entry>  
         <oasis:entry colname="col6">6.69</oasis:entry>  
         <oasis:entry colname="col7">2.19</oasis:entry>  
         <oasis:entry colname="col8">11</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Stream burial</oasis:entry>  
         <oasis:entry colname="col2">DRAL</oasis:entry>  
         <oasis:entry colname="col3">N<inline-formula><mml:math id="M350" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">2.13</oasis:entry>  
         <oasis:entry colname="col5">24.21</oasis:entry>  
         <oasis:entry colname="col6">12.33</oasis:entry>  
         <oasis:entry colname="col7">6.43</oasis:entry>  
         <oasis:entry colname="col8">5</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Inline SWM</oasis:entry>  
         <oasis:entry colname="col2">DRGG</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">60.45</oasis:entry>  
         <oasis:entry colname="col5">565.17</oasis:entry>  
         <oasis:entry colname="col6">149.63</oasis:entry>  
         <oasis:entry colname="col7">33.91</oasis:entry>  
         <oasis:entry colname="col8">3</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Inline SWM</oasis:entry>  
         <oasis:entry colname="col2">DRKV</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">1.90</oasis:entry>  
         <oasis:entry colname="col5">8.61</oasis:entry>  
         <oasis:entry colname="col6">5.14</oasis:entry>  
         <oasis:entry colname="col7">0.79</oasis:entry>  
         <oasis:entry colname="col8">18</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Floodplain preservation</oasis:entry>  
         <oasis:entry colname="col2">RRRB</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">2.57</oasis:entry>  
         <oasis:entry colname="col5">16.98</oasis:entry>  
         <oasis:entry colname="col6">7.03</oasis:entry>  
         <oasis:entry colname="col7">2.63</oasis:entry>  
         <oasis:entry colname="col8">11</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Stream burial</oasis:entry>  
         <oasis:entry colname="col2">DRAL</oasis:entry>  
         <oasis:entry colname="col3"><inline-formula><mml:math id="M351" display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">600</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">3.84</oasis:entry>  
         <oasis:entry colname="col5">19.20</oasis:entry>  
         <oasis:entry colname="col6">10.97</oasis:entry>  
         <oasis:entry colname="col7">4.47</oasis:entry>  
         <oasis:entry colname="col8">5</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Inline SWM</oasis:entry>  
         <oasis:entry colname="col2">DRGG</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">12.82</oasis:entry>  
         <oasis:entry colname="col5">122.59</oasis:entry>  
         <oasis:entry colname="col6">28.02</oasis:entry>  
         <oasis:entry colname="col7">7.06</oasis:entry>  
         <oasis:entry colname="col8">3</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Inline SWM</oasis:entry>  
         <oasis:entry colname="col2">DRKV</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">2.40</oasis:entry>  
         <oasis:entry colname="col5">8.89</oasis:entry>  
         <oasis:entry colname="col6">5.39</oasis:entry>  
         <oasis:entry colname="col7">0.73</oasis:entry>  
         <oasis:entry colname="col8">18</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Floodplain preservation</oasis:entry>  
         <oasis:entry colname="col2">RRRB</oasis:entry>  
         <oasis:entry colname="col3"/>  
         <oasis:entry colname="col4">2.57</oasis:entry>  
         <oasis:entry colname="col5">13.91</oasis:entry>  
         <oasis:entry colname="col6">6.45</oasis:entry>  
         <oasis:entry colname="col7">2.33</oasis:entry>  
         <oasis:entry colname="col8">11</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T6" specific-use="star"><caption><p>Covariates and model fit parameters for linear models describing
drivers of gas saturation ratios (CO<inline-formula><mml:math id="M352" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math id="M353" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, and N<inline-formula><mml:math id="M354" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O) from
longitudinal surveys of Dead Run and Red Run. X's denote that a given
parameter was used in the final model while dashes (–) denote that parameters were not
used.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="4">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="center"/>
     <oasis:colspec colnum="3" colname="col3" align="center"/>
     <oasis:colspec colnum="4" colname="col4" align="center"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Covariates tested</oasis:entry>  
         <oasis:entry colname="col2">CO<inline-formula><mml:math id="M355" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> sat. ratio</oasis:entry>  
         <oasis:entry colname="col3">CH<inline-formula><mml:math id="M356" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> sat. ratio</oasis:entry>  
         <oasis:entry colname="col4">N<inline-formula><mml:math id="M357" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O sat. ratio</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">Log of drainage area (km<inline-formula><mml:math id="M358" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col2">X</oasis:entry>  
         <oasis:entry colname="col3">X</oasis:entry>  
         <oasis:entry colname="col4">X</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Watershed (Dead Run vs. Red Run)</oasis:entry>  
         <oasis:entry colname="col2">–</oasis:entry>  
         <oasis:entry colname="col3">–</oasis:entry>  
         <oasis:entry colname="col4">–</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Season</oasis:entry>  
         <oasis:entry colname="col2">–</oasis:entry>  
         <oasis:entry colname="col3">X</oasis:entry>  
         <oasis:entry colname="col4">X</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">DOC (mg L<inline-formula><mml:math id="M359" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col2">–</oasis:entry>  
         <oasis:entry colname="col3">X</oasis:entry>  
         <oasis:entry colname="col4">–</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">DIC (mg L<inline-formula><mml:math id="M360" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col2">–</oasis:entry>  
         <oasis:entry colname="col3">–</oasis:entry>  
         <oasis:entry colname="col4">–</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">TDN (mg L<inline-formula><mml:math id="M361" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col2">X</oasis:entry>  
         <oasis:entry colname="col3">–</oasis:entry>  
         <oasis:entry colname="col4">X</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Log of Q (m<inline-formula><mml:math id="M362" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msup></mml:math></inline-formula> s<inline-formula><mml:math id="M363" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col2">X</oasis:entry>  
         <oasis:entry colname="col3">–</oasis:entry>  
         <oasis:entry colname="col4">X</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Location (tributary vs. main stem)</oasis:entry>  
         <oasis:entry colname="col2">–</oasis:entry>  
         <oasis:entry colname="col3">–</oasis:entry>  
         <oasis:entry colname="col4">–</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">DOC : TDN molar ratio</oasis:entry>  
         <oasis:entry colname="col2">X</oasis:entry>  
         <oasis:entry colname="col3">X</oasis:entry>  
         <oasis:entry colname="col4">–</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">TDN x log of drainage area interaction</oasis:entry>  
         <oasis:entry colname="col2">X</oasis:entry>  
         <oasis:entry colname="col3">–</oasis:entry>  
         <oasis:entry colname="col4">X</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">DOC x log of drainage area interaction</oasis:entry>  
         <oasis:entry colname="col2">–</oasis:entry>  
         <oasis:entry colname="col3">–</oasis:entry>  
         <oasis:entry colname="col4">–</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Model AIC</oasis:entry>  
         <oasis:entry colname="col2">336.85</oasis:entry>  
         <oasis:entry colname="col3">542.14</oasis:entry>  
         <oasis:entry colname="col4">263.59</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Overall model <inline-formula><mml:math id="M364" 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></oasis:entry>  
         <oasis:entry colname="col2">0.789</oasis:entry>  
         <oasis:entry colname="col3">0.153</oasis:entry>  
         <oasis:entry colname="col4">0.795</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Overall model <inline-formula><mml:math id="M365" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> value</oasis:entry>  
         <oasis:entry colname="col2">&lt; 0.008</oasis:entry>  
         <oasis:entry colname="col3">0.0082</oasis:entry>  
         <oasis:entry colname="col4">&lt; 0.008</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

      <p>Site-average CO<inline-formula><mml:math id="M366" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> emissions ranged from 6.4 <inline-formula><mml:math id="M367" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 2.3 g C m<inline-formula><mml:math id="M368" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M369" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> at DRAL (<inline-formula><mml:math id="M370" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula>standard error) to 134 <inline-formula><mml:math id="M371" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 30.2 at DRKV.
Mean emission rates for DRGG and RRRB were 11.5 <inline-formula><mml:math id="M372" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 6.1 and 10.3 <inline-formula><mml:math id="M373" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 1.7 respectively. Site-average CH<inline-formula><mml:math id="M374" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> emissions ranged from 2.6 <inline-formula><mml:math id="M375" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 1.1
at DRAL to 102.5 <inline-formula><mml:math id="M376" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 75.6 mg C m<inline-formula><mml:math id="M377" 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="M378" 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 DRKV. N<inline-formula><mml:math id="M379" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
emissions ranged from 5.1 <inline-formula><mml:math id="M380" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.8 at RRRB to 149 <inline-formula><mml:math id="M381" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 33.9 mg N m<inline-formula><mml:math id="M382" 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="M383" 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 DRKV. The full range of values and standard errors for
fluxes are listed in Table 5.</p>
</sec>
</sec>
<sec id="Ch1.S3">
  <title>Discussion</title>
<sec id="Ch1.S3.SS1">
  <title>Overview</title>
      <p>This study showed strong relationships between urban water quality and GHG
saturation across streams draining different forms of urban infrastructure.
N<inline-formula><mml:math id="M384" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O and CO<inline-formula><mml:math id="M385" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> saturation was correlated with nitrogen
concentrations but did not differ between infrastructure typologies. DOC : NO<inline-formula><mml:math id="M386" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> did differ among the four infrastructure categories, however
(Table 2). While infrastructure categories did not show a significant
predictor of GHG saturation in streams, the gradients in DOC : NO<inline-formula><mml:math id="M387" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>
found across all categories were strongly correlated with GHG saturation.
Stoichiometric variation may thus serve as a predictor of GHG saturation
downstream where land cover and infrastructure does not. While direct GHG
loading to streams from leaky sanitary and/or stormwater infrastructure
may play a role, the strongest predictors of GHGs in this study were
continuous/environmental variables (i.e., TDN and DOC concentrations, DO,
temperature), rather than categorical (infrastructure category).
Relationships between anaerobic <italic>xs</italic>CO<inline-formula><mml:math id="M388" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>-AOU
and N<inline-formula><mml:math id="M389" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation
further suggest that anaerobic metabolism contributes to N<inline-formula><mml:math id="M390" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O production
along hydrologic flow paths (Fig. 4).</p>
</sec>
<sec id="Ch1.S3.SS2">
  <?xmltex \opttitle{C\,:\,N stoichiometry as an indicator of microbial metabolism}?><title>C : N stoichiometry as an indicator of microbial metabolism</title>
      <p>By comparing various forms of infrastructure, results from this study
support a growing understanding of the biogeochemical consequences of
expanded hydrologic connectivity in urban watersheds. Strong inverse
relationships between DOC and NO<inline-formula><mml:math id="M391" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> present across all
infrastructure categories (Fig. 4c) suggest that organic carbon availability
modulates inorganic nitrogen loading to streams. DOC availability has been
shown to control NO<inline-formula><mml:math id="M392" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> concentrations across terrestrial and
aquatic ecosystems through a variety of coupled microbial processes (Hedin
et al., 1998; Kaushal and Lewis, 2005; Taylor and Townsend, 2010).
Additionally, the average DOC : NO<inline-formula><mml:math id="M393" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> ratio (i.e., the slope of this
relationship) varied significantly across categories. Variation in this
relationship is likely driven by a combination of differential N loading
across categories as well as different capacities for microbial N uptake and
removal.</p>
      <p>We speculate that the location of infrastructure on the landscape may affect
the relative importance of direct anthropogenic loading vs. microbial
processes on DOC : NO<inline-formula><mml:math id="M394" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> ratios of stream water. For instance we
found high concentrations of NO<inline-formula><mml:math id="M395" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> and low DOC in streams
draining septic systems. Much of this excess NO<inline-formula><mml:math id="M396" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> is likely from
septic plumes, but the lack of DOC may be the result of microbial C
mineralization along subsurface flow paths. On the other end of the spectrum,
there were very low NO<inline-formula><mml:math id="M397" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> and TDN concentrations
in streams draining watersheds in the
floodplain preservation category, which were also newly developed. In this
case, the higher C : N may have been driven by lower N leakage rates as well
as improved ecological function of the preserved floodplain wetlands to
remove any N that does enter the groundwater from stormwater or sewage
leaks.</p>
      <p>Understanding the spatial variability in N<inline-formula><mml:math id="M398" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O concentrations, as well as
the processes responsible for N<inline-formula><mml:math id="M399" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O production and NO<inline-formula><mml:math id="M400" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> removal
in watersheds, is useful for informing watershed management. The relationship
between N<inline-formula><mml:math id="M401" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O and CO<inline-formula><mml:math id="M402" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> can provide insight into production mechanisms
because nitrification consumes CO<inline-formula><mml:math id="M403" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> while denitrification simultaneously
produces N<inline-formula><mml:math id="M404" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O and CO<inline-formula><mml:math id="M405" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>. We found a strong positive relationship
between N<inline-formula><mml:math id="M406" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation and CO<inline-formula><mml:math id="M407" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> concentrations, suggesting that
denitrification was the primary source of N<inline-formula><mml:math id="M408" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O (Fig. 5c). By contrast,
very low DOC : NO<inline-formula><mml:math id="M409" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> ratios (Fig. 2) in stream water with the highest
N<inline-formula><mml:math id="M410" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation (Fig. 3a) suggest that nitrification was the dominant
process at these sites. Taylor and Townsend (2010) suggest that the ideal
DOC : NO<inline-formula><mml:math id="M411" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> stoichiometry for denitrification is <inline-formula><mml:math id="M412" display="inline"><mml:mrow><mml:mn mathvariant="normal">1</mml:mn><mml:mo>:</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> and that
persistent conditions below that are more ideal for nitrification. DOC : NO<inline-formula><mml:math id="M413" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> was consistently below 1 in streams in septic system
infrastructure, suggesting that in-stream denitrification would be carbon
limited. We measured DOC : NO<inline-formula><mml:math id="M414" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> consistently above 1 at sites in
riparian/floodplain preservation typology, suggesting NO<inline-formula><mml:math id="M415" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> was
limiting for in-stream denitrification in this infrastructure category.
Conversely, the mean stoichiometric ratio was consistently near 1 in sites
with inline SWM wetlands and stream burial, suggesting that denitrification
may be occurring within the stream channel at these sites. While DOC : NO<inline-formula><mml:math id="M416" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> stoichiometry in watersheds with septic systems appeared more
favorable for nitrification, the positive <italic>xs</italic>CO<inline-formula><mml:math id="M417" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>-AOU vs. N<inline-formula><mml:math id="M418" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
relationships in these streams suggest that these gases were produced
anaerobically (by denitrification). One possible explanation for this
discrepancy is that the N<inline-formula><mml:math id="M419" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O and CO<inline-formula><mml:math id="M420" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> observed in the stream were
produced under stoichiometric conditions more favorable for denitrification
along groundwater flow paths prior to emerging in the stream channel.
Denitrification occurring along groundwater flow paths may draw down the DOC
concentration as it is converted to CO<inline-formula><mml:math id="M421" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>; however, the initial N load in
septic plumes may be too high to noticeably decline. Pabich et al. (2001)
documented this phenomenon, in which DOC concentrations in a septic plume
were quite high (&gt; 20 mg L<inline-formula><mml:math id="M422" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> in the upper part of the
plume and declined exponentially, resulting in a very low DOC : NO<inline-formula><mml:math id="M423" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>
ratio at depth.</p>
      <p>Overall, the relationships between CH<inline-formula><mml:math id="M424" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> and CO<inline-formula><mml:math id="M425" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> were much weaker
and more variable than the relationships between CO<inline-formula><mml:math id="M426" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and N<inline-formula><mml:math id="M427" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
(Fig. 4). While CO<inline-formula><mml:math id="M428" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and CH<inline-formula><mml:math id="M429" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> are sometimes correlated in wetlands
and rivers with low oxygen (Richey et al., 1998), this was not the case for
our study sites. Instead, CO<inline-formula><mml:math id="M430" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and N<inline-formula><mml:math id="M431" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O were highly coupled,
suggesting prevalence of NO<inline-formula><mml:math id="M432" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula> as a terminal electron acceptor over
CO<inline-formula><mml:math id="M433" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>.</p>
</sec>
<sec id="Ch1.S3.SS3">
  <?xmltex \opttitle{Effects of infrastructure on N${}_{{2}}$O saturation and emissions}?><title>Effects of infrastructure on N<inline-formula><mml:math id="M434" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation and emissions</title>
      <p>The present study documents some of the highest N<inline-formula><mml:math id="M435" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O concentrations
currently reported in the literature for streams and rivers, ranging from
0.009 to 0.55 <inline-formula><mml:math id="M436" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M, with a median value of 0.07 <inline-formula><mml:math id="M437" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M and mean of
0.11 <inline-formula><mml:math id="M438" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M N<inline-formula><mml:math id="M439" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O-N. This range of concentration is greater than that
reported for headwater agricultural and mixed land use streams in the
Midwestern United States (0.03–0.07 <inline-formula><mml:math id="M440" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M, Werner et al., 2012; 0.03
to 0.15 <inline-formula><mml:math id="M441" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M, Beaulieu et al., 2008). A similar range of dissolved
N<inline-formula><mml:math id="M442" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O concentrations was reported for macrophyte-rich agriculturally
influenced streams in New Zealand (0.06 to 0.60 <inline-formula><mml:math id="M443" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M, Wilcock and
Sorrell, 2008). The only report of higher dissolved N<inline-formula><mml:math id="M444" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O concentrations
in streams is from a subtropical stream receiving irrigation runoff,
livestock waste, and urban sewage (saturation ratio maximum of 60 compared with
47 in this study; Harrison et al., 2005).</p>
      <p>Average daily N<inline-formula><mml:math id="M445" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O emissions were high, ranging from 5.1 to 149.6 mg N<inline-formula><mml:math id="M446" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O-N m<inline-formula><mml:math id="M447" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M448" 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>. Our value rates fall on the high end compared
with numerous studies of N<inline-formula><mml:math id="M449" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O emission from urban and agriculturally
influenced waterways, including agricultural drains in Japan (maximum <inline-formula><mml:math id="M450" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 179 mg N m<inline-formula><mml:math id="M451" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M452" 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>; Hasegawa et al., 2000) or the Humber Estuary,
UK (maximum <inline-formula><mml:math id="M453" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 121 mg N m<inline-formula><mml:math id="M454" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M455" 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>; Barnes and Owens, 1998). When the highest site
(DRKV) is removed, these average daily fluxes remain high (range from 5.1 to
12.3 mg N m<inline-formula><mml:math id="M456" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M457" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> compared with estimates reported for nitrogen-enriched agricultural and mixed land use streams in the Midwestern U.S. from
Beaulieu et al. (2008) (mean <inline-formula><mml:math id="M458" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 0.84 and maximum <inline-formula><mml:math id="M459" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 6.4 mg N<inline-formula><mml:math id="M460" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O-N m<inline-formula><mml:math id="M461" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M462" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>. Laursen and Seitzinger (2004) reported higher maximum
rates (20 mg N m<inline-formula><mml:math id="M463" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M464" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> to our overall median N<inline-formula><mml:math id="M465" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O emission
rates (13.8 mg N m<inline-formula><mml:math id="M466" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M467" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> and the maximum daily rates measured in
tropical agricultural streams in Mexico (mean <inline-formula><mml:math id="M468" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 1.2 maximum <inline-formula><mml:math id="M469" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 58.8 mg N<inline-formula><mml:math id="M470" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O-N m<inline-formula><mml:math id="M471" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M472" 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>; Harrison and Matson, 2003). While our measured
N<inline-formula><mml:math id="M473" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation ratios were highly correlated solute concentrations and
redox conditions (Table 4), emission rates were sensitive to the gas transfer
velocity (<inline-formula><mml:math id="M474" display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">600</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, which varied by 2 orders of magnitude in our study
(Table 6), and fell within the range of values estimated by Raymond et
al. (2012).</p>
      <p>Correlations between TDN and N<inline-formula><mml:math id="M475" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O concentrations in this study highlight
the role of urban N loading on GHG production along urban flow paths, which
include groundwater, within pipes, and along the stream networks (Tables 3
and 4). While urban streams receive a mixture of different N sources
including fertilizer, wastewater, and atmospheric deposition (e.g., Kaushal et al., 2011; Pennino et al., 2016), the location of aging gravity sewers
adjacent to stream channels is likely to influence the relative importance
of sewage on N and N<inline-formula><mml:math id="M476" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O loading to streamwater. While this source of
N<inline-formula><mml:math id="M477" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O emission is likely a small portion of the global budget, gaseous
losses of N can contribute a significant portion of watershed-scale N budgets,
which are relevant to nutrient management (Gardner et al., 2016). N<inline-formula><mml:math id="M478" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
emissions from uncollected human waste (i.e., leaky sanitary sewer lines,
septic system effluent, dug pits) are largely unmeasured globally (Strokal
and Kroeze, 2014; UNEP, 2013) and warrant further study in the context of
watershed management as well as local GHG accounting. Direct emissions from
wastewater treatment plants are well documented (Foley et al., 2010;
Townsend-Small et al., 2011; Strokal and Kroeze, 2014; UNEP, 2013); however, the
upstream losses of N<inline-formula><mml:math id="M479" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O from delivery pipes into streams and rivers are
not well documented (Short et al., 2014). Short et al. (2014) measured N<inline-formula><mml:math id="M480" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
concentrations in WWTP influent in Australia and determined that sanitary
sewers are consistently supersaturated with N<inline-formula><mml:math id="M481" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, with concentrations
in excess of equilibrium by as much as 3.5 <inline-formula><mml:math id="M482" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M. Average daily sewer pipe
<italic>xs</italic>N<inline-formula><mml:math id="M483" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O concentrations were 0.55 <inline-formula><mml:math id="M484" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M, which is nearly identical to the
maximum <italic>xs</italic>N<inline-formula><mml:math id="M485" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O measured in the present study (0.54 <inline-formula><mml:math id="M486" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>M). While
wastewater only contributes a portion of excess N in urban streams, further
accounting for this source is necessary to improve municipal N<inline-formula><mml:math id="M487" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
budgets.</p>
      <p>Synoptic surveys of N<inline-formula><mml:math id="M488" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation in Red Run and Dead Run in this
study provide evidence that the entire network is a net source of N<inline-formula><mml:math id="M489" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
(Fig. 5). N<inline-formula><mml:math id="M490" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation shows a significant decline with increasing
drainage area (Table 6, Fig. 5), suggesting that emissions outpace new
sources to the water column. Variability in gas concentration headwater
sites and along the third-order stream networks is largely explained by
a combination of discharge and/or drainage area as well as N concentrations
and C : N stoichiometry in streamwater.</p>
</sec>
<sec id="Ch1.S3.SS4">
  <?xmltex \opttitle{Effects of infrastructure on CH${}_{{4}}$ saturation and emissions}?><title>Effects of infrastructure on CH<inline-formula><mml:math id="M491" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation and emissions</title>
      <p>Methane was consistently supersaturated across all streams in this study
and varied significantly across headwater infrastructure categories. The
highest CH<inline-formula><mml:math id="M492" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation ratios were measured in sites with riparian
reconnection (RRRM and RRRB) followed by streams draining inline SWM
wetlands (DRKV and DRGG; Fig. 3 as with CO<inline-formula><mml:math id="M493" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>. CH<inline-formula><mml:math id="M494" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation was
negatively correlated with DO; however, CH<inline-formula><mml:math id="M495" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> was positively correlated
with DOC : NO<inline-formula><mml:math id="M496" display="inline"><mml:mrow><mml:msubsup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn><mml:mo>-</mml:mo></mml:msubsup></mml:mrow></mml:math></inline-formula>. CO<inline-formula><mml:math id="M497" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and N<inline-formula><mml:math id="M498" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, by contrast, were more
strongly and positively correlated with TDN (Table 4). These patterns
suggest that, along with redox conditions, carbon availability may modulate
CH<inline-formula><mml:math id="M499" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> production as well.</p>
      <p>CH<inline-formula><mml:math id="M500" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> concentrations in our study ranged from 0.06 to
6.08 <inline-formula><mml:math id="M501" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>mol L<inline-formula><mml:math id="M502" 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 is equivalent to the mean <inline-formula><mml:math id="M503" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula>standard deviation of concentrations
reported by a meta-analysis by Stanley et al. (2016). The saturation ratio (3.0
to 2157) fell within the lower range of previously measured values in
agricultural streams in Canada (saturation ratio of 500 to 5000; Baulch et al., 2011a). Mean daily CH<inline-formula><mml:math id="M504" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> emissions estimates in this study ranged from
2.6 to 103.5 mg CH<inline-formula><mml:math id="M505" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>-C m<inline-formula><mml:math id="M506" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M507" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> and are comparable to
measurements in agricultural streams of New Zealand (Wilcock and Sorrel,
2008; 17–56 mg CH<inline-formula><mml:math id="M508" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>-C m<inline-formula><mml:math id="M509" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M510" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> and southern Canada (20–172 mg C m<inline-formula><mml:math id="M511" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M512" 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>, Baulch et al., 2011); however, these studies also measured
ebullitive (i.e., bubble) fluxes, whereas the present study only examined
diffusive emissions. Stanley et al. (2016) reported the average of all
current CH<inline-formula><mml:math id="M513" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> emission rates to be 98.7 mg CH<inline-formula><mml:math id="M514" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>-C m<inline-formula><mml:math id="M515" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> d<inline-formula><mml:math id="M516" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>, with a minimum of <inline-formula><mml:math id="M517" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>125.3 and a maximum of  5194 overall. While the
CH<inline-formula><mml:math id="M518" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> emission estimates in the present study have a large margin of
uncertainty due to the nature of estimating gas flux parameters as well as
the lack of ebullitive flux measurements, our sites were consistently
sources to the atmosphere throughout the year at both headwater sites
(Fig. 3) and throughout third-order drainage networks (Fig. 5b).
Differences in CH<inline-formula><mml:math id="M519" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> abundance across infrastructure categories, as well
as the negative relationship between CH<inline-formula><mml:math id="M520" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation and TDN, suggest
that CH<inline-formula><mml:math id="M521" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> may increase if TDN declines with the addition of stormwater
wetlands and floodplain reconnection in urban areas.</p>
</sec>
</sec>
<sec id="Ch1.S4" sec-type="conclusions">
  <title>Conclusions</title>
      <p>Urban watersheds are highly altered systems, with heterogeneous forms of
infrastructure and water quality impairment. The present study demonstrates
that N<inline-formula><mml:math id="M522" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O and CH<inline-formula><mml:math id="M523" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula> saturation and emissions from urbanized
headwaters are on the high end of estimates currently reported in the
literature. Variations in urban infrastructure (i.e., SWM wetlands, riparian
connectivity, septic systems) influenced the C : N stoichiometry and redox state
of urban streams. These in-stream variables, along with potential direct
sources from leaky sanitary sewer lines, may contribute to increased GHG
production and/or delivery to streams. Our results suggest that N from
septic plumes and sanitary sewer lines is the principal source of N<inline-formula><mml:math id="M524" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O
saturation in our study sites. Dissolved inorganic N is highly correlated
with N<inline-formula><mml:math id="M525" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O in our study sites, and the highest values are only present in
watersheds with aging sanitary sewer infrastructure or septic systems. Our
observations of N<inline-formula><mml:math id="M526" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O saturation and emissions from urban and suburban
headwater streams are comparable with streams and ditches in intensive
agricultural watersheds (Harrison and Matson, 2003; Outram  and Hiscock, 2012).
These results suggest that streams draining medium-to-low-density suburban
or exurban land cover are comparable to those in intensively managed
agricultural areas in terms of N<inline-formula><mml:math id="M527" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O emissions.</p>
</sec>

      
      </body>
    <back><notes notes-type="codeavailability">

      <p>The authors are happy to share any and all codes used to
produce this paper. Please contact the corresponding author with
inquiries about the codes used.</p>
  </notes><notes notes-type="dataavailability">

      <p>The authors have provided tables of all raw data
collected for this study in the Supplement files. These
datasets will additionally be available as part of the Baltimore Ecosystem
Study LTER site archive (<uri>www.beslter.org</uri>).</p>
  </notes><app-group>
        <supplementary-material position="anchor"><p><bold>The Supplement related to this article is available online at <inline-supplementary-material xlink:href="https://doi.org/10.5194/bg-14-2831-2017-supplement" xlink:title="zip">https://doi.org/10.5194/bg-14-2831-2017-supplement</inline-supplementary-material>.</bold></p></supplementary-material>
        </app-group><notes notes-type="authorcontribution">

      <p>R. Smith, S. Kaushal, C. Welty, and M. Pennino selected sampling sites based
on infrastructure typology. R. Smith, S. Kaushal, and J. Beaulieu designed
the gas and solute sampling design. R. Smith and J. Beaulieu analyzed
samples for solute and gas concentrations respectively. C. Welty collected
continuous flow data from headwater gaging stations. J. Beaulieu provided
key insights into the interpretation of gas concentrations and statistical
analyses and gas flux estimations. M. Pennino provided data used for
estimating <inline-formula><mml:math id="M528" display="inline"><mml:mrow><mml:msub><mml:mi>K</mml:mi><mml:mn mathvariant="normal">20</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>. S. Kaushal and C. Welty provided funding for the
project. All coauthors provided feedback on multiple versions of the
manuscript.</p>
  </notes><notes notes-type="competinginterests">

      <p>The authors declare that they have no conflict of interest.</p>
  </notes><ack><title>Acknowledgements</title><p>The authors gratefully acknowledge funding from the National Science
Foundation Water Sustainability and Climate program (NSF grants CBET-1058038
and CBET-1058502) as well as the scientific infrastructure provided by the
Baltimore Ecosystem Study LTER (<uri>www.beslter.org</uri>; NSF grant
DEB-1027188). Field data collection was also partially supported by NOAA
grant NA10OAR431220 to the Center for Urban Environmental Research and
Education (<uri>http://cuere.umbc.edu</uri>) and the Water Resources mission
area of the US Geological Survey (<uri>http://water.usgs.gov</uri>). Daniel Jones provided
advice on spatial analyses, and numerous individuals including Tamara Newcomer, Tom Doody, Evan McMullen, John Urban, Shahan Haq, Julia Gorman,
Julia Miller, John Kemper, Erin Stapleton, and Joshua Cole provided field
assistance and/or feedback on drafts of this manuscript. The views expressed
in this article are those of the authors and do not necessarily reflect the
views or policies of the US Environmental Protection Agency.<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?>
Edited by: T. J. Battin<?xmltex \hack{\newline}?>
Reviewed by:  two anonymous referees</p></ack><ref-list>
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    <!--<article-title-html>Influence of infrastructure on water quality and greenhouse gas dynamics in urban streams</article-title-html>
<abstract-html><p class="p">Streams and rivers are significant sources of nitrous oxide
(N<sub>2</sub>O), carbon dioxide (CO<sub>2</sub>), and methane (CH<sub>4</sub>) globally, and
watershed management can alter greenhouse gas (GHG) emissions from streams.
We hypothesized that urban infrastructure significantly alters downstream
water quality and contributes to variability in GHG saturation and emissions.
We measured gas saturation and estimated emission rates in headwaters of two
urban stream networks (Red Run and Dead Run) of the Baltimore Ecosystem Study
Long-Term Ecological Research
project. We identified four combinations of
stormwater and sanitary infrastructure present in these watersheds,
including: (1) stream burial, (2) inline stormwater wetlands, (3) riparian/floodplain preservation, and (4) septic systems. We selected two first-order
catchments in each of these categories and measured GHG concentrations,
emissions, and dissolved inorganic and organic carbon (DIC and DOC) and nutrient
concentrations biweekly for 1 year. From a water quality perspective, the
DOC : NO<sub>3</sub><sup>−</sup>  ratio of streamwater was significantly different across
infrastructure categories. Multiple linear regressions including DOC : NO<sub>3</sub><sup>−</sup> and other variables (dissolved oxygen, DO; total dissolved nitrogen, TDN;
and temperature) explained much of
the statistical variation in nitrous oxide (N<sub>2</sub>O, <i>r</i><sup>2</sup> =  0.78), carbon
dioxide (CO<sub>2</sub>, <i>r</i><sup>2</sup> =  0.78), and methane (CH<sub>4</sub>, <i>r</i><sup>2</sup> =  0.50)
saturation in stream water. We measured N<sub>2</sub>O saturation ratios, which
were among the highest reported in the literature for streams, ranging from
1.1 to 47 across all sites and dates. N<sub>2</sub>O saturation ratios were highest
in streams draining watersheds with septic systems and strongly correlated
with TDN. The CO<sub>2</sub> saturation ratio was highly correlated with the N<sub>2</sub>O
saturation ratio across all sites and dates, and the CO<sub>2</sub> saturation ratio
ranged from 1.1 to 73. CH<sub>4</sub> was always supersaturated, with saturation
ratios ranging from 3.0 to  2157. Longitudinal surveys extending form
headwaters to third-order outlets of Red Run and Dead Run took place in
spring and fall. Linear regressions of these data yielded significant negative
relationships between each gas with increasing watershed size as well as
consistent relationships between solutes (TDN or DOC, and DOC : TDN ratio) and
gas saturation. Despite a decline in gas saturation between the headwaters
and stream outlet, streams remained saturated with GHGs throughout the
drainage network, suggesting that urban streams are continuous sources of
CO<sub>2</sub>, CH<sub>4</sub>, and N<sub>2</sub>O. Our results suggest that infrastructure
decisions can have significant effects on downstream water quality and
greenhouse gases, and watershed management strategies may need to consider
coupled impacts on urban water and air quality.</p></abstract-html>
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