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  <front>
    <journal-meta><journal-id journal-id-type="publisher">ACP</journal-id><journal-title-group>
    <journal-title>Atmospheric Chemistry and Physics</journal-title>
    <abbrev-journal-title abbrev-type="publisher">ACP</abbrev-journal-title><abbrev-journal-title abbrev-type="nlm-ta">Atmos. Chem. Phys.</abbrev-journal-title>
  </journal-title-group><issn pub-type="epub">1680-7324</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/acp-18-2615-2018</article-id><title-group><article-title>Southeast Atmosphere Studies: learning from model-observation syntheses</article-title>
      </title-group><?xmltex \runningtitle{Learning from model-observation syntheses}?><?xmltex \runningauthor{J. Mao et al.}?>
      <contrib-group>
        <contrib contrib-type="author" corresp="yes" rid="aff1">
          <name><surname>Mao</surname><given-names>Jingqiu</given-names></name>
          <email>jmao2@alaska.edu</email>
        <ext-link>https://orcid.org/0000-0002-4774-9751</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2 aff21">
          <name><surname>Carlton</surname><given-names>Annmarie</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-8574-1507</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff3">
          <name><surname>Cohen</surname><given-names>Ronald C.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-6617-7691</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff4">
          <name><surname>Brune</surname><given-names>William H.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-1609-4051</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff5 aff6">
          <name><surname>Brown</surname><given-names>Steven S.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-7477-9078</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff7 aff8">
          <name><surname>Wolfe</surname><given-names>Glenn M.</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff5">
          <name><surname>Jimenez</surname><given-names>Jose L.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-6203-1847</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff9">
          <name><surname>Pye</surname><given-names>Havala O. T.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-2014-2140</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff10">
          <name><surname>Lee Ng</surname><given-names>Nga</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-8460-4765</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff10 aff22">
          <name><surname>Xu</surname><given-names>Lu</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-0021-9876</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff11">
          <name><surname>McNeill</surname><given-names>V. Faye</given-names></name>
          
        <ext-link>https://orcid.org/0000-0003-0379-6916</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff12 aff13">
          <name><surname>Tsigaridis</surname><given-names>Kostas</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-5328-819X</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff6 aff7">
          <name><surname>McDonald</surname><given-names>Brian C.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-8600-5096</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff6 aff7">
          <name><surname>Warneke</surname><given-names>Carsten</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff14">
          <name><surname>Guenther</surname><given-names>Alex</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-6283-8288</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff15">
          <name><surname>Alvarado</surname><given-names>Matthew J.</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff5">
          <name><surname>de Gouw</surname><given-names>Joost</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-0385-1826</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff16">
          <name><surname>Mickley</surname><given-names>Loretta J.</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff17">
          <name><surname>Leibensperger</surname><given-names>Eric M.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-1906-2688</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff9">
          <name><surname>Mathur</surname><given-names>Rohit</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-8927-5876</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff9">
          <name><surname>Nolte</surname><given-names>Christopher G.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-5224-9965</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff6">
          <name><surname>Portmann</surname><given-names>Robert W.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-0279-6087</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff18">
          <name><surname>Unger</surname><given-names>Nadine</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-7739-2290</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff19">
          <name><surname>Tosca</surname><given-names>Mika</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff20">
          <name><surname>Horowitz</surname><given-names>Larry W.</given-names></name>
          
        </contrib>
        <aff id="aff1"><label>1</label><institution>Geophysical Institute and Department of Chemistry, University of
Alaska Fairbanks, Fairbanks, AK, USA</institution>
        </aff>
        <aff id="aff2"><label>2</label><institution>Department of Environmental Sciences, Rutgers University, New Brunswick,
NJ, USA</institution>
        </aff>
        <aff id="aff3"><label>3</label><institution>Department of Earth and Planetary Science, University of California,
Berkeley, Berkeley, CA, USA</institution>
        </aff>
        <aff id="aff4"><label>4</label><institution>Department of Meteorology, Pennsylvania State University, University
Park, PA, USA</institution>
        </aff>
        <aff id="aff5"><label>5</label><institution>Department of Chemistry and CIRES, University of Colorado Boulder,
Boulder, CO, USA</institution>
        </aff>
        <aff id="aff6"><label>6</label><institution>Cooperative Institute for Research in Environmental Sciences, University of Colorado, Boulder, Boulder, CO, USA</institution>
        </aff>
        <aff id="aff7"><label>7</label><institution>Chemical Sciences Division, NOAA Earth System Research Laboratory, Boulder, CO, USA</institution>
        </aff>
        <aff id="aff8"><label>8</label><institution>Joint Center for Earth Systems Technology, University of Maryland
Baltimore County, Baltimore, MD, USA</institution>
        </aff>
        <aff id="aff9"><label>9</label><institution>National Exposure Research Laboratory, US Environmental Protection
Agency, Research Triangle Park,<?xmltex \hack{\break}?> NC, USA</institution>
        </aff>
        <aff id="aff10"><label>10</label><institution>School of Chemical and Biomolecular Engineering and School of Earth
and Atmospheric Sciences, <?xmltex \hack{\break}?>Georgia Institute of Technology, Atlanta,
GA, USA</institution>
        </aff>
        <aff id="aff11"><label>11</label><institution>Department of Chemical Engineering, Columbia University, New York, NY
USA</institution>
        </aff>
        <aff id="aff12"><label>12</label><institution>Center for Climate Systems Research, Columbia University, New York,
NY, USA</institution>
        </aff>
        <aff id="aff13"><label>13</label><institution>NASA Goddard Institute for Space Studies, New York, NY, USA</institution>
        </aff>
        <aff id="aff14"><label>14</label><institution>Department of Earth System Science, University of California, Irvine,
CA, USA</institution>
        </aff>
        <aff id="aff15"><label>15</label><institution>Atmospheric and Environmental Research, Lexington, MA, USA</institution>
        </aff>
        <aff id="aff16"><label>16</label><institution>John A. Paulson School of Engineering and Applied Sciences, Harvard University,
Cambridge, MA, USA</institution>
        </aff>
        <aff id="aff17"><label>17</label><institution>Center for Earth and Environmental Science, SUNY Plattsburgh,
Plattsburgh, NY, USA</institution>
        </aff>
        <aff id="aff18"><label>18</label><institution>College of Engineering, Mathematics and Physical Sciences, University
of Exeter, Exeter, UK</institution>
        </aff>
        <aff id="aff19"><label>19</label><institution>School of the Art Institute of Chicago (SAIC), Chicago, IL 60603,
USA</institution>
        </aff>
        <aff id="aff20"><label>20</label><institution>Geophysical Fluid Dynamics Laboratory–National Oceanic and
Atmospheric Administration, <?xmltex \hack{\break}?>Princeton, NJ, USA</institution>
        </aff>
        <aff id="aff21"><label>a</label><institution>now at: Department of Chemistry, University of California, Irvine, CA, USA</institution>
        </aff>
        <aff id="aff22"><label>b</label><institution>now at: Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, USA</institution>
        </aff>
      </contrib-group>
      <author-notes><corresp id="corr1">Jingqiu Mao (jmao2@alaska.edu)</corresp></author-notes><pub-date><day>22</day><month>February</month><year>2018</year></pub-date>
      
      <volume>18</volume>
      <issue>4</issue>
      <fpage>2615</fpage><lpage>2651</lpage>
      <history>
        <date date-type="received"><day>29</day><month>November</month><year>2016</year></date>
           <date date-type="rev-request"><day>23</day><month>December</month><year>2016</year></date>
           <date date-type="rev-recd"><day>23</day><month>December</month><year>2017</year></date>
           <date date-type="accepted"><day>7</day><month>January</month><year>2018</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://acp.copernicus.org/articles/.html">This article is available from https://acp.copernicus.org/articles/.html</self-uri><self-uri xlink:href="https://acp.copernicus.org/articles/.pdf">The full text article is available as a PDF file from https://acp.copernicus.org/articles/.pdf</self-uri>
      <abstract>
    <p id="d1e452">Concentrations of atmospheric trace species in the United States have changed
dramatically over the past several decades in response to pollution control
strategies, shifts in domestic energy policy and economics, and economic
development (and resulting emission changes) elsewhere in the world. Reliable
projections of the future atmosphere require models to not only accurately
describe current atmospheric concentrations, but to do so by representing
chemical, physical and biological processes with conceptual and quantitative
fidelity. Only through incorporation of the processes controlling emissions
and chemical mechanisms that represent the key transformations among reactive
molecules can models reliably project the impacts of future policy, energy
and climate scenarios. Efforts to properly identify and implement the
fundamental and controlling mechanisms in atmospheric models benefit from
intensive observation periods,
during which collocated measurements of
diverse, speciated chemicals in both the gas and condensed phases are
obtained. The Southeast Atmosphere Studies (SAS, including SENEX, SOAS,
NOMADSS and SEAC4RS) conducted during the summer of 2013 provided an
unprecedented opportunity for the atmospheric modeling community to come
together to evaluate, diagnose and improve the representation of fundamental
climate and air quality processes in models of varying temporal and spatial
scales.</p>
    <p id="d1e455">This paper is aimed at discussing progress in evaluating, diagnosing and
improving air quality and climate modeling using comparisons to SAS
observations as a guide to thinking about improvements to mechanisms and
parameterizations in models. The effort focused primarily on model
representation of fundamental atmospheric processes that are essential to
the formation of ozone, secondary organic aerosol (SOA) and other trace
species in the troposphere, with the ultimate goal of understanding the
radiative impacts of these species in the southeast and elsewhere. Here we
address questions surrounding four key themes: gas-phase chemistry, aerosol
chemistry, regional climate and chemistry interactions, and natural and
anthropogenic emissions. We expect this review to serve as a guidance for
future modeling efforts.</p>
  </abstract>
    </article-meta>
  </front>
<body>
      

<sec id="Ch1.S1" sec-type="intro">
  <title>Introduction</title>
      <p id="d1e465">The southeastern US has been studied extensively because it includes
intense emissions of biogenic volatile organic compounds (BVOCs; the
definitions for the abbreviations used in this paper can be found in Appendix A) and has multiple large sources of
anthropogenic emissions (e.g., Chameides et al., 1988; Trainer et al.,
1987). An improved understanding of ozone photochemistry in this region has
subsequently led to effective ozone control strategies (Council,
1991).  In the 1990s, a number of aircraft and ground field campaigns were
conducted to study ozone photochemistry in the southeastern US (Cowling et
al., 2000, 1998; McNider et al., 1998; Hübler et al., 1998; Meagher et
al., 1998; Martinez et al., 2003; Roberts et al., 2002; Stroud et al.,
2001). Aggressive regulatory efforts over the past decade have substantially
decreased NO<inline-formula><mml:math id="M1" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> in this region (e.g., Russell et
al., 2012). This decrease is changing the factors that control the NO<inline-formula><mml:math id="M2" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
lifetime and offers an opportunity to study mechanisms of emission from
ecosystems in the region in different chemical regimes. The decrease in
NO<inline-formula><mml:math id="M3" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> is also shifting the regime of HO<inline-formula><mml:math id="M4" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> chemistry from one
where the primary reaction partner for HO<inline-formula><mml:math id="M5" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and RO<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> was NO to one
where isomerization, RO<inline-formula><mml:math id="M7" 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> HO<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> and HO<inline-formula><mml:math id="M9" 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> HO<inline-formula><mml:math id="M10" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> are
more important. The Southeast Atmosphere Studies (SAS, including SENEX,
SOAS, NOMADSS and SEAC4RS), was designed to study the atmospheric chemistry
of the region in the context of changing anthropogenic emissions.</p>
      <p id="d1e565">Observational experiments in the southeastern US during SAS 2013 (SOAS, SENEX, SEAC4RS, NOMADSS) provide a wealth of
new insights into the composition of the atmosphere. Results allow
researchers to explore the chemical degradation of biogenic organic
molecules over a range of concentrations of ambient nitrogen oxide
during day and night and the ensuing consequences for ozone,
aerosol and radiative properties of the atmosphere. The experiment was large
and collaborative and included coordinated measurements at multiple surface
sites and, among several aircraft, with many flyovers of the surface sites
and a wide suite of available remote sensing from space-based instruments. A
comprehensive array of instruments at each site or aircraft tracked most of the
key atmospheric observables. Direct tracking of oxidative pathways was made
possible by including gas-phase measurements of parent molecules and many of
the first- and second-generation daughter molecules. For the first time,
many of the daughter molecules were also tracked into the aerosol phase.
These observations provided an important context for both the
characterization of new instruments and new methods by interpreting
measurements from more established instruments. In parallel with these field
measurements, several laboratory experiments used the same instrumentation
to provide insights into the chemical mechanisms of oxidation and instrument
performance under field conditions. Overviews of the entire project and many
of the subprojects have been presented elsewhere (Carlton et al., 2017;
Warneke et al., 2016; Toon et al., 2016). Analyses of the observations have
ranged from those that focus on the observations alone to those that
primarily describe model simulations of the region. In this review we focus
on the intersection of these two approaches, which is on analyses of
observations that specifically test and inform the construction of 3-D
chemical weather models. Our evaluations are focused on the southeast data
set, although we assert that the lessons learned are global.</p>
</sec>
<sec id="Ch1.S2">
  <title>Gas-phase chemistry</title>
<sec id="Ch1.S2.SS1">
  <title>Background</title>
      <p id="d1e579">Global and regional models tend to significantly overestimate summertime
surface ozone over the southeastern US (Fiore et al., 2009; Murazaki and
Hess, 2006; Yu et al., 2010, 2007; Lin et al., 2008; Rasmussen et
al., 2012), posing a challenge for air quality management in this region and
elsewhere. It remains unclear whether this model bias in summertime surface
ozone is mainly due to the chemical processes (e.g., HO<inline-formula><mml:math id="M11" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> recycling,
isoprene nitrate chemistry, heterogeneous reactions, nighttime chemistry),
physical processes (e.g., dry deposition, boundary layer processes) or
emissions. Fiore et al. (2005) suggested that this problem
might be due to incorrect representation of isoprene sources and chemistry.
Measured deposition rates for isoprene oxidation products appear to be
higher than current model values (T. B. Nguyen et al., 2015; Karl et al.,
2010). In the meantime, the understanding of isoprene oxidation chemistry
has been evolving rapidly in the past decade (Crounse et al., 2011;
Peeters et al., 2014, 2009), and as a result conclusions drawn
from models using older chemical mechanism may not be correct.</p>
      <p id="d1e591">A large debate surrounds our understanding of hydroxyl radical (OH) and
hydroperoxy radical (HO<inline-formula><mml:math id="M12" 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> concentrations in the presence of isoprene.
Traditional mechanisms assume that isoprene oxidation suppresses OH
concentrations in low-NO<inline-formula><mml:math id="M13" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> conditions via the formation of organic
hydroxyperoxides (Jacob and Wofsy, 1988). However,
observations show higher-than-expected OH concentrations in isoprene-rich
environments without corresponding enhancements in HO<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> or RO<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>
(Tan et al., 2001; Carslaw et al., 2001; Lelieveld et al., 2008;
Hofzumahaus et al., 2009; Ren et al., 2008; Pugh et al., 2010; Thornton et
al., 2002; Stone et al., 2010), suggesting a gap in current understanding of
isoprene oxidation. On the other hand, an interference has been discovered
to affect some of these OH instruments (Mao et al., 2012; Novelli et al.,
2014; Feiner et al., 2016).</p>
      <p id="d1e633">Measurements of higher-than-expected OH in the presence of isoprene spurred
renewed interest in issues related to the products of the HO<inline-formula><mml:math id="M16" 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> RO<inline-formula><mml:math id="M17" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> reactions. Thornton et al. (2002) and Hasson et al. (2004) had pointed out that
if this reaction does not terminate the radical chain it would change the
behavior of HO<inline-formula><mml:math id="M18" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> radicals at low NO<inline-formula><mml:math id="M19" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>. Several specific cases of the
HO<inline-formula><mml:math id="M20" 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> RO<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> reactions were shown to have an OH product (Hasson
et al., 2004; Jenkin et al., 2007; Dillon and Crowley, 2008). Peeters et al. (2009, 2014)
identified a new path for OH regeneration through
unimolecular isomerization of isoprene hydroxyperoxy radicals. This pathway
was confirmed by laboratory measurements of its rate (Crounse et al.,
2011; Teng et al., 2017). A key feature of the SAS experiments was that the
NO<inline-formula><mml:math id="M22" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> concentrations spanned a range that resulted in measurements where
the three major fates of isoprene peroxy radicals (reaction with NO,
HO<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> or isomerization) were sampled at different times and locations.</p>
      <p id="d1e715">Another major consequence of isoprene oxidation is the production of
isoprene nitrates, formed from RO<inline-formula><mml:math id="M24" 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>NO reaction in the isoprene
degradation chain during daytime and by addition of NO<inline-formula><mml:math id="M25" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> to the double
bonds in isoprene or isoprene daughters at night. Different treatments of
these reactions in models including the yield and subsequent fate of daytime
isoprene nitrates cause as much as 20 % variation in global ozone
production rate and ozone burden among different models (Ito et al.,
2009; Horowitz et al., 2007; Perring et al., 2009a; Wu et al., 2007; Fiore
et al., 2005; Paulot et al., 2012). Large variations mainly stem from
the different yield of isoprene nitrates (Wu et al., 2007) and
the NO<inline-formula><mml:math id="M26" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> recycling ratio of these isoprene nitrates (Ito et al.,
2009; Paulot et al., 2012). Recent laboratory data indicates the yield of
first-generation isoprene nitrates is in the range of 9 to 14 %
(Giacopelli et al., 2005; Patchen et al., 2007; Paulot et al., 2009a;
Lockwood et al., 2010; Sprengnether et al., 2002; Xiong et al., 2015; Teng
et al., 2015), which is much higher than the 4 % that was suggested as
recently as 2007 (Horowitz et al., 2007). The
subsequent fate of these isoprene nitrates includes oxidation by OH,
NO<inline-formula><mml:math id="M27" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> and O<inline-formula><mml:math id="M28" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> (Lockwood et al., 2010; Paulot et al., 2009a; Lee et
al., 2014); photolysis (Müller et al., 2014); and
hydrolysis. Synthesis of models and SAS observations suggest an important
role for hydrolysis as expected based on the laboratory measurements
(Romer et al., 2016; Fisher et al., 2016; Wolfe et al., 2015).</p>
      <p id="d1e767">The SAS observations also provide measurements that guide our thinking about
the role of NO<inline-formula><mml:math id="M29" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> chemistry and its representation in models, especially
as it contributes to oxidation of biogenic volatile organic compounds
at night (Warneke et al., 2004; Brown et al., 2009; Aldener et al., 2006;
Ng et al., 2008, 2017; Edwards et al., 2017). During SAS, these
reactions were a substantial sink of NO<inline-formula><mml:math id="M30" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> in addition to their role in
oxidation of BVOCs. To a large extent this is due to the high yield of
carbonyl nitrates (65–85 %) from the isoprene <inline-formula><mml:math id="M31" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> NO<inline-formula><mml:math id="M32" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> oxidation
(Perring et al., 2009b; Rollins et al., 2009, 2012; Kwan
et al., 2012; Schwantes et al., 2015). Models that incorporate this
chemistry (Xie et al., 2013; Horowitz et al., 2007; von Kuhlmann et al.,
2004; Mao et al., 2013) indicate that the isoprene <inline-formula><mml:math id="M33" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> NO<inline-formula><mml:math id="M34" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> reaction
contributes more than 50 % of the total isoprene nitrate production and
that the reaction is thus a major pathway for nighttime NO<inline-formula><mml:math id="M35" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> removal.
The fate of products from isoprene <inline-formula><mml:math id="M36" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> NO<inline-formula><mml:math id="M37" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> and to what extent they return
NO<inline-formula><mml:math id="M38" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> remains a subject of discussion and thus an opportunity for
exploration with models that might guide our thinking about a plausible
range of product molecules (Perring et al., 2009b; Müller et al.,
2014; Schwantes et al., 2015).</p>
      <p id="d1e855">Compared to isoprene, the oxidation mechanism of monoterpene has received
much less attention partly due to lack of laboratory and field data. In
contrast to isoprene, a significant portion of terpenes emissions is
released at night. Browne et al. (2014) showed that
monoterpene oxidation is a major sink of NO<inline-formula><mml:math id="M39" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> in the Arctic. The high
yield of organic nitrates (ONs) and the low vapor pressure and high solubility of
monoterpene organic nitrates result in strong coupling of gas-phase
mechanisms to predictions of secondary organic aerosol (SOA) in a model. For example, the reaction of
terpenes <inline-formula><mml:math id="M40" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> NO<inline-formula><mml:math id="M41" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> provides a large source of SOA as inferred (Ng et
al., 2017). These aerosol organic nitrates can be either a permanent or
temporary NO<inline-formula><mml:math id="M42" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> sink depending on their precursors as well as ambient
humidity (Nah et al., 2016b; Boyd et al., 2015; B. H. Lee et al., 2016; Romer
et al., 2016). Some of the monoterpene organic nitrates may be susceptible to
rapid hydrolysis and photolysis
in aerosol phase (thus not detected as aerosol
nitrates), leading to an underestimate of its contribution to SOA mass
(Rindelaub et al., 2015, 2016).</p>
</sec>
<sec id="Ch1.S2.SS2">
  <title>Major relevant findings</title>

<?xmltex \floatpos{p}?><table-wrap id="Ch1.T1" specific-use="star"><caption><p id="d1e901">A subset of model evaluations for SAS observations (till 2017).</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="justify" colwidth="70pt"/>
     <oasis:colspec colnum="2" colname="col2" align="justify" colwidth="30pt"/>
     <oasis:colspec colnum="3" colname="col3" align="justify" colwidth="40pt"/>
     <oasis:colspec colnum="4" colname="col4" align="justify" colwidth="50pt"/>
     <oasis:colspec colnum="5" colname="col5" align="justify" colwidth="210pt"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Model name</oasis:entry>  
         <oasis:entry colname="col2">Model type</oasis:entry>  
         <oasis:entry colname="col3">References</oasis:entry>  
         <oasis:entry colname="col4">Targeted species</oasis:entry>  
         <oasis:entry colname="col5">Major findings</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">F0AM <?xmltex \hack{\hfill\break}?></oasis:entry>  
         <oasis:entry colname="col2">0-D</oasis:entry>  
         <oasis:entry colname="col3">Feiner et<?xmltex \hack{\hfill\break}?>al. (2016)</oasis:entry>  
         <oasis:entry colname="col4">OH, HO<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>,<?xmltex \hack{\hfill\break}?>OH reactivity</oasis:entry>  
         <oasis:entry colname="col5">Measured and modeled OH agree well.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Box model</oasis:entry>  
         <oasis:entry colname="col2">0-D</oasis:entry>  
         <oasis:entry colname="col3">B. H.<?xmltex \hack{\hfill\break}?>Lee et<?xmltex \hack{\hfill\break}?>al. (2016)</oasis:entry>  
         <oasis:entry colname="col4">Speciated organic nitrates</oasis:entry>  
         <oasis:entry colname="col5">Particle-phase organic nitrates are an important component in organic aerosols but could have a short particle-phase lifetime.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">F0AM <?xmltex \hack{\hfill\break}?></oasis:entry>  
         <oasis:entry colname="col2">0-D</oasis:entry>  
         <oasis:entry colname="col3">Wolfe et<?xmltex \hack{\hfill\break}?>al. (2016)</oasis:entry>  
         <oasis:entry colname="col4">HCHO</oasis:entry>  
         <oasis:entry colname="col5">Current models accurately represent early-generation HCHO production from isoprene but under-predict a persistent background HCHO source.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">F0AM</oasis:entry>  
         <oasis:entry colname="col2">0-D</oasis:entry>  
         <oasis:entry colname="col3">Kaiser et<?xmltex \hack{\hfill\break}?>al. (2016)</oasis:entry>  
         <oasis:entry colname="col4">OH reactivity</oasis:entry>  
         <oasis:entry colname="col5">Missing OH reactivity is small.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">F0AM <?xmltex \hack{\hfill\break}?></oasis:entry>  
         <oasis:entry colname="col2">0-D</oasis:entry>  
         <oasis:entry colname="col3">Marvin et<?xmltex \hack{\hfill\break}?>al. (2017)</oasis:entry>  
         <oasis:entry colname="col4">HCHO</oasis:entry>  
         <oasis:entry colname="col5">Model HCHO–isoprene relationships are mechanism dependent. Condensed mechanisms (esp. CB6r2) can perform as well as explicit ones with some modifications.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">ISORROPIA</oasis:entry>  
         <oasis:entry colname="col2">0-D</oasis:entry>  
         <oasis:entry colname="col3">Weber et<?xmltex \hack{\hfill\break}?>al. (2016); Guo et<?xmltex \hack{\hfill\break}?>al. (2015)</oasis:entry>  
         <oasis:entry colname="col4">Aerosol <?xmltex \hack{\hfill\break}?>acidity</oasis:entry>  
         <oasis:entry colname="col5">Submicron aerosols are highly acidic in the southeastern US.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">MXLCH</oasis:entry>  
         <oasis:entry colname="col2">1-D</oasis:entry>  
         <oasis:entry colname="col3">Su et<?xmltex \hack{\hfill\break}?>al. (2016)</oasis:entry>  
         <oasis:entry colname="col4">Isoprene, HCHO, MVK, MACR, organic ni-<?xmltex \hack{\hfill\break}?>trates, OH,<?xmltex \hack{\hfill\break}?>HO<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></oasis:entry>  
         <oasis:entry colname="col5">Diurnal evolution of O<inline-formula><mml:math id="M45" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> is dominated by entrainment. Diurnal evolution of isoprene oxidation products are sensitive to the NO : HO<inline-formula><mml:math id="M46" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> ratio.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GEOS-Chem</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Fisher et<?xmltex \hack{\hfill\break}?>al. (2016)</oasis:entry>  
         <oasis:entry colname="col4">Organic nitrates</oasis:entry>  
         <oasis:entry colname="col5">Updated isoprene chemistry, new monoterpene chemistry and particle uptake of RONO<inline-formula><mml:math id="M47" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>.  <?xmltex \hack{\hfill\break}?>RONO<inline-formula><mml:math id="M48" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> production accounts for 20 % of the net regional NO<inline-formula><mml:math id="M49" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>  sink in the southeast in summer.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GEOS-Chem</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Travis et<?xmltex \hack{\hfill\break}?>al. (2016)</oasis:entry>  
         <oasis:entry colname="col4">NO<inline-formula><mml:math id="M50" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, ozone</oasis:entry>  
         <oasis:entry colname="col5">NEI NO<inline-formula><mml:math id="M51" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions from mobile and industrial sources reduced by 30–60 %. The model is still biased high by 6–14 ppb relative to observed surface ozone.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GEOS-Chem</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Zhu et<?xmltex \hack{\hfill\break}?>al. (2016)</oasis:entry>  
         <oasis:entry colname="col4">HCHO</oasis:entry>  
         <oasis:entry colname="col5">GEOS-Chem used as a common intercomparison platform among HCHO aircraft observations and satellite data sets of column HCHO. The model shows no bias against aircraft observations.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GEOS-Chem</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Kim et<?xmltex \hack{\hfill\break}?>al. (2015)</oasis:entry>  
         <oasis:entry colname="col4">Organic and<?xmltex \hack{\hfill\break}?>inorganic aerosols</oasis:entry>  
         <oasis:entry colname="col5">GEOS-Chem used as a common platform to interpret observations of different aerosol variables across the southeast. Surface PM<inline-formula><mml:math id="M52" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> shows far less summer-to-winter decrease than AOD.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GEOS-Chem</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Chan Miller et<?xmltex \hack{\hfill\break}?>al. (2017)</oasis:entry>  
         <oasis:entry colname="col4">Glyoxal, HCHO</oasis:entry>  
         <oasis:entry colname="col5">New chemical mechanism for glyoxal formation from isoprene. Observed glyoxal and HCHO over the southeast are tightly correlated and provide redundant proxies of isoprene emissions.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GEOS-Chem</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Marais et<?xmltex \hack{\hfill\break}?>al. (2016)</oasis:entry>  
         <oasis:entry colname="col4">IEPOX, organic aerosols</oasis:entry>  
         <oasis:entry colname="col5">New aqueous-phase mechanism for isoprene SOA formation. Reducing SO<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> emissions in the model decreases both sulfate and SOA by similar magnitudes.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GEOS-Chem</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Silvern et<?xmltex \hack{\hfill\break}?>al. (2017)</oasis:entry>  
         <oasis:entry colname="col4">Aerosol <?xmltex \hack{\hfill\break}?>acidity</oasis:entry>  
         <oasis:entry colname="col5">Sulfate aerosols may be coated by organic material, preventing NH<inline-formula><mml:math id="M54" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> uptake.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GFDL AM3</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Li et<?xmltex \hack{\hfill\break}?>al. (2016)</oasis:entry>  
         <oasis:entry colname="col4">Glyoxal, HCHO</oasis:entry>  
         <oasis:entry colname="col5">Gas-phase production of glyoxal from isoprene oxidation represents a large  uncertainty in quantifying its contribution to SOA.</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

<?xmltex \hack{\addtocounter{table}{-1}}?><?xmltex \floatpos{t}?><table-wrap id="Ch1.T2" specific-use="star"><caption><p id="d1e1378">Continued.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="justify" colwidth="70pt"/>
     <oasis:colspec colnum="2" colname="col2" align="justify" colwidth="30pt"/>
     <oasis:colspec colnum="3" colname="col3" align="justify" colwidth="40pt"/>
     <oasis:colspec colnum="4" colname="col4" align="justify" colwidth="50pt"/>
     <oasis:colspec colnum="5" colname="col5" align="justify" colwidth="210pt"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Model name</oasis:entry>  
         <oasis:entry colname="col2">Model type</oasis:entry>  
         <oasis:entry colname="col3">References</oasis:entry>  
         <oasis:entry colname="col4">Targeted species</oasis:entry>  
         <oasis:entry colname="col5">Major findings</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">GFDL AM3</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Li et<?xmltex \hack{\hfill\break}?>al. (2018)</oasis:entry>  
         <oasis:entry colname="col4">Organic nitrates, ozone</oasis:entry>  
         <oasis:entry colname="col5">Reactive oxidized nitrogen species, including NO<inline-formula><mml:math id="M55" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, PAN and HNO<inline-formula><mml:math id="M56" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>, decline proportionally with decreasing NO<inline-formula><mml:math id="M57" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions in the southeastern US.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">CMAQ</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Pye et<?xmltex \hack{\hfill\break}?>al. (2015)</oasis:entry>  
         <oasis:entry colname="col4">Terpene nitrates</oasis:entry>  
         <oasis:entry colname="col5">Monoterpene <inline-formula><mml:math id="M58" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> NO<inline-formula><mml:math id="M59" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> reactions responsible for significant NO<inline-formula><mml:math id="M60" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>-dependent SOA. Magnitude of SOA dependent on assumptions regarding hydrolysis.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Box model with<?xmltex \hack{\hfill\break}?>CMAQ/simple-GAMMA <?xmltex \hack{\hfill\break}?>algorithms</oasis:entry>  
         <oasis:entry colname="col2">0-D</oasis:entry>  
         <oasis:entry colname="col3">Budisulis- <?xmltex \hack{\hfill\break}?>tiorini et al. (2017); Budisulistiorini et al. (2015)</oasis:entry>  
         <oasis:entry colname="col4">IEPOX, SOA</oasis:entry>  
         <oasis:entry colname="col5">Sulfate, through its influence on particle size (volume) and rate of particle-phase reaction (acidity), controls IEPOX uptake at Look Rock (LRK).</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">CMAQ</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Pye et<?xmltex \hack{\hfill\break}?>al. (2017)</oasis:entry>  
         <oasis:entry colname="col4">Aerosol liquid water,<?xmltex \hack{\hfill\break}?>water soluble organic carbon (WSOC)</oasis:entry>  
         <oasis:entry colname="col5">Aerosol water requires accurate organic aerosol predictions as models considering only water associated with inorganic ions will underestimate aerosol water. Gas-phase WSOC, including IEPOX <inline-formula><mml:math id="M61" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> glyoxal <inline-formula><mml:math id="M62" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> methylglyoxal, is abundant in models.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">CMAQ</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Fahey et<?xmltex \hack{\hfill\break}?>al. (2017)</oasis:entry>  
         <oasis:entry colname="col4">Cloud-mediated organic aerosol</oasis:entry>  
         <oasis:entry colname="col5">Cloud-processing of IEPOX increased cloud-mediated SOA by a modest amount (11 to 18 % at the surface in the eastern US)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">CMAQ</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Murphy et al. (2017)</oasis:entry>  
         <oasis:entry colname="col4">Organic aerosol from combustions sources</oasis:entry>  
         <oasis:entry colname="col5">At the Centerville (CTR) site, organic aerosol predictions are not very sensitive to assumptions (volatility, oxidation) for combustion-derived organic aerosol.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">CMAQ</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Baker and Woody (2017)</oasis:entry>  
         <oasis:entry colname="col4">Ozone, PM2.5</oasis:entry>  
         <oasis:entry colname="col5">Single-source impacts of a coal fired power plant, including the contribution to secondary pollutants, can be estimated from a 3-D CTM.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">AIOMFAC, CMAQ</oasis:entry>  
         <oasis:entry colname="col2">0-D/3-D</oasis:entry>  
         <oasis:entry colname="col3">Pye et<?xmltex \hack{\hfill\break}?>al. (2018)</oasis:entry>  
         <oasis:entry colname="col4">Inorganic aerosol, semivolatile species</oasis:entry>  
         <oasis:entry colname="col5">Thermodynamic models are consistent with SEARCH and MARGA measured ammonium sulfate at CTR. Organic–inorganic interactions can cause small decreases in acidity and increased partitioning to the particle for organic species with O : C &gt; 0.6.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">WRF-Chem</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">McDonald et al.<?xmltex \hack{\hfill\break}?>(2018)</oasis:entry>  
         <oasis:entry colname="col4">NO<inline-formula><mml:math id="M63" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, CO,<?xmltex \hack{\hfill\break}?>ozone</oasis:entry>  
         <oasis:entry colname="col5">Mobile source NO<inline-formula><mml:math id="M64" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and CO emissions overestimated by 50 % and factor of 2.2, respectively. Model surface O<inline-formula><mml:math id="M65" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> improves with reduced mobile source NO<inline-formula><mml:math id="M66" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions.</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">NCAR LES</oasis:entry>  
         <oasis:entry colname="col2">3-D</oasis:entry>  
         <oasis:entry colname="col3">Kim et  al.<?xmltex \hack{\hfill\break}?>(2016a)</oasis:entry>  
         <oasis:entry colname="col4">Isoprene, OH</oasis:entry>  
         <oasis:entry colname="col5">Turbulence impacts isoprene-OH reactivity, and effect depends on NO<inline-formula><mml:math id="M67" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> abundance.</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

      <p id="d1e1737">A major focus of the SAS study was to study the daytime and nighttime
oxidative chemistry of isoprene and to compare the observations against
models representing the ideas outlined above. Over the range of the fate of
the isoprene RO<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> radical, isomerization was important and the reaction
partners were mostly NO and HO<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> during the day and a mix of NO<inline-formula><mml:math id="M70" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>,
RO<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> and HO<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> at night. The field measurements were closely
partnered with laboratory chamber experiments
(Nguyen et al., 2014b) which
enhanced our understanding of oxidation mechanisms and provided increased
confidence in our understanding of the measurements of isoprene oxidation
products. We summarize these major relevant findings as follows.
<list list-type="order"><list-item>
      <p id="d1e1788">Radical simulation: combining traditional laser-induced fluorescence
with a chemical removal method that mitigates potential OH measurement
artifacts, Feiner et al. (2016) found that their
tower-based measurements of OH and HO<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> during SOAS show no evidence for
dramatically higher OH than current chemistry predicts in an environment
with high BVOCs and low NO<inline-formula><mml:math id="M74" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>. Instead, they are consistent with the most
up-to-date isoprene chemical mechanism. Their measurements are also in
agreement with collocated OH measurements by another technique, chemical
ionization mass spectrometry (CIMS; Sanchez et al.,
2017). Romer et al. (2016) found that the lifetime of NO<inline-formula><mml:math id="M75" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> was consistent with these OH
observations and that the major source of HNO<inline-formula><mml:math id="M76" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> was isoprene nitrate
hydrolysis. Their conclusions would be inconsistent with dramatically higher
OH levels, which would imply much more rapid isoprene nitrate production
than observed. Other ratios of parent and daughter molecules and chemical
lifetimes are also sensitive to OH and these should be explored for
additional confirmation or refutation of ideas about OH production at low
NO<inline-formula><mml:math id="M77" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>.</p>
      <p id="d1e1836">Isoprene vertical flux divergence in the atmospheric boundary layer over the
SOAS site and similar forest locations was quantified by
Kaser et al. (2015) during the NSF/NCAR
C-130 aircraft flights and used to estimate daytime boundary layer average
OH concentrations of 2.8 to 6.6 <inline-formula><mml:math id="M78" display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 10<inline-formula><mml:math id="M79" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msup></mml:math></inline-formula> molecules cm<inline-formula><mml:math id="M80" 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>. These values,
which are based on chemical budget closure, agree to within 20 % of
directly observed OH on the same aircraft. After accounting for the impact
of chemical segregation, Kaser et al. (2015) found that current chemistry schemes can adequately predict OH
concentrations in high-isoprene regimes. This is also consistent with the
comparison between measured and modeled OH reactivity on a ground site
during SOAS, which show excellent agreement above the canopy of an
isoprene-dominated forest
(Kaiser et al., 2016).</p></list-item><list-item>
      <p id="d1e1868">Isoprene oxidation mechanism: recent refinements in our understanding of
the early generations of isoprene degradation have stemmed from a synergy of
laboratory, field, and modeling efforts. Laboratory work has provided
constraints on the production and fate of a wide range of intermediates and
end products, including organic nitrates (Teng et al., 2015; Xiong et
al., 2015; Lee et al., 2014; Müller et al., 2014), the isoprene RO<inline-formula><mml:math id="M81" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> (Teng et al., 2017), IEPOX (St. Clair et al., 2015;
Bates et al., 2014, 2016), MVK (methyl vinyl ketone; Praske et al.,
2015) and MACR (methacrolein; Crounse et al., 2012). These experiments
have been guided and/or corroborated by analyses of field observations of
total and speciated alkyl nitrates (Romer et al., 2016; T. B. Nguyen et al.,
2015; Xiong et al., 2015; B. H. Lee et al., 2016),
IEPOX / ISOPOOH
(isoprene hydroxy hydroperoxide; T. B. Nguyen et al., 2015), glyoxal
(Min et al., 2016), HCHO
(Wolfe et al., 2016),
OH reactivity
(Kaiser et al.,
2016) and airborne fluxes (Wolfe et al., 2015). Recent modeling studies
have incorporated these mechanisms to some extent and showed success on
reproducing temporal and spatial variations of these compounds (Su et
al., 2016; Fisher et al., 2016; Travis et al., 2016; Zhu et al., 2016; Li et
al., 2018, 2016), as summarized in Table 1. Continued efforts are
needed to reduce newfound mechanistic complexity for inclusion in regional
and global models.</p></list-item><list-item>
      <p id="d1e1881">Oxidized VOC: large uncertainties remain on the production of smaller
oxidation products. Several modeling studies indicate an underestimate of
HCHO from isoprene oxidation in current mechanisms (Wolfe et al., 2016;
Li et al., 2016; Marvin et al., 2017). Current chemical mechanisms differ
greatly on the yield of glyoxal from isoprene oxidation (Li et al., 2016;
Chan Miller et al., 2017). The observations indicate that the ratio of
glyoxal to HCHO is 2 %, independent of NO<inline-formula><mml:math id="M82" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (Kaiser et al., 2015), and this
ratio is reproduced, at least to some extent, in two modeling studies (Li
et al., 2016; Chan Miller et al., 2017). Confirmation of such a ratio is a
useful indicator as these molecules are also measured from space and both
are short-lived and tightly coupled to oxidation chemistry. Widespread
ambient confirmation of the ratio is difficult because of large biases in
satellite glyoxal quantification
(Chan Miller et al., 2017).</p>
      <p id="d1e1893">For the case of the major daughter products methyl vinyl ketone and
methacrolein, lab experiments have confirmed that ambient
measurements reported to be MVK and MACR, by instruments with metal inlets
including gas chromatography (GC) and proton-transfer-reaction mass
spectrometry (PTR-MS), are more accurately thought of as a sum of MVK, MACR
and isoprene hydroperoxides that react on metal and are converted to MVK and
MACR (Rivera-Rios et al., 2014; Liu et al., 2013).</p></list-item><list-item>
      <p id="d1e1897">Organic Nitrates: the assumed lifetime and subsequent fate of organic
nitrates can profoundly influence NO<inline-formula><mml:math id="M83" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> levels across urban–rural
gradients (Browne and Cohen, 2012; Mao et al., 2013), affecting oxidant
levels and formation of secondary organic aerosol. Field observations
during SAS suggest a short (2–3 h) lifetime of total and isoprene and terpene
organic nitrates (Wolfe et al., 2015; Romer et al., 2016; Fisher et al.,
2016; B. H. Lee et al., 2016). One possible explanation is aerosol uptake of
these organic nitrates followed by rapid hydrolysis as confirmed in
laboratory experiments (Hu et al., 2011; Darer et al., 2011; Rindelaub et
al., 2016, 2015; Jacobs et al., 2014; Bean and Hildebrandt
Ruiz, 2016), although the hydrolysis rate varies greatly with the structure
of nitrate and aerosol acidity (Hu et al., 2011; Rindelaub et al., 2016;
Boyd et al., 2017, 2015).</p></list-item><list-item>
      <p id="d1e1910">Nighttime chemistry: the SAS studies examined nighttime BVOC oxidation
in both the nocturnal boundary layer (NBL) and the residual layer (RL).
Measurements at the SOAS ground site provided a wealth of detailed
information on nighttime oxidation processes in the NBL via state-of-the-art
instrumentation to constrain the major oxidants, BVOCs and gas- and
aerosol-phase products (Ayres et al., 2015; Xu et al., 2015b; B. H. Lee et al., 2016).
A major focus of these efforts was to understand the influence of nitrate
radical (NO<inline-formula><mml:math id="M84" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> oxidation as a source of secondary organic aerosol.
These results are reviewed in Sect. 3.2.3 below and show that organic
nitrates from reactions of NO<inline-formula><mml:math id="M85" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> with monoterpenes are an important SOA
source in the NBL. Reactions of monoterpenes dominate nighttime chemistry
near the surface due to their temperature-dependent (but not sunlight-dependent)
emissions and their accumulation to higher concentration in the relatively
shallow NBL.</p>
      <p id="d1e1934">Nighttime flights of the NOAA P-3 probed the composition of the overlying RL
and the rates of nighttime oxidation processes there. In contrast to the
NBL, isoprene dominates the composition of BVOCs in the RL, with mixing
ratios over Alabama on one research flight demonstrating a nighttime average
near 1 ppbv. Monoterpene mixing ratios were more than an order of
magnitude lower. Consumption of isoprene by O<inline-formula><mml:math id="M86" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> and NO<inline-formula><mml:math id="M87" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> was shown
to depend on the sunset ratio of NO<inline-formula><mml:math id="M88" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> to isoprene, with NO<inline-formula><mml:math id="M89" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>
reaction dominating at ratios above approximately 0.5 and O<inline-formula><mml:math id="M90" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> reaction
dominant at lower ratios.  Overall, O<inline-formula><mml:math id="M91" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> and NO<inline-formula><mml:math id="M92" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> contributed
approximately equally to RL isoprene oxidation in the 2013 study.  This
observation, combined with recent trends in NO<inline-formula><mml:math id="M93" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions, suggests
that RL nighttime chemistry in the southeastern US is currently in transition
from a NO<inline-formula><mml:math id="M94" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>-dominated past to an O<inline-formula><mml:math id="M95" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>-dominated future, a condition
more representative of the preindustrial past.  The implications of this
trend for understanding organic nitrates and secondary organic aerosol
should be considered in models of the influence of changing NO<inline-formula><mml:math id="M96" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
emissions on BVOC oxidation
(Edwards et al.,
2017).</p></list-item><list-item>
      <p id="d1e2038">HONO: the community's confusion about sources of HONO was not resolved
by SAS. Airborne observations over water from the NCAR C-130 suggest that
conversion of HNO<inline-formula><mml:math id="M97" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> to HONO and NO<inline-formula><mml:math id="M98" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> via photolysis of particulate
nitrate in the marine boundary layer is important (Ye et al.,
2016). A separate study using NOAA WP-3D observations indicates that HONO
mixing ratios in the background terrestrial boundary layer are consistent
with established photochemistry (Neuman et al.,
2016). Persistent uncertainties regarding the potential for measurement
artifacts continue to hamper efforts to resolve outstanding questions about
putative novel HONO sources.</p></list-item><list-item>
      <p id="d1e2060">Higher-order terpenes: monoterpene and sesquiterpene chemistry requires
continued investigation. Initial studies indicate that monoterpene oxidation
can be an important sink of NO<inline-formula><mml:math id="M99" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and an important source of aerosol
precursors (B. H. Lee et al., 2016; Ayres et al., 2015). Additional analysis
is needed to understand the role of monoterpenes. We note that because our
understanding of isoprene chemistry has been changing so rapidly and because
the role of isoprene sets the stage for evaluating the role of monoterpenes,
we are now in a much better position to evaluate the role of monoterpene
chemistry.</p></list-item></list></p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F1"><caption><p id="d1e2075">Diel variation of measured and modeled OH <inline-formula><mml:math id="M100" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> HO<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> during SOAS
(Feiner et al., 2016). In panel <bold>(a)</bold>, measured OH by a traditional
laser-induced fluorescence technique is shown in squares and by a new chemical
scavenger method is shown in circles. The latter one is considered as the
“true” ambient OH. Simulated OH from a photochemical box model with Master
Chemical Mechanism (MCM) v3.3.1 is shown in pluses. In panel <bold>(b)</bold>, measured
HO<inline-formula><mml:math id="M102" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> is shown in circles and modeled HO<inline-formula><mml:math id="M103" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> is shown in pluses. For
both panels, gray dots are individual 10 min measurements.</p></caption>
          <?xmltex \igopts{width=236.157874pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/2615/2018/acp-18-2615-2018-f01.pdf"/>

        </fig>

</sec>
<sec id="Ch1.S2.SS3">
  <title>Model recommendations</title>
      <p id="d1e2131">Based upon the improved understanding outlined above, we make the following
recommendations for the future modeling efforts:
<list list-type="order"><list-item>
      <p id="d1e2136">Measurements and modeling effort on OH show no indication of a need for
empirical tuning factors to represent OH chemistry in the rural southeastern
US. Detailed mechanisms based on recent laboratory chamber studies (mostly
at Caltech) and theoretical studies (Leuven) for isoprene result in
predicted OH that is in reasonable agreement with observations (Fig. 1).
Condensed mechanisms that approximate the detailed ones are expected to do
the same. Whatever mechanism is used, a key diagnostic identified is the
parent–daughter molecular relationships such as NO<inline-formula><mml:math id="M104" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> <inline-formula><mml:math id="M105" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> HNO<inline-formula><mml:math id="M106" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> or
MVK <inline-formula><mml:math id="M107" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> isoprene. Models calculations should emphasize opportunities for
observations of such ratios as an independent measure of the effect of OH on
the atmosphere.</p></list-item><list-item>
      <p id="d1e2172">The chemistry of isoprene should be treated in more detail than most
other molecules. We recommend that there should be explicit chemistry
through the first and second generation of isoprene oxidation to better
illustrate the role of isoprene in ozone production, OH budget and SOA
production. No other species should be lumped with isoprene or its
daughters. Even for climate models that cannot afford this level of
complexity, a reduced mechanism of isoprene oxidation should be generated
for a wide range of conditions.</p></list-item><list-item>
      <p id="d1e2176">NO<inline-formula><mml:math id="M108" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> chemistry is an important element of VOC oxidation, NO<inline-formula><mml:math id="M109" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
removal and aerosol production. NO<inline-formula><mml:math id="M110" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> chemistry should be included in
models that do not explicitly take it into account, both as a loss process
of VOCs and NO<inline-formula><mml:math id="M111" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and as a source of aerosols.</p></list-item><list-item>
      <p id="d1e2216">The largest NO<inline-formula><mml:math id="M112" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and BVOC emissions are not collocated, as one is
mainly from mobile sources and power plants and the other one is mainly from
forests (Yu et al., 2016; Travis et al., 2016). As a result, model
resolution can impact predicted concentrations of trace species. Different
model resolutions may lead to as much as 15 % differences at the tails of
the NO<inline-formula><mml:math id="M113" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and HCHO distribution – less so for O<inline-formula><mml:math id="M114" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> (Yu et al.,
2016; Valin et al., 2016). Depending on the research question, models should
evaluate the need to resolve this last 15 %, which requires a horizontal
resolution of order 12 km or less.</p></list-item></list></p>
</sec>
<sec id="Ch1.S2.SS4">
  <title>Key model diagnostics</title>
      <p id="d1e2252">We identified a number of key diagnostics that should probably be evaluated
before a model is used to pursue more interesting new questions. These
include the following.
<list list-type="order"><list-item>
      <p id="d1e2257">NO<inline-formula><mml:math id="M115" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> concentrations from in situ and satellite observations. Models that do
not predict the correct magnitude of NO<inline-formula><mml:math id="M116" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> should produce the wrong OH,
O<inline-formula><mml:math id="M117" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> and parent : daughter VOC ratios (e.g., isoprene : isoprene <inline-formula><mml:math id="M118" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> IEPOX,
isoprene : MACR <inline-formula><mml:math id="M119" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> MVK). At the low-NO<inline-formula><mml:math id="M120" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> characteristic of the
southeastern US these errors are approximately linear – that is, a 15 %
error in NO<inline-formula><mml:math id="M121" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> should correspond to a 15 % error in OH, isoprene and
other related species. Given the difficulty in predicting NO<inline-formula><mml:math id="M122" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> to this
tolerance, caution should be taken not to over-interpret model predictions.</p></list-item><list-item>
      <p id="d1e2330">HCHO from space-based observations is emerging as a useful diagnostic of
model oxidation chemistry (Valin et al., 2016).</p></list-item><list-item>
      <p id="d1e2334">A significant fraction of isoprene remains at sunset and is available
for oxidation via O<inline-formula><mml:math id="M123" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> or NO<inline-formula><mml:math id="M124" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> at night.  Analysis of nighttime
isoprene and its oxidation products in the RL in the northeast US in 2004
suggested this fraction to be 20 % (Brown et al., 2009).  Preliminary
analysis from SENEX suggested a similar fraction, although the analysis
depends on the emission inventory for isoprene, and would be 10–12 % if
isoprene emissions were computed from MEGAN (see Sect. 4.2 for the
difference between BEIS and MEGAN).  This fact might be a useful diagnostic
of boundary layer dynamics and nighttime chemistry in models. The overnight
fate of this isoprene depends strongly on available NO<inline-formula><mml:math id="M125" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (see above).
More exploration of the model prediction of the products of NO<inline-formula><mml:math id="M126" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub><mml:mo>+</mml:mo></mml:mrow></mml:math></inline-formula> isoprene and additional observations of those molecules will provide insight
into best practices for using it as a diagnostic of specific model
processes.</p></list-item><list-item>
      <p id="d1e2377">O<inline-formula><mml:math id="M127" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> and aerosol concentrations and trends over decades and contrasts
between weekdays and weekends across the southeast remain a valuable
diagnostic of model performance, especially as coupled to trends in NO<inline-formula><mml:math id="M128" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
on those same timescales.</p></list-item></list></p>
</sec>
<sec id="Ch1.S2.SS5">
  <title>Open questions</title>
      <p id="d1e2405">There are many open questions related to gas-phase chemistry. Here we
highlight a few that we believe are best addressed by the community of
experimentalists and modelers working together (there were many other open
questions that we think could be addressed by individual investigators
pursuing modeling or experiments on their own).
<list list-type="order"><list-item>
      <p id="d1e2410">The sources and sinks of NO<inline-formula><mml:math id="M129" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> are not well constrained in rural
areas that cover most of the southeastern US. As anthropogenic-combustion-related
emissions experience further decline, what do we expect to happen to
NO<inline-formula><mml:math id="M130" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>? What observations would test those predictions?</p></list-item><list-item>
      <p id="d1e2432">As we are reaching consensus on a mechanism for isoprene oxidation, the
role of monoterpene and sesquiterpene oxidation is becoming a larger
fraction of remaining uncertainty. Strategies for exploring and establishing
oxidation mechanisms for these molecules and for understanding the level of
detail needed in comprehensive and reduced mechanisms are needed.</p></list-item><list-item>
      <p id="d1e2436">Air quality modeling efforts have long been most interested in
conditions that are not of top priority to meteorological researchers –
e.g., stagnation. In addition to a better understanding of horizontal flows in
stagnant conditions these experiments highlighted the need for a deeper
understanding of the links between chemical mixing and boundary layer
dynamics in day and night. A number of new chemical observations have been
identified in the southeastern US data sets. Combined approaches using models
and these observations to guide our thinking about planetary boundary
layer (PBL) dynamics are needed.</p></list-item></list></p>
</sec>
</sec>
<sec id="Ch1.S3">
  <title>Organic aerosol</title>
<sec id="Ch1.S3.SS1">
  <title>Background</title>
      <p id="d1e2451">Improving the representation of organic aerosol (OA) is a critical need for
models applied to the southeast. Current air quality and chemistry–climate
models produce a very wide range of organic aerosol mass concentrations,
with predicted concentrations spread over 1–2 orders of magnitude in free
troposphere (Tsigaridis et al., 2014). Secondary OA (SOA) has
traditionally been modeled by partitioning of semivolatile species between
the gas and aerosol phase (Odum et al., 1996; Chung and Seinfeld, 2002;
Farina et al., 2010), but very large uncertainties remain on the detailed
formulations implemented in models (Spracklen et al., 2011; Heald et al.,
2011; Tsigaridis et al., 2014). In particular, the recent identification of
substantial losses of semivolatile and intermediate volatility species to
Teflon chamber walls (Matsunaga and Ziemann, 2010; Zhang et al., 2014;
Krechmer et al., 2016; Nah et al., 2016a) necessitates a re-evaluation of the
gas-phase SOA yields used in models which has yet to be comprehensively
performed. Models have difficulties in reproducing the mass loading of OA in
both urban and rural areas, although order-of-magnitude underestimates have
only been observed consistently for urban pollution (e.g., Volkamer et
al., 2006; Hayes et al., 2015). Furthermore, current OA algorithms often
rely on highly parameterized empirical fits to laboratory data that may not
capture the role of oxidant (OH vs. O<inline-formula><mml:math id="M131" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> vs. NO<inline-formula><mml:math id="M132" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> or peroxy radical
fate. The peroxy radical fate for historical experiments, in particular, may
be biased compared to the ambient atmosphere where peroxy radical lifetimes
are longer and autoxidation can be important.</p>
      <p id="d1e2475">Recent laboratory, field and model studies suggest that a significant
fraction of SOA is formed in aqueous-phase cloud droplets and aerosols,
following gas-phase oxidation to produce soluble species (Sorooshian et
al., 2007; Fu et al., 2008; Myriokefalitakis et al., 2011; Carlton et al.,
2008; Tan et al., 2012; Ervens et al., 2011; Volkamer et al., 2009). This is
also consistent with the strong correlation between OA and aerosol liquid
water in the southeastern US over the past decade (T. K. V. Nguyen et
al., 2015). A number of gas-phase VOC oxidation products have been
recognized as important precursors for aqueous production of SOA, including
epoxides (Pye et al., 2013; Nguyen et al., 2014a; Surratt et al., 2010)
and glyoxal (Liggio et al., 2005; Woo and McNeill, 2015; McNeill et al.,
2012). Aerosol uptake of these oxygenated VOCs can be further complicated by
aerosol acidity and composition (Pye et al., 2013; Paulot et al., 2009b;
Nguyen et al., 2014a; Marais et al., 2016).</p>
      <p id="d1e2478">While a significant portion of ambient OA has been attributed to various
source classes and precursors (e.g., BBOA from biomass burning; IEPOX-SOA from isoprene epoxydiols
or IEPOX; and less-oxidized oxygenated OA,
LO-OOA, from monoterpenes), a large portion of ambient OA (e.g., more-oxidized
oxygenated OA, MO-OOA) remains unapportioned. This portion lacks detailed
chemical characterization or source attribution, so further investigation is
warranted (Xu et al., 2015b, a). A diversity of modeling
approaches, including direct scaling with emissions, reactive uptake of
gaseous species and gas–aerosol partitioning, is encouraged to provide
insight into OA processes while trying to make use of all available
experimental constraints to evaluate the models.</p>
</sec>
<sec id="Ch1.S3.SS2">
  <title>Major relevant findings</title>
      <p id="d1e2487">A number of modeling groups will be interested in modeling aerosol for the
Southeast Atmosphere Study across a variety of spatial and temporal
scales. Different studies will be able to support different levels of detail
appropriate for their application. Detailed box-model representations can
serve to confirm or refute mechanisms and, eventually, be condensed for
application at larger scales such as those in chemical transport (CTM) or
general circulation (GCM) models. In the following sections, we highlight areas of organic
aerosol that should be represented.</p>
<sec id="Ch1.S3.SS2.SSS1">
  <title>Partitioning theory and phases</title>
      <p id="d1e2495">No large kinetic limitations to partitioning are observed in the southeast,
and partitioning according to vapor pressure is active on short timescales
(Lopez-Hilfiker et al., 2016). The
higher relative humidity (RH) in this region, which results in fast diffusion in
isoprene-SOA containing particles (Song et al.,
2015), may be at least partially responsible for this behavior. In some
instances (e.g., for key IEPOX-SOA species), observations indicate that
detected OA species are significantly less volatile than their structure
indicates, likely due to thermal decomposition of their accretion products
or inorganic–organic adducts in instruments (Lopez-Hilfiker et al., 2016;
Hu et al., 2016; Isaacman-VanWertz et al., 2016; Stark et al., 2017).</p>
      <p id="d1e2498">Further research is needed regarding the role of organic partitioning into
OA versus water and this can be evaluated using field data. If both
processes occur in parallel in the atmosphere, vapor-pressure-dependent
partitioning to OA may occur along with aqueous processing without
significant double counting or duplication in models. However, due to the
high relative humidity (average RH is 74 %, see Weber et al., 2016) and
degree of oxygenation of organic compounds (OM <inline-formula><mml:math id="M133" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> OC is 1.9–2.25, see below) in
the southeastern US atmosphere, inorganic-rich and organic-rich phases may not
be distinct (You et al., 2013) and more advanced
partitioning algorithms accounting for a mixed inorganic–organic water phase
may be needed (Pye et al., 2017, 2018).</p>
      <p id="d1e2508">Phase separation can be predicted based on the determination of a separation relative
humidity (SRH), which is a function of the degree of oxygenation and inorganic
constituent identity (You et al., 2013), and a comparison
to the ambient relative humidity. For RH &lt; SRH, phase separation
occurs. Pye et al. (2017)
predicted phase separation into organic-rich and electrolyte-rich phases
occurs 70 % of the time during SOAS at CTR with a higher frequency during
the day due to lower RH.</p>
</sec>
<sec id="Ch1.S3.SS2.SSS2">
  <title>Primary organic aerosol</title>
      <p id="d1e2517">Primary organic aerosol (POA) concentrations are expected to be small in the
southeast outside urban areas and we make no major recommendation for how to
model them. Modelers should be aware that a fraction of primary organic
aerosol based on the EPA National Emissions Inventory (NEI) is
semivolatile (Robinson et al., 2007). However, not all
POA is thought to be semivolatile – for example, OAs from sources such as
soil are included in the NEI. Modeled POA may already include some oxidized
POA (OPOAs) if the models include heterogeneous oxidation (as in CMAQ;
Simon and Bhave, 2012) or hydrophilic conversion (as in
GEOS-Chem; Park et al., 2003). Thus, care should be
exercised in evaluating model species such as POA with aerosol mass
spectrometer (AMS) positive matrix factorization (PMF) factors such as
hydrocarbon-like OA (HOA). For semivolatile POA treatments, mismatches
between POA inventories and semivolatile / intermediate volatility organic
compounds (S <inline-formula><mml:math id="M134" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> IVOCs) need to be carefully considered. Comparisons of model
inventory versus ambient ratios of POA <inline-formula><mml:math id="M135" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> <inline-formula><mml:math id="M136" display="inline"><mml:mi mathvariant="normal">Δ</mml:mi></mml:math></inline-formula>CO, POA <inline-formula><mml:math id="M137" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> black carbon (BC)
or POA <inline-formula><mml:math id="M138" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> NO<inline-formula><mml:math id="M139" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> can be used to indicate whether or not POA emissions are
excessive (De Gouw and Jimenez, 2009). As these ratios can be
affected by errors in the denominator species, it is important to also
evaluate those carefully against observations. For models with limited POA
information, the ratio of organic matter to organic carbon (OM <inline-formula><mml:math id="M140" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> OC) should be
adjusted to reflect the highly oxidized nature of ambient OA (as mass is
transferred from hydrophobic/hydrophilic concentrations for example). The
OM <inline-formula><mml:math id="M141" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> OC ratio of bulk ambient OA in the southeastern US is 1.9–2.25 as measured
during summer 2013 (Kim et al., 2015; Pye et al., 2017).</p>
      <p id="d1e2579">A biomass burning PMF factor (BBOA) was observed during SOAS and likely has
a higher impact on brown carbon (BrC) than its contribution to OA mass would
suggest, although overall BrC concentrations were very small
(Washenfelder et al., 2015). Net SOA mass added via photochemical
processing of biomass burning emissions is thought to be modest, relative to
the high POA emissions (Cubison et al., 2011; Jolleys et al., 2012;
Shrivastava et al., 2017).</p>
</sec>
<sec id="Ch1.S3.SS2.SSS3">
  <title>Particle-phase organic nitrates</title>
      <p id="d1e2588">Organic nitrates, primarily from monoterpene reactions with the nitrate
radical, have been recognized as an important source of OA in the southeast,
contributing from 5 to 12 % in the southeastern US in summer (Xu et al.,
2015a, b; Ayres et al., 2015; Pye et al., 2015;  B. H. Lee et al.,
2016). In fact, this number could be an underestimate if some of these
organic nitrates are susceptible to hydrolysis or photodegradation and thus
are not detected as nitrates. We have high confidence that models should
include SOA formation from nitrate radical oxidation of monoterpenes.
Sesquiterpenes and isoprene may also contribute OA through nitrate radical
oxidation, but the contribution is expected to be smaller (Pye et al.,
2015; Fisher et al., 2016). A number of options exist for representing this
type of aerosol including fixed yields, Odum 2-product parameterizations,
volatility basis set (VBS) representations
(Boyd et al., 2015) and explicit
partitioning and/or uptake of organic nitrates (Pye et al., 2015; Fisher et al.,
2016).</p>
      <p id="d1e2591">Detailed modeling studies can provide additional insight into the
interactions between monoterpene nitrate SOA and gas-phase chemistry, as
well as the fates of specific organic nitrates. Explicit formation and
treatment of organic nitrates, yields of which are parent hydrocarbon
specific, can take into account hydrolysis of particle-phase organic nitrate.
The hydrolysis should depend on the relative amounts of primary,
secondary and tertiary nitrates which are produced in different abundances
in photooxidation vs. nitrate radical oxidation (Boyd et al., 2015, 2017). Hydrolysis may also depend on the level of acidity and
presence of double bonds in the organic nitrate (Jacobs et al., 2014;
Rindelaub et al., 2016). In addition to hydrolysis, particle organic
nitrates could photolyze and release NO<inline-formula><mml:math id="M142" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> or serve as a NO<inline-formula><mml:math id="M143" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> sink
through deposition (Nah et al., 2016b).</p>
      <p id="d1e2612">Formation of organic nitrates should also be considered in the context of
emerging evidence for the role of autoxidation, especially in the
monoterpene system (Ehn et al., 2014). Autoxidation has been shown to
occur in both photooxidation and ozonolysis of monoterpenes
(Jokinen et al., 2015) and leads to highly oxidized species
including organic nitrates (B. H. Lee et al., 2016; Nah et al., 2016b), many
of which are low volatility. While some empirical representations (e.g., VBS
or Odum 2-product) of monoterpene SOA may capture these species,
autoxidation products may be very susceptible to chamber wall loss (Zhang
et al., 2014; Krechmer et al., 2016) and missing from SOA parameterizations.
The role of autoxidation in forming SOA in the southeastern US atmosphere
remains to be determined. In this regard, future laboratory studies should
carefully constrain the peroxy radical reaction channels (e.g., Schwantes
et al., 2015; Boyd et al., 2015) and be conducted under regimes that are
representative of ambient environments where the peroxy radical lifetimes
can vary.</p>
</sec>
<sec id="Ch1.S3.SS2.SSS4">
  <title>Isoprene epoxydiol (IEPOX)-SOA</title>
      <p id="d1e2622">Due to the abundance of observations in the southeastern atmosphere
(Budisulistiorini et al., 2016; W. W. Hu et al., 2015; Hu et al., 2016; Xu et al., 2015a, b, 2016), similarity between laboratory
and field IEPOX-SOA determined by PMF analysis and availability of model
parameterizations to predict IEPOX-SOA (Pye et al., 2013; Woo and
McNeill, 2015; Marais et al., 2016; Budisulistiorini et al., 2017; Sareen et
al., 2017), we have high confidence that IEPOX-SOA should be included in
models. D'Ambro et al. (2017) predicts IEPOX will be
the major precursor to SOA under low-NO<inline-formula><mml:math id="M144" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> conditions when peroxy radical
lifetimes are atmospherically relevant, which has not always been the case
in older experiments. However, a number of parameters needed to predict
IEPOX-SOA are uncertain and different modeling approaches, as well as the
use of all available experimental constraints, could be beneficial. The
mechanism of IEPOX-SOA formation involves gas-phase reactions followed by
aqueous processing which can occur either in aerosols or cloud droplets,
although the acid-catalyzed initiation step of the epoxide ring opening
favors SE US aerosol conditions and makes this process less efficient in
cloud water. This mechanism could be represented as heterogeneous reaction
with a reactive uptake coefficient or more explicit partitioning and
particle reaction (Table 1).</p>
      <p id="d1e2634">The correlation of IEPOX-SOA with sulfate (Xu et al., 2015a,
2016; W. W. Hu et al., 2015) can serve as a useful model evaluation technique as
underestimates in sulfate could lead to underestimates in IEPOX-SOA in
models (Fig. 2). Current pathways for IEPOX-SOA formation
(Eddingsaas et al., 2010) involve acidity in aqueous solutions
(Kuwata et al., 2015), but several studies suggest that
IEPOX-SOA is not correlated well with aerosol acidity or aerosol water
(Budisulistiorini et al., 2017; Xu et al., 2015a). Ion balances or other
simple measures of aerosol acidity are likely inadequate to characterize
particle acidity and thermodynamic models such as ISORROPIA II or AIM are
more appropriate for modeling IEPOX-SOA (Guo et al., 2015; Weber et al.,
2016). Currently, different observational data sets indicate different
nominal ratios of ammonium to sulfate
(Pye et al., 2018), so it needs to be
kept in mind that some measurements report only inorganic sulfate (e.g., ion
chromatography) while others report total (inorganic <inline-formula><mml:math id="M145" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> organic) sulfate
(e.g., AMS). A modeling study suggested that ammonia uptake might be limited
by organics, thus affecting acidity (Kim et al., 2015; Silvern et al.,
2017).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F2"><caption><p id="d1e2646">Time series and correlation between isoprene OA and sulfate during
SOAS (Pye et al., 2016; Xu et al., 2015). Panel <bold>(a)</bold> shows the time series of
both isoprene OA and sulfate at the Centerville
site during SOAS. Panel <bold>(b)</bold> and
<bold>(c)</bold> shows the correlation plot between isoprene OA and sulfate from both
measurements and model results at two sites (Centerville and Little Rock)
during SOAS.</p></caption>
            <?xmltex \igopts{width=236.157874pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/2615/2018/acp-18-2615-2018-f02.pdf"/>

          </fig>

      <p id="d1e2664">SAS observations also provide estimates of some components of IEPOX-SOA
including 2-methyltetrols and IEPOX–organosulfates (Budisulistiorini et
al., 2015; W. W. Hu et al., 2015). For modeling applications focusing on
IEPOX-SOA, additional speciation of IEPOX-SOA (into tetrols, organosulfates,
etc.) and oligomerization and volatility can be treated. Treating the
monomers (e.g., 2-methyltetrols) explicitly with their molecular properties
will likely lead to excessive volatility of the IEPOX-SOA (Lopez-Hilfiker
et al., 2016; Hu et al., 2016; Isaacman-VanWertz et al., 2016; Stark et al.,
2017).</p>
</sec>
<sec id="Ch1.S3.SS2.SSS5">
  <title>Glyoxal SOA</title>
      <p id="d1e2673">New information on glyoxal SOA is emerging in this area but its importance
in the southeast remains unclear. Glyoxal has been suspected to be the
dominant aqueous SOA source under high-NO<inline-formula><mml:math id="M146" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (RO<inline-formula><mml:math id="M147" 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> NO)
oxidation conditions (McNeill et al., 2012) and the
southeast has a mix of high-NO<inline-formula><mml:math id="M148" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and low-NO<inline-formula><mml:math id="M149" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (RO<inline-formula><mml:math id="M150" 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> HO<inline-formula><mml:math id="M151" 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> conditions
(Travis et al.,
2016). In addition, abundant isoprene emissions can lead to substantial
glyoxal concentrations. Modeling for the southeastern US indicates
significant SOA can form from glyoxal (Marais et al., 2016; Pye et al.,
2015; Knote et al., 2014; Li et al., 2016; Chan Miller et al., 2017).
Implementation in models may require modifications to the gas-phase
chemistry to specifically track glyoxal which may be lumped with other
aldehydes (e.g., in CB05). Recent model studies do not find that a large SOA
source from glyoxal is required to match observations, but more field
measurements and laboratory studies, especially of the yield from isoprene
oxidation and the aerosol uptake coefficient, are required to constrain the
process.</p>
</sec>
<sec id="Ch1.S3.SS2.SSS6">
  <title>Cloud SOA</title>
      <p id="d1e2746">Results from SOAS and SEAC4RS indicate only a modest enhancement of OA due
to cloud processing over the SE US, which was not statistically significant
(Wagner et al., 2015). In addition, epoxide reactions in cloud droplets
are predicted to lead to minor amounts of SOA due to the pH dependence of
IEPOX hydrolysis (Fahey et al., 2017; McNeill, 2015).</p>
</sec>
<sec id="Ch1.S3.SS2.SSS7">
  <title>SOA from anthropogenic emissions</title>
      <p id="d1e2755">While the rural southeast is assumed to be dominated by SOA from biogenic
precursors (which may be influenced by anthropogenic pollution) as a result
of high modern carbon (Hidy et al., 2014), SOA
from anthropogenic VOCs is known to play a role from fossil carbon
measurements (<inline-formula><mml:math id="M152" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 18 % at Centerville; Kim et al.,
2015), but it is not directly apportioned otherwise. We note that since
<inline-formula><mml:math id="M153" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 50 % of urban POA and 30 % of urban SOA is non-fossil
(Zotter et al., 2014; Hayes et al., 2015); an urban fraction of
<inline-formula><mml:math id="M154" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 28 % for the SOAS site is consistent with observations
(Kim et al.,
2015). This source is as large as most of the other individual sources
discussed in this section and should not be neglected in modeling studies.
A simple parameterization based on CO emissions
(Hayes et al., 2015) may be
adequate for incorporating this source in modeling studies and has shown
good results for the southeastern US
(Kim et al.,
2015), but care should be taken to evaluate the CO emissions when using it.</p>
</sec>
<sec id="Ch1.S3.SS2.SSS8">
  <title>Surface network observations of organic aerosols</title>
      <p id="d1e2785">We list several caveats for the process of comparing model results to
surface network observations. OC measurements from IMPROVE surface sites may
be biased low in the summer due to evaporation of organic aerosols during
the sample collection and handling
(Kim et al.,
2015). On the other hand, SEARCH measurements agree well with research
community instruments in the Centerville site, such as AMS. Therefore the SEARCH
data should be considered as the reference.</p>
      <p id="d1e2788">Decreases in mass concentrations of particulate sulfate and nitrate over the
past decades  are consistent with environmental policy targeting their
gas-phase precursors, namely SO<inline-formula><mml:math id="M155" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and NO<inline-formula><mml:math id="M156" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions. Reductions in particulate
organic carbon in the southeastern US over the past decade (Blanchard
et al., 2016, 2013) are more difficult to reconcile
because in the summertime it is predominantly modern and there is no control
policy aimed at reducing biogenic VOCs. Decreased SO<inline-formula><mml:math id="M157" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (Kim et al., 2015;
Xu et al., 2015b; Blanchard et al., 2013) and NO<inline-formula><mml:math id="M158" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions modulate the
amount of organic aerosol formation through the gas-phase impacts described
above and impacts on the absorbing medium amount (T. K. V. Nguyen et al., 2015;
Attwood et al., 2014) and chemical composition.</p>
      <p id="d1e2827">In addition to sources and sinks of OA, attention should also be paid to the
role of dry deposition of gases in determining mass loadings, as this
process can have a large impact on model predictions and is very poorly
constrained (Glasius and Goldstein, 2016; Knote et al., 2015).</p>
</sec>
<sec id="Ch1.S3.SS2.SSS9">
  <title>Climate-relevant properties</title>
      <p id="d1e2836">A motivating goal of the southeast studies was to examine PM mass
measurements at the surface and satellite-measured AOD (aerosol optical depth) to facilitate
improved prediction of the total aerosol loading. Aerosol mass aloft
contributes to AOD (Wagner et al., 2015), and this complicates the
relationship to surface concentrations. Relative humidity, vertical
structure of the daytime PBL and aerosol liquid water (not measured by
surface networks) influences remotely sensed AOD (Brock et al., 2016a, b; Kim et al., 2015; Nguyen et al., 2016). AOD is also
complicated by aerosol composition.
Attwood et al. (2014) finds that
the steeper decrease in sulfate aerosol relative to organic from 2001 to
2013 has changed the hygroscopicity of SE US aerosol, leading to lower
aerosol liquid water and thus lower optical extinction and AOD.</p>
</sec>
</sec>
<sec id="Ch1.S3.SS3">
  <title>Model recommendations</title>
      <p id="d1e2846">Based upon the improved understanding outlined above, we make the following
recommendations for the future modeling efforts:
<list list-type="order"><list-item>
      <p id="d1e2851">There is high confidence that a pathway of SOA formation from isoprene
epoxydiol (IEPOX) should be included in models. However, since many of the
parameters needed to predict IEPOX-SOA are uncertain, further mechanistic
studies are needed to address these uncertainties.</p></list-item><list-item>
      <p id="d1e2855">There is high confidence that models should include SOA formation from
nitrate radical oxidation of monoterpenes (with or without explicit nitrate
functionality). Sesquiterpenes and isoprene may also contribute SOA through
nitrate radical oxidation, but the contribution is expected to be smaller.</p></list-item><list-item>
      <p id="d1e2859">More field measurements and laboratory studies, especially of the yield
from isoprene oxidation and the aerosol uptake coefficient, are required to
constrain the importance of glyoxal SOA.</p></list-item><list-item>
      <p id="d1e2863">There is high confidence that models should predict SOA from urban
emissions with a parameterization that results in realistic concentrations.
The non-fossil fraction of urban POA and SOA needs to be taken into account
when interpreting modern carbon measurements.</p></list-item><list-item>
      <p id="d1e2867">Current SOA modeling efforts should be coupled with an up-to-date
gas-phase chemistry to provide realistic concentrations for several
important SOA precursors, including IEPOX, glyoxal, organic nitrates, etc.</p></list-item></list></p>
</sec>
<sec id="Ch1.S3.SS4">
  <title>Open questions</title>
      <p id="d1e2876">A number of open questions remain that would benefit from modeling studies:
<list list-type="order"><list-item>
      <p id="d1e2881">What is the role of particle-phase organic nitrates in removing or
recycling NO<inline-formula><mml:math id="M159" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> from the system?</p></list-item><list-item>
      <p id="d1e2894">How much detail do models need to represent in terms of types of organic
nitrate (ON)?</p></list-item><list-item>
      <p id="d1e2898">What are the formation mechanisms of highly oxygenated organics?</p></list-item><list-item>
      <p id="d1e2902">What anthropogenic sources of SOA are models missing?</p></list-item><list-item>
      <p id="d1e2906">What climate-relevant aerosol properties are needed in models? What are
the controls over the presence and lifetime of condensed liquid water? What
model and observational diagnostics serve as tests of our understanding?</p></list-item><list-item>
      <p id="d1e2910">What is the role of clouds in forming and processing organic aerosols?</p></list-item></list></p>
</sec>
</sec>
<sec id="Ch1.S4">
  <title>Emissions</title>
<sec id="Ch1.S4.SS1">
  <title>Background</title>
      <p id="d1e2925">Emission inventories are a critical input to atmospheric models, and
reliable inventories are needed to design cost-effective strategies that
control air pollution. For example, in the 1970s and 1980s, emission control
strategies implemented under the Clean Air Act emphasized the control of
anthropogenic VOC emissions over NO<inline-formula><mml:math id="M160" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (National Research Council,
2004). Despite large order-of-magnitude reductions in anthropogenic VOC
emissions (Warneke et al., 2012), abatement of O<inline-formula><mml:math id="M161" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> was slow
in many regions of the country. In the late 1980s, a large and
underrepresented source of biogenic VOC emissions was identified (Trainer
et al., 1987; Abelson, 1988; Chameides et al., 1988), putting into question
the effectiveness of anthropogenic VOC emission control strategies to
mitigate O<inline-formula><mml:math id="M162" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> nationally (Hagerman et al., 1997). Since
the mid-1990s, large reductions in NO<inline-formula><mml:math id="M163" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions have resulted from
(i) controls implemented at power plants (Frost et al., 2006), (ii) more
durable three-way catalytic converters installed on gasoline vehicles
(Bishop and Stedman, 2008) and (iii) more effective regulation
of diesel NO<inline-formula><mml:math id="M164" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions from heavy-duty trucks (Yanowitz et al.,
2000; McDonald et al., 2012). Emission reductions implemented on combustion
sources have also been linked to decreases in organic aerosol
concentrations observed in both California (McDonald et al.,
2015) and the southeastern US (Blanchard et al.,
2016). Though substantial progress has been made in improving scientific
understanding of the major biogenic and anthropogenic sources of emissions
contributing to air quality problems, some issues remain in current US
inventories and are highlighted below.</p>
      <p id="d1e2973">The southeastern US is a region that has both large natural emissions and
anthropogenic emissions. The accurate knowledge of biogenic emissions is key
to understanding many of the processes that lead to ozone and aerosol
formation. Previous studies suggest that MEGANv2.1 can estimate isoprene emissions that are twice as
large compared with BEIS over the eastern US (Warneke
et al., 2010; Carlton and Baker, 2011), but most global models using
MEGANv2.1 do not show a significant bias of isoprene over the southeastern US
(Mao et al., 2013; Millet et al., 2006). This is likely due to different
land cover data being used in the regional and global applications of MEGAN.
Validation of the various biogenic emission inventories was therefore one of
the main science questions for the SAS studies.</p>
      <p id="d1e2976">The National Emissions Inventory developed by the US EPA is an
inventory of air pollutants released every 3 years and commonly used in
US-based air quality modeling studies. A recent modeling study reported
that NO<inline-formula><mml:math id="M165" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions from mobile source emissions were overestimated by
51–70 % in the Baltimore–Washington, D.C., region
(Anderson et al., 2014). Past studies have also found
discrepancies in motor vehicle emission models used by the EPA to inform the NEI
(Parrish, 2006; McDonald et al., 2012). Additionally, problems have been
identified in estimates of NO<inline-formula><mml:math id="M166" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, VOC and methane emissions from US
oil and gas development (Ahmadov et al., 2015; Pétron et al., 2014;
Brandt et al., 2014). Some major oil and gas basins of note are located in
the southeastern US, which were measured by aircraft during the SAS2013
studies. In contrast to mobile source and oil and gas emissions, power plant
emissions of NO<inline-formula><mml:math id="M167" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and SO<inline-formula><mml:math id="M168" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> are believed to be known with greater
certainty since large stationary sources of emissions are continuously
monitored. In addition to biogenic emission inventories, the data sets
collected by the SAS2013 studies have provided an opportunity to assess the
accuracy of anthropogenic emissions and their impacts on atmospheric
chemistry.</p>
      <p id="d1e3015">The topic of model resolution, which involves the relationship between
emissions and chemistry, is also key to interpreting model-observation
comparisons. Regional-scale air quality models can be simulated at very high
horizontal resolutions (e.g., 1 km and finer; Joe et
al., 2014); however, typically they are run at coarser resolutions, such as
at 12 km by 12 km (e.g., continental US; Gan et al., 2016)
or 4 km by 4 km (e.g., urban scale; Kim et al., 2016b). The horizontal
resolution of global chemistry models has significantly improved, with
nesting being performed at horizontal resolutions as fine as
0.25<inline-formula><mml:math id="M169" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math id="M170" display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.3125<inline-formula><mml:math id="M171" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>
(Travis et al.,
2016). Coarse model resolutions can complicate evaluations with high spatial-
and temporal-resolution measurements (e.g., from aircraft) of chemical
constituents undergoing fast chemistry (e.g., isoprene, OH; Kaser et al., 2015). Sharp
concentration gradients are observable from space for species with
relatively short atmospheric lifetimes (e.g., nitrogen dioxide,
formaldehyde and glyoxal) and potentially provide insights into the role
of natural and anthropogenic emissions on air quality (Duncan et al.,
2010; Russell et al., 2012; Lei et al., 2014). Lastly, some emission sources
are described by large emission intensities (e.g., power plants and biomass
burning), which result in elevated concentrations of emitted species
downwind. A coarse model will artificially dilute these high emission fluxes
(e.g., NO<inline-formula><mml:math id="M172" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and SO<inline-formula><mml:math id="M173" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> over a wider area, which could alter the
chemical regime by which ozone (Ryerson et al., 1998,
2001) and secondary aerosols (Xu et al., 2015a) form.</p>
</sec>
<sec id="Ch1.S4.SS2">
  <title>Major relevant findings</title>
<sec id="Ch1.S4.SS2.SSS1">
  <title>Biogenic emissions</title>
      <p id="d1e3075">Isoprene emissions measured by the NOAA P3, using the mixed boundary layer
budget method, and NCAR/NSF C-130 and NASA DC-8 aircraft using direct eddy
covariance flux measurements were within the wide range of observations
reported by previous studies. The two methods of estimating isoprene
emissions agreed within their uncertainties (Yu et al.,
2017). Solar radiation and temperature measured by the aircraft along the
flight tracks and available from regional model and assimilations (e.g.,
WRF, NLDAS-2) enabled estimation of emissions using models including
BEIS3.12, BEIS3.13, MEGAN2.0, MEGAN2.1 with default land cover, MEGAN2.1 with
revised land cover and MEGAN3. Isoprene emissions are highly sensitive to
solar radiation and temperature, and biases in the values used to drive
emission models can result in errors exceeding 40 %, complicating
efforts to evaluate biogenic emission models. As has previously been noted
in the southeastern US, MEGAN2.1 predicted isoprene emissions in the
southeastern US were about twice as high as BEIS3.13. The measurements fall
between the two models and are within the model and measurement
uncertainties (Warneke et al., 2010). Isoprene mixing ratios were modeled
with (a) WRF-Chem using BEIS and with (b) CAMx using MEGAN, and the results
were consistent with the measurement–inventory comparison: WRF-Chem was
biased low and CAMx biased high (Warneke et al., in preparation).</p>
      <p id="d1e3078">Land cover characteristics including leaf area index (LAI) and tree species
composition data are also critical driving variables for BEIS and MEGAN
isoprene and monoterpene emission estimates. Airborne flux measurements
agreed well with MEGAN2.1 for landscapes dominated by southeastern oaks,
which are high-isoprene-emitting tree species, but landscapes that had an
overstory of non-emitters, with the high-isoprene emitters in the
understory, showed emissions lower than expected by the model. The isoprene
emission factor (EF) was linearly correlated with the high-isoprene-emitter plant
species fraction in the land cover data set. This may indicate a need for
models to include canopy vertical heterogeneity of the isoprene emitting
fraction (Yu et al., 2017).</p>
      <p id="d1e3081">A simplification used in current biogenic emission models including
BEIS3.13, BEIS3.6 and MEGAN2.1 is that all high-isoprene-emitting species
are assigned the same isoprene emission factor. For example, all North
American species of <italic>Quercus</italic> (oak), <italic>Liquidambar</italic> (sweetgum), <italic>Nyssa</italic> (tupelo),
<italic>Platanus</italic> (sycamore), <italic>Salix</italic> (willow), <italic>Robinia</italic> (locust) and <italic>Populus</italic> (poplar
and aspen) are assigned a single value based on the average of an extensive
set of enclosure measurements conducted in North Carolina, California and
Oregon in the 1990s (Geron et al., 2001). Earlier studies had
reported isoprene emission factors for these tree species that ranged over
more than an order of magnitude (Benjamin et al., 1996).
Geron et al. (2001) showed that by following specific
measurement protocols, including leaf cuvettes with environmental controls
and ancillary physiological measurements such as photosynthesis, the
variability dropped from over an order of magnitude to about a factor of 3.
They concluded that this remaining variability was due at least as much to
growth conditions as to species differences and so recommended that a single
isoprene emission factor be used for all of these species. Recent aircraft
flux measurements (Misztal et al., 2016; Yu et al., 2017) indicate that
there is at least a factor of 2 difference in the isoprene emission
factors of these species. This could be due to a genetic difference in
emission capacity and/or differences in canopy structure. The aircraft
measurements indicate that sweetgum and tupelo emission factors are similar
to the value used in BESI3.13 and BEIS3.6, while the California oak emission
factor is similar to that used in MEGAN2.1. The aircraft-based estimate of
southeastern oak emission factors falls between the BEIS3.6 and MEGAN2.1
values. As a result, aircraft flux measurements in the southeastern US are
higher than BEIS3.13 and BEIS3.6 and lower than MEGAN2.1. The MEGAN3 emission
factor processor provides an approach for synthesizing available emission
factor data and can be used to account for the emission rate variability
observed by these aircraft flux studies (Guenther et al., 2018).</p>
      <p id="d1e3106">Modeling monoterpene emissions is even more challenging than isoprene
emissions for reasons that include multiple emission processes (e.g., both
light-dependent and light-independent emissions), stress-induced emission
capability present in many plant species but not always expressed and the
potential for enclosure measurements to dramatically overestimate emissions
due to release of monoterpenes from damaged storage pools. The eddy
covariance flux measurements on the NCAR/NSF C-130 are similar to the values
estimated by MEGAN2.1 for needle leaf forests, considered to be
high-emission regions, but are higher than the modeled monoterpene emissions from
other landscapes (Yu et al., 2017). They conclude that
unaccounted processes, such as floral and stress emissions, or sources such
as non-tree vegetation may be responsible for the unexpectedly high
monoterpene emissions observed by the aircraft.</p>
      <p id="d1e3110">During the experiment direct observations of fluxes for a variety of species
from large aircraft were conducted, enabling a first direct estimate of
fluxes over a regional domain (Wolfe et al., 2015; Yuan et al., 2015;
Kaser et al., 2015). These data have the potential for enabling analyses of
strengths and weaknesses of current emission and deposition schemes and
their implementation within chemical transport models. Vertical flux
profiles also contain information on the chemical production and loss rates,
providing a new observational constraint on the processes controlling
reactive gas budgets. An LES model was used to simulate isoprene, NO<inline-formula><mml:math id="M174" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
and their variability in the boundary layer. The results showed good
agreement between the measurements and the model. The atmospheric
variability of isoprene, the altitude profile in the boundary layer of
isoprene, and NO<inline-formula><mml:math id="M175" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> mixing ratios and fluxes were well reproduced in the
model, which was used to validate the eddy covariance and mixed boundary
layer methods of estimating isoprene fluxes (Kim et al., 2016a; Wolfe et
al., 2015).</p>
</sec>
<sec id="Ch1.S4.SS2.SSS2">
  <title>Anthropogenic emissions</title>
      <p id="d1e3137">Travis et al. (2016) utilizing the GEOS-Chem model report that NO<inline-formula><mml:math id="M176" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions are
significantly overestimated by the NEI 2011 and suggest that mobile source
and industrial emissions of NO<inline-formula><mml:math id="M177" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> need to be lowered by 30–60 % to be
consistent with aircraft measurements collected over the southeastern US
during the SEAC4RS study. These results are consistent with modeling studies
performed during the DISCOVER-AQ field campaign, which also found that the
NEI 2011 overestimated NO<inline-formula><mml:math id="M178" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions (Anderson et al., 2014; Souri
et al., 2016). However, a later study by
Li et al. (2018)
utilizing the AM3 model during the SENEX study suggests that overestimates
in NEI 2011 NO<inline-formula><mml:math id="M179" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions may be smaller than reported in the Travis et
al. study (<inline-formula><mml:math id="M180" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 14 % vs. 30–60 %). McDonald et al. (2018) using WRF-Chem
found mobile source emissions in the NEI 2011
to be overestimated by <inline-formula><mml:math id="M181" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 50 % and a factor of 2.2 for
NO<inline-formula><mml:math id="M182" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and CO, respectively, when evaluated with SENEX aircraft
measurements. Due to rapidly declining trends in vehicle emissions
(McDonald et al., 2013, 2012), some of the emissions
overestimate was attributed to utilizing a 2011 inventory in 2013 model
simulations. However, roadside measurements of vehicular exhaust also
suggest systematic overestimates in emission factors used by the EPA's vehicle
emissions model (MOVES), likely contributing to the consistent reporting to
date of overestimated mobile source NO<inline-formula><mml:math id="M183" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions (Anderson et al.,
2014; Souri et al., 2016; Travis et al., 2016). When NO<inline-formula><mml:math id="M184" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions were
reduced from mobile sources by this amount, model predictions of O<inline-formula><mml:math id="M185" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>
over the southeastern US were improved both for mean concentrations and
O<inline-formula><mml:math id="M186" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> extreme days (McDonald et al., 2018), consistent with
modeling by Li et al. (2018) demonstrating the sensitivity of O<inline-formula><mml:math id="M187" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> to NO<inline-formula><mml:math id="M188" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions in
the southeastern US over the 2004–2013 timespan.</p>
      <p id="d1e3255">Along with other aircraft field campaigns and tall tower measurements in the
Upper Midwest, data from the SENEX study was used to assess anthropogenic
emissions of VOCs in the NEI and a global inventory (RETRO).
L. Hu et al. (2015) found that RETRO consistently overestimates
US emissions of C6–C8 aromatic compounds by factors of 2–4.5; the NEI
2008 overestimates toluene by a factor of 3 but is consistent with top-down
emission estimates for benzene and C8 aromatics. The study also suggests
that East Asian emissions are an increasingly important source of benzene
concentrations over the US, highlighting the importance of long-range
transport on US air quality as domestic sources of emissions decline
(Warneke et al., 2012).</p>
      <p id="d1e3258">Two studies have quantified top-down emissions of oil and gas operations,
derived from aircraft measurements for VOCs and methane from SENEX P-3 data
(Peischl et al., 2015; Yuan et al., 2015). The oil and gas regions
measured during SENEX account for half of the US shale gas production, and
loss rates of methane to the atmosphere relative to production were
typically lower than prior assessments
(Peischl et al., 2015). Yuan
et al. (2015) explored the utility of eddy-covariance flux measurements on
SENEX and NOMADSS aircraft campaigns and showed that methane emissions were
disproportionately from a subset of higher emitting oil and gas facilities.
Strong correlations were also found between methane and benzene, indicating
that VOCs are also emitted in oil and gas extraction. High wintertime
O<inline-formula><mml:math id="M189" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> has been found in the Uintah Basin, UT (Ahmadov et al., 2015;
Edwards et al., 2014), though it is unclear at this time how significant oil
and gas emissions of VOCs could be in an isoprene-rich source region on
tropospheric O<inline-formula><mml:math id="M190" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> formation. Future atmospheric modeling efforts of oil
and gas emissions are needed.</p>
      <p id="d1e3279">During the SENEX and SEAC4RS studies, research aircraft measured
agricultural fires over the southeast. Liu et al. (2016) reported
emission factors of trace gases, which were consistent with prior
literature. In general, the authors found emissions of SO<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>, NO<inline-formula><mml:math id="M192" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
and CO from agricultural fires to be small relative to mobile sources
(&lt; 10 %). However, within fire plumes, rapid O<inline-formula><mml:math id="M193" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> formation was
observed, indicating potential air quality impacts on downwind communities.
To represent the impact of biomass burning, air quality models need improved
treatments of initial VOC and NO<inline-formula><mml:math id="M194" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions and near-source chemistry.
Sub-grid parameterizations, based on detailed models like the Aerosol
Simulation Program (ASP; Alvarado and Prinn, 2009) and which
incorporate gas-phase chemistry, inorganic and organic aerosol
thermodynamics, and evolution of aerosol size distribution and optical
properties, could improve coarse model representations of chemistry near
biomass burning plumes. Zarzana et al. (2017)
investigated enhancements of glyoxal and methylglyoxal relative to CO from
agricultural fires and report that global models may overestimate biomass
burning emissions of glyoxal by a factor of 4. This highlights large
uncertainties and variability in fire emissions and a need for additional
observational constraints on inventories and models.</p>
</sec>
</sec>
<sec id="Ch1.S4.SS3">
  <title>Model recommendations and future work</title>
      <p id="d1e3325"><list list-type="order">
            <list-item>

      <p id="d1e3330">In the southeastern US, isoprene emissions are so large that they influence
most atmospheric chemistry processes. Users of model simulations using the
different isoprene inventories have to be aware of the differences. For
example, OH and isoprene concentrations are anti-correlated (Kim et al., 2015)
and model simulations using BEIS will potentially have higher OH than
simulations using MEGAN and chemistry will proceed at different rates. In
addition, modeled products from isoprene oxidation in the gas and particle
phase will be different. Isoprene-derived SOA or secondary CO in the
southeastern US can vary by a factor of 2 between the two inventories.</p>
            </list-item>
            <list-item>

      <p id="d1e3336">For future work, BEIS3.6 is now available and needs to be evaluated
using the methods described here.</p>
            </list-item>
            <list-item>

      <p id="d1e3342">The MEGAN3 emission factor processor can be used to synthesize the available
emission factor estimates from SAS and other studies. A beta version of the
MEGAN3 emission factor processor and MEGAN3 model processes is available and
should be evaluated.</p>
            </list-item>
            <list-item>

      <p id="d1e3348">A revised NO<inline-formula><mml:math id="M195" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions inventory is needed to improve air quality
models for O<inline-formula><mml:math id="M196" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>, especially in the southeastern US where O<inline-formula><mml:math id="M197" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> is
sensitive to changes in NO<inline-formula><mml:math id="M198" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions. Anthropogenic emissions of
NO<inline-formula><mml:math id="M199" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> in the NEI 2011 may be overestimated by 14–60 % in the
southeastern US during the SAS2013 study time period (Travis et al.,
2016; Li et al., 2018).</p>
            </list-item>
          </list></p>
</sec>
</sec>
<sec id="Ch1.S5">
  <title>Chemistry–climate interactions</title>
<sec id="Ch1.S5.SS1">
  <title>Background</title>
      <p id="d1e3411">Interactions between atmospheric chemistry and climate over the southeastern
United States are not well quantified. The dense vegetation and warm
temperatures over the southeast result in large emissions of isoprene and
other biogenic species. These emissions, together with anthropogenic
emissions, lead to annual mean aerosol optical depths of nearly 0.2,
with a peak in summer (Goldstein et al., 2009). The climate
impacts of US aerosol trends in the southeast due to changing anthropogenic
emissions are under debate (e.g., Leibensperger et al., 2012a, b; Yu et
al., 2014). Climate change can, in turn, influence surface air quality, but
even the sign of the effect is unknown in the southeast (Weaver et al.,
2009). Part of this uncertainty has to do with complexities in the mechanism
of isoprene oxidation, the details of which are still emerging from
laboratory experiments and field campaigns (Liao et al., 2015; Fisher et
al., 2016; Marais et al., 2016). In addition, the influence of day-to-day
weather on surface ozone and particulate matter (PM<inline-formula><mml:math id="M200" display="inline"><mml:mrow><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> has not been
fully quantified, and climate models simulate different regional climate
responses. Resolving these uncertainties is important, as climate change in
the coming decades may impose a “climate penalty” on surface air quality
in the southeast and elsewhere (Fiore et al., 2015).</p>
</sec>
<sec id="Ch1.S5.SS2">
  <title>Key science issues and recent advances</title>
      <p id="d1e3432">We describe recent advances in four areas related to chemistry–climate
interactions in the southeast.</p>
<sec id="Ch1.S5.SS2.SSS1">
  <title>Seasonality and trends in aerosol loading in the southeast</title>
      <p id="d1e3440">Using satellite data, Goldstein et al. (2009) diagnosed
summertime enhancements in AOD of 0.18 over the southeast, relative to
winter, and hypothesized that secondary organic aerosol from biogenic
emissions accounts for this enhancement. Goldstein et al. (2009) further estimated a regional surface cooling of <inline-formula><mml:math id="M201" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.4 W m<inline-formula><mml:math id="M202" 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> in
response to annual mean AOD over the southeast. These findings seemed at
first at odds with surface PM<inline-formula><mml:math id="M203" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> measurements, which reveal little
seasonal enhancement in summer. Using SEAC4RS measurements and GEOS-Chem,
Kim et al. (2015) determined that the relatively flat seasonality in surface PM<inline-formula><mml:math id="M204" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> can be traced to the deeper boundary layer in summer, which dilutes
surface concentrations.</p>
      <p id="d1e3480">In response to emission controls, aerosol loading over the southeast has
declined in recent decades. For example, wet deposition fluxes of sulfate
decreased by as much as <inline-formula><mml:math id="M205" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 50 % from the 1980s to 2010
(Leibensperger et al., 2012a). Over the
2003–2013 time period, surface concentrations of sulfate PM<inline-formula><mml:math id="M206" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> declined by 60 %. Organic aerosol (OA) also declined by 60 % even
though most OA appears to be biogenic and there is no indication of a
decrease in anthropogenic sources
(Kim et al.,
2015). Model results suggest that the observed decline in OA may be tied to
the decrease in sulfate, since OA formation from biogenic isoprene depends
on aerosol water content and acidity (Marais et al., 2016, 2017). Consistent with these surface trends, 550 nm AOD at AERONET (Aerosol Robotic Network) sites
across the southeast has also decreased, with trends of <inline-formula><mml:math id="M207" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>4.1 % a<inline-formula><mml:math id="M208" 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>
from 2001 to 2013 (Attwood et al.,
2014). Xing et al. (2015a) reported a roughly
<inline-formula><mml:math id="M209" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>4 % decrease in remotely sensed AOD across the eastern United States, as
measured by the Moderate Resolution Imaging and Spectroradiometer (MODIS) on
board Terra and Aqua. These large declines could potentially have had a
substantial impact on regional climate, both through aerosol–radiation
interactions and aerosol–cloud interactions.</p>
</sec>
<sec id="Ch1.S5.SS2.SSS2">
  <title>Contribution of aerosol trends to the US “warming hole”</title>
      <p id="d1e3531">Even as global mean temperatures rose over the 20th century in response to
increasing greenhouse gases, significant cooling occurred over the central
and southeastern United States. This cooling, referred to as the US
warming hole (Pan et al., 2004), has been quantified in
several ways. For example, Fig. 3 shows that annual mean temperatures
across the southeast decreased by <inline-formula><mml:math id="M210" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 1 <inline-formula><mml:math id="M211" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C during the
1930–1990 timeframe (Capparelli et al., 2013). A
different temperature metric, the 20-year annual return value for the hot
tail of daily maximum temperatures, decreased by 2<inline-formula><mml:math id="M212" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> from
1950 to 2007 (Grotjahn et al., 2016). Over a similar time frame,
Portmann et al. (2009) diagnosed declines in maximum daily
temperatures in the southeast of 2–4<inline-formula><mml:math id="M213" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> per decade, with
peak declines in May–June, and linked these temperature trends with regions
of high climatological precipitation. Since the early 2000s, the cooling
trend has appeared to reverse (Meehl et al., 2015).</p>
      <p id="d1e3568">The causes of the US warming hole are not clear. Most freely running
climate models participating in the Coupled Model Intercomparison Project
(CMIP5) cannot capture the observed 20th century temperature trends over the
southeast (Knutson et al., 2013; Kumar et al., 2013; Sheffield et al.,
2013); this failure likely arises from either model deficiency or natural
variability not included in the simulations. Indeed, several studies have
argued that naturally occurring oscillations in sea surface temperatures
(SSTs) influenced the large-scale cooling in the southeast (Robinson et
al., 2002; Kunkel et al., 2006; Meehl et al., 2012; Weaver, 2013; Mascioli
et al., 2017). Kumar et al. (2013), for example, linked the
June–July–August indices of the Atlantic Multidecadal Oscillation (AMO) to
annual mean temperatures across the eastern US for the 1901–2004 period.
Mauget and Cordero (2014), however, pointed out
inconsistencies in these two time series, with the AMO index sometimes
lagging temperature changes. A recent study has argued that the transition
of the Interdecadal Pacific Oscillation (IPO) phase from positive to
negative in the late 1990s may have triggered a reversal of the warming hole
trend (Meehl et al., 2015).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F3"><caption><p id="d1e3573">Observed difference in surface air temperature between 1930 and
1990 <bold>(a)</bold> and modeled effect of US anthropogenic aerosol sources on surface
air temperatures for the 1970–1990 period when US aerosol loading was at
its peak (<bold>b</bold> and <bold>c</bold>; Leibensperger et al., 2012a). Observations are from the
NASA GISS Surface Temperature Analysis (GISTEMP;
<uri>http://data.giss.nasa.gov/gistemp/</uri>). Model values represent the mean
difference between 5-member ensemble GCM simulations including vs. excluding
US anthropogenic aerosol sources and considering the aerosol direct only <bold>(b)</bold> and the sum of direct and indirect effects <bold>(c)</bold>.
In <bold>(b)</bold> and <bold>(c)</bold>, dots
indicate differences significant at the 95th percentile.</p></caption>
            <?xmltex \igopts{width=199.169291pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/2615/2018/acp-18-2615-2018-f03.pdf"/>

          </fig>

      <p id="d1e3607">The cool period in the southeast coincided with heavy aerosol loading over
the region, and several studies have suggested that trends in aerosol
forcing may have also played a role in driving the US warming hole. For
example, Leibensperger et al. (2012a, b) found that the regional
radiative forcing from anthropogenic aerosols led to a strong regional
climate response, cooling the central and eastern US by 0.5–1.0<inline-formula><mml:math id="M214" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> from 1970 to 1990 (Fig. 3), with the strongest effects
on maximum daytime temperatures in summer and autumn. In that study, the
spatial mismatch between maximum aerosol loading and maximum cooling could
be partly explained by aerosol outflow cooling the North Atlantic, which
strengthened the Bermuda High and increased the flow of moist air into the
south-central United States. Another model study diagnosed positive
feedbacks between aerosol loading, soil moisture and low cloud cover that
may amplify the local response to aerosol trends
(Mickley et al., 2012). The strength of such positive
feedbacks may vary regionally, yielding different sensitivities in surface
temperature to aerosol forcing.</p>
      <p id="d1e3620">The cool period in the southeast coincided with heavy aerosol loading over
the region, and several studies have suggested that trends in aerosol
forcing may have also played a role in driving the US warming hole. For
example, Leibensperger et al. (2012a, b) found that the regional
radiative forcing from anthropogenic aerosols led to a strong regional
climate response, cooling the central and eastern US by 0.5–1.0<inline-formula><mml:math id="M215" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>
from 1970 to 1990 (Fig. 3), with the strongest effects on maximum daytime
temperatures in summer and autumn. In that study, the spatial mismatch
between maximum aerosol loading and maximum cooling could be partly
explained by aerosol outflow cooling the North Atlantic, which strengthened
the Bermuda High and increased the flow of moist air into the south-central
United States. Another model study diagnosed positive feedbacks between
aerosol loading, soil moisture and low cloud cover that may amplify the
local response to aerosol trends in the eastern US, including the
southeast (Mickley et al., 2012). The strength of such
positive feedbacks may vary regionally, yielding different sensitivities in
surface temperature to aerosol forcing.  More recent modeling studies,
however, have generated conflicting results regarding the role of aerosols
in driving the warming hole. For example, the model study of
Mascioli et al. (2016) reported little sensitivity in southeast
surface temperatures to external forcings such as anthropogenic aerosols or
even greenhouse gases. In contrast, Banerjee et al. (2017)
found that as much of 50 % of the observed 1950–1975 summertime cooling
trend in the southeast could be explained by increasing aerosols. Examining
multi-model output, Mascioli et al. (2017) concluded that aerosols
accounted for just 17 % of this cooling trend in summer. These contrasting
model results point to the challenges in modeling climate feedbacks, such as
those involving cloud cover or soil moisture.</p>
      <p id="d1e3632">These early model studies have been accompanied by more observationally
based efforts to link trends in surface temperature to aerosol loading. A
key first step is to determine whether changes in surface solar radiation
are related to changes in aerosol loading. Measurements from the Surface
Radiation network (SURFRAD) reveal increases of <inline-formula><mml:math id="M216" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula>0.4 Wm<inline-formula><mml:math id="M217" 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> a<inline-formula><mml:math id="M218" 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
total surface solar radiation across the east during 1995–2010
(Gan et al., 2014). An attempt to reproduce the
trend in total surface radiation with a regional chemistry–climate model
found a reasonable match with observations over the east when
aerosol–radiation interactions were included (Xing
et al., 2015a). Most of the observed increase in surface solar radiation,
however, appears due to increasing diffuse radiation, at odds with the
decline in AOD, which should instead increase direct radiation (Gan et
al., 2015, 2014). Using satellite data and assimilated
meteorology, Yu et al. (2014) showed that trends in spatially
averaged AOD and cloud optical depth declined over the 2000–2011 time period
over the eastern US, while daily maximum temperatures and shortwave cloud
forcing increased. These opposing trends suggest that aerosol–cloud
interactions may have influenced the observed <inline-formula><mml:math id="M219" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 1<inline-formula><mml:math id="M220" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> warming trend
in the southeast over this 10-year time
period, with the decline in anthropogenic aerosols driving a decrease in
cloud cover and a rise in surface temperatures. Yu et al. (2014)
confirmed this hypothesis using a chemistry–climate model. In contrast, the
observational study of Tosca et al. (2017), which also relied on
satellite AOD, pointed to aerosol–radiation interactions as the driver of
surface temperature trends in the southeast. Analysis of ground-based
observations in Mississippi, however, found little covariability between AOD
and clear-sky solar radiation at the surface, casting doubt on the
importance of aerosol–radiation interactions in driving the observed cooling
in this region (Cusworth et al., 2017).</p>
      <p id="d1e3682">Continued improvements of PM<inline-formula><mml:math id="M221" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> air quality in the southeast may
further influence regional climate. Y. Lee et al. (2016)
projected a warming of about <inline-formula><mml:math id="M222" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula>0.5 Wm<inline-formula><mml:math id="M223" 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> over the eastern US,
including the southeast, over the 2000–2030 timeframe due to anticipated
improvements in air quality and the associated reduction in AOD.
Xing et al. (2015b) have pointed out that an
overlooked beneficial effect of aerosol reduction is increased ventilation
of surface air, a positive feedback that leads to further decline in surface
PM<inline-formula><mml:math id="M224" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> concentrations. The feedback arises from changes in the
temperature profile, with warmer temperatures at the surface and cooler
temperatures aloft, which together enhance atmospheric instability and
ventilation as aerosol-induced cooling is reduced. The feedback may lead to
unexpected health benefits of clearing PM<inline-formula><mml:math id="M225" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> pollution
(Xing et al., 2016).</p>
</sec>
<sec id="Ch1.S5.SS2.SSS3">
  <title>Influence of meteorology on surface air quality in the southeast</title>
      <p id="d1e3737">Pollution episodes in the southeastern United States are correlated with
high temperatures, low wind speeds, clear skies and stagnant weather
(Camalier et al., 2007; Jacob and Winner, 2009). The spatial extent of
the Bermuda High also plays a role in modulating air quality in the
southeast (Zhu and Liang, 2013).</p>
      <p id="d1e3740">Fu et al. (2015) used models and observations to examine the
sensitivity of August surface ozone in the southeast to temperature
variability during 1988–2011. This study finds that warmer temperatures
enhance ozone by increasing biogenic emissions and accelerating
photochemical reaction rates. However, variability in ozone advection into
the region may also explain much of the variability of surface ozone, with
possibly increased advection occurring during the positive phase of the
Atlantic Multidecadal Oscillation. Applying empirical orthogonal
functions (EOF) analysis to observed ozone, Shen et al. (2015) determined that the sensitivity of surface ozone in the southeast
can be quantified by the behavior of the west edge of the Bermuda High.
Specifically, for those summers when the average position of the west edge
is located west of <inline-formula><mml:math id="M226" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 85.4<inline-formula><mml:math id="M227" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W, a westward shift in the
Bermuda High west edge increases ozone in the southeast by 1 ppbv deg<inline-formula><mml:math id="M228" 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 longitude. For all summers, a northward shift in the Bermuda High west
edge increases ozone over the entire eastern United States by 1–2 ppbv deg<inline-formula><mml:math id="M229" 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 latitude.</p>
      <p id="d1e3783">The influence of meteorology on PM<inline-formula><mml:math id="M230" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> in the southeast is not well
quantified. Tai et al. (2010) found that observed
sulfate and OC concentrations increase with increasing temperature across
the region due to faster oxidation rates and the association of warm
temperatures with stagnation and biogenic and fire emissions. Nitrate
PM<inline-formula><mml:math id="M231" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula>, however, becomes more volatile at higher temperatures and
decreases with temperature. Using local meteorology, however,
Tai et al. (2010) could explain only about 20–30 %
of PM<inline-formula><mml:math id="M232" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> daily variability in the southeast. Both Thishan
Dharshana et al. (2010) and Tai et al. (2012b) diagnosed a relatively weak effect of synoptic-scale weather systems
on PM<inline-formula><mml:math id="M233" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> air quality in the southeast, especially in the deep south.
Shen et al. (2017), however, extended the statistical
studies of Tai et al. (2012a, b) by taking into account not just the local
influences of meteorology on PM<inline-formula><mml:math id="M234" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> air quality but also the
relationships between local PM<inline-formula><mml:math id="M235" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> and meteorological variables in the
surrounding region. These authors developed a statistical model that
explains 30–50 % of PM<inline-formula><mml:math id="M236" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> monthly variability in the southeast.
Shen et al. (2017) further reported that many
atmospheric chemistry models may underestimate or even fail to capture the
strongly positive sensitivity of monthly mean PM<inline-formula><mml:math id="M237" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> to surface
temperature in the eastern United States, including the southeast, in
summer.  In GEOS-Chem, this underestimate can be traced to the overly strong
tendency of modeled low cloud cover to decrease as temperatures rise
(Shen et al., 2017).</p>
</sec>
<sec id="Ch1.S5.SS2.SSS4">
  <title>Effects of future climate change on southeast air quality</title>
      <p id="d1e3866">Emissions of US pollution precursors are expected to decline in coming
decades (Lamarque et al., 2013; Fiore et al., 2015), which may offset any
potential climate penalty. Background ozone, however, may increase due to
increasing methane (West et al., 2012). A major challenge in
quantifying the future trends in surface air quality is our lack of
knowledge in temperature-dependent isoprene emissions and photochemistry
(Achakulwisut et al., 2015).</p>
      <p id="d1e3869">Using a regional chemistry–climate model,
Gonzalez-Abraham et al. (2015) found that
daily maximum 8 h average (MDA8) ozone concentrations in the southeast would
likely increase by 3–6 ppbv by the 2050s due solely to climate change and
land use change. Changes in anthropogenic emissions of ozone precursors such
as methane could further enhance MDA8 ozone in the southeast by 1–2 ppbv.
Rieder et al. (2015), however, determined that large areas of the
southeast would experience little change in surface ozone by the 2050s, but
that study neglected the influence of warming temperatures on biogenic
emissions. Shen et al. (2016) developed a statistical model
using extreme value theory to estimate the 2000–2050 changes in ozone
episodes across the United States. Assuming constant anthropogenic emissions
at the present level, they found an average annual increase in ozone
episodes of 2.3 days (&gt; 75 ppbv) across the United States by the
2050s, but relatively little change in the southeast. In fact, a key result
of this work is the relative insensitivity of ozone episodes to temperature
in the southeast. However, Zhang and Wang (2016) have suggested that
warmer and drier conditions in the southeast future atmosphere could extend
the ozone season, leading to ozone episodes in October.</p>
      <p id="d1e3872">Model studies differ on the effects of future climate change on PM<inline-formula><mml:math id="M238" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula>
in the southeast. Tai et al. (2012a, b)  analyzed trends in
meteorological modes from an ensemble of climate models and found only
modest changes in annual mean PM<inline-formula><mml:math id="M239" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> (<inline-formula><mml:math id="M240" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula>0.4 <inline-formula><mml:math id="M241" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<inline-formula><mml:math id="M242" display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> by the
2050s in the southeast, relative to the present-day. Using a single
chemistry–climate model, Day and Pandis (2015) calculated
significant increases of <inline-formula><mml:math id="M243" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 3.6 <inline-formula><mml:math id="M244" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<inline-formula><mml:math id="M245" 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> in July mean
PM<inline-formula><mml:math id="M246" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> along the Gulf coast by the 2050s and attributed these increases
to a combination of decreased rain-out, reduced ventilation and increased
biogenic emissions. Building on the statistical model of Tai et al. (2012a,b), Shen et al. (2017) found that PM<inline-formula><mml:math id="M247" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula>
concentrations in the southeast could increase by 0.5–1.0 <inline-formula><mml:math id="M248" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<inline-formula><mml:math id="M249" 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>
by 2050 on an annual basis and as much as 2.0–3.0 <inline-formula><mml:math id="M250" display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<inline-formula><mml:math id="M251" 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> in
summer, assuming anthropogenic emissions remained at present-day levels.
These authors found that the driver for these increases was rising surface
temperature, which influences both biogenic emissions and the rate of
sulfate production.</p>
</sec>
</sec>
<sec id="Ch1.S5.SS3">
  <title>Open questions</title>
      <p id="d1e4013">Unresolved issues in chemistry–climate interactions in the southeast include
the following:
<list list-type="order"><list-item>
      <p id="d1e4018">What is the impact of aerosols on the regional climate of the southeast? What
role do feedbacks play, including feedbacks involving cloud cover, soil
moisture and boundary layer height? Did land use changes play a role in the
southeast warming hole? How will changing aerosol composition affect
regional climate? Can we reconcile observed trends in insolation and
aerosols? Can we use observed weekly cycles in temperature or precipitation
to probe possible aerosol effects on regional climate (Forster and
Solomon, 2003; Bell et al., 2008; Bäumer et al., 2008; Daniel et al.,
2012)?</p></list-item><list-item>
      <p id="d1e4022">What caused the US warming hole? Is the observed cooling over the
southeast partly due to natural variability of North Atlantic SSTs? Do
aerosol changes induce changes in the North Atlantic SSTs that feed back on the
southeastern US? Has the warming hole ended and made the central and
southeastern United States more vulnerable to high temperatures and drought?</p></list-item><list-item>
      <p id="d1e4026">What limits model skill in simulating the variability of surface
pollution in the southeast? Can we capture the observed effects of the
Bermuda High or the AMO on surface air quality?</p></list-item><list-item>
      <p id="d1e4030">How will air quality in the southeast change in the future? Do current
model weaknesses in simulating present-day ozone and PM<inline-formula><mml:math id="M252" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2.5</mml:mn></mml:msub></mml:math></inline-formula> daily or
seasonal variability limit our confidence in future projections?</p></list-item></list></p>
</sec>
<sec id="Ch1.S5.SS4">
  <title>Model recommendations</title>
      <p id="d1e4048">We recommend the following approaches for studies involving
chemistry–climate interactions in the southeastern US.
<list list-type="order"><list-item>
      <p id="d1e4053">Take advantage of findings from the 2013 measurement campaigns.</p>
      <p id="d1e4056">For aerosol, such findings include information on composition,
hygroscopicity, lifetime, aerosol–cloud interactions, optical properties
and the mechanism of SOA formation. Modelers should also take advantage of
new information on isoprene emission flux and oxidation mechanisms.</p></list-item><list-item>
      <p id="d1e4060">Link 2013 results with findings from previous measurement campaigns and
with long-term in situ and satellite data.</p></list-item><list-item>
      <p id="d1e4064">Work to apply best practices, including standard statistical tests, to
chemistry–climate studies.</p>
      <p id="d1e4067">Modelers need to consider the statistical significance of observed trends
and perform ensemble simulations for robust statistics. The auto-correlation
of the variables under investigation should be examined. Comparison of
observed trends with samples of internal climate variability from model
control runs, as in (Knutson et al., 2013), may be a useful
approach, and modelers should acknowledge that observations may represent an
outlier of unforced variability.</p></list-item><list-item>
      <p id="d1e4071">Benchmark chemistry–climate models in a way that is useful for
chemistry–climate studies.</p>
      <p id="d1e4074">For the southeast, modelers should consider testing the following model
properties:
<list list-type="custom"><list-item><label>i</label>
      <p id="d1e4079">Sensitivity of surface air quality to synoptic weather systems,
including the westward extent of the Bermuda High and cold front frequency.</p></list-item><list-item><label>ii.</label>
      <p id="d1e4083">Sensitivity of surface air quality to local meteorological variables and
isoprene emissions on a range of temporal scales.</p></list-item><list-item><label>iii.</label>
      <p id="d1e4087">Sensitivity of soil moisture and cloud cover to changing meteorology and
the consequences for regional climate and air quality.</p></list-item></list></p></list-item></list></p>
</sec>
</sec>
<sec id="Ch1.S6" sec-type="conclusions">
  <title>Summary</title>
      <p id="d1e4097">The primary purpose of this work is to improve model representation of
fundamental processes over the southeastern US. We summarize the modeling
recommendations as follows.</p>
      <p id="d1e4100"><italic>Gas-phase chemistry.</italic> (1) Up-to-date “standard” chemical mechanisms
represent OH chemistry well over the observed range of NO<inline-formula><mml:math id="M253" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
concentrations. Detailed mechanisms based on recent laboratory chamber
studies (mostly at Caltech) and theoretical studies (Leuven) for isoprene
chemistry result in predicted OH that is in reasonable agreement with
observations. Condensed mechanisms that approximate these details are
expected to do the same. (2) Given the large emissions and high chemical
reactivity of isoprene, its chemistry should be treated fairly explicitly,
including more detail than for most other hydrocarbons. (3) NO<inline-formula><mml:math id="M254" display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>
chemistry contributes significantly to both VOC oxidation and aerosol
production. (4) The regions of peak NO<inline-formula><mml:math id="M255" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and BVOC emissions are not
collocated. As a result, the model resolution can impact the predictions.</p>
      <p id="d1e4132"><italic>Organic aerosol.</italic> (1) There is high confidence that a pathway of SOA formation
from isoprene epoxydiol (IEPOX) should be included in models. However, since
many of the parameters needed to predict IEPOX-SOA are uncertain, further
mechanistic studies are needed to address these uncertainties. (2) There is
high confidence that models should include SOA formation from nitrate
radical oxidation of monoterpenes (with or without explicit nitrate
functionality). Sesquiterpenes and isoprene may also contribute SOA through
nitrate radical oxidation, but the contribution is expected to be smaller.
(3) More field measurements and laboratory studies, especially of the yield
from isoprene oxidation and the aerosol uptake coefficient, are required to
constrain the importance of glyoxal SOA. (4) There is high confidence that
models should include SOA from urban emissions with a parameterization that
results in realistic concentrations.</p>
      <p id="d1e4137"><italic>Natural and anthropogenic emissions.</italic> (1) Biogenic emissions from BEIS are
generally lower, and those from MEGAN generally higher, than from
measurements for all campaigns. (2) Observations confirm a rapid decrease in
ozone precursor emissions over past few decades. Thus, use of the correct
scaling of anthropogenic emissions for a particular year is important for
accurate simulations. (3) National Emissions Inventory 2011 likely
overestimates NO<inline-formula><mml:math id="M256" display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions in the study area from mobile sources that
use fuel-based estimates.</p>
      <p id="d1e4152"><italic>Climate and chemistry interactions.</italic> (1) Annual mean temperatures during the
1930–1990 timeframe decreased by <inline-formula><mml:math id="M257" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 1 <inline-formula><mml:math id="M258" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C over the
central and southeastern United States. Several studies have argued that
patterns of sea surface temperatures in the North Atlantic may have caused
this large-scale cooling. Trends in aerosol forcing may have also played a
role. (2) Pollution episodes in the southeastern United States are
correlated with high temperatures, low wind speeds, clear skies and
stagnant weather. Surface air quality over the southeastern US may be to some
extent modulated by large-scale circulations, such the Bermuda High or
Atlantic Multidecadal Oscillation.</p>
</sec>

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

      <p id="d1e4177">No data sets were used in this article.</p>
  </notes><?xmltex \hack{\clearpage}?><app-group>

<app id="App1.Ch1.S1">
  <title>Glossary of acronyms</title>
      <p id="d1e4189"><table-wrap id="Taba" position="anchor"><oasis:table><oasis:tgroup cols="2">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">AIOMFAC:</oasis:entry>  
         <oasis:entry colname="col2">Aerosol Inorganic–Organic Mixtures Functional groups Activity Coefficients model</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">AM3:</oasis:entry>  
         <oasis:entry colname="col2">the atmospheric component of the GFDL coupled climate model CM3</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">AMS:</oasis:entry>  
         <oasis:entry colname="col2">aerosol mass spectrometer</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">AMO:</oasis:entry>  
         <oasis:entry colname="col2">Atlantic Multidecadal Oscillation</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">AOD:</oasis:entry>  
         <oasis:entry colname="col2">aerosol optical depth</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BBOA:</oasis:entry>  
         <oasis:entry colname="col2">biomass burning OA</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BEIS:</oasis:entry>  
         <oasis:entry colname="col2">Biogenic Emission Inventory System</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BVOCs:</oasis:entry>  
         <oasis:entry colname="col2">biogenic volatile organic compounds</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">CAMx:</oasis:entry>  
         <oasis:entry colname="col2">Comprehensive Air Quality Model with Extensions</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">CMAQ:</oasis:entry>  
         <oasis:entry colname="col2">Community Multiscale Air Quality Model</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">EF:</oasis:entry>  
         <oasis:entry colname="col2">emission factor</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">F0AM:</oasis:entry>  
         <oasis:entry colname="col2">Framework for 0-D Atmospheric Modeling</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GFDL:</oasis:entry>  
         <oasis:entry colname="col2">Geophysical Fluid Dynamics Laboratory</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">HOA:</oasis:entry>  
         <oasis:entry colname="col2">hydrocarbon-like OA</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">IEPOX:</oasis:entry>  
         <oasis:entry colname="col2">isoprene epoxydiol</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">IMPROVE:</oasis:entry>  
         <oasis:entry colname="col2">Interagency Monitoring of Protected Visual Environments visibility monitoring network</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">LAI:</oasis:entry>  
         <oasis:entry colname="col2">leaf area index</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">LES:</oasis:entry>  
         <oasis:entry colname="col2">Large-eddy simulation</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">LO-OOA:</oasis:entry>  
         <oasis:entry colname="col2">less-oxidized oxygenated OA</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">MACR:</oasis:entry>  
         <oasis:entry colname="col2">methacrolein</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">MARGA:</oasis:entry>  
         <oasis:entry colname="col2">Monitor for Aerosols and Gases in Air</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">MEGAN:</oasis:entry>  
         <oasis:entry colname="col2">Model of Emissions of Gases and Aerosols from Nature</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">MO-OOA:</oasis:entry>  
         <oasis:entry colname="col2">more-oxidized oxygenated OA</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">MVK:</oasis:entry>  
         <oasis:entry colname="col2">methyl vinyl ketone</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">MXLCH:</oasis:entry>  
         <oasis:entry colname="col2">mixed-layer chemistry model</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">NEI:</oasis:entry>  
         <oasis:entry colname="col2">National Emissions Inventory</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">NOAA:</oasis:entry>  
         <oasis:entry colname="col2">National Oceanic and Atmospheric Administration</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">NOMADSS:</oasis:entry>  
         <oasis:entry colname="col2">Nitrogen, Oxidants, Mercury and Aerosol Distributions, Sources and Sinks aircraft campaign,</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">which took place during June–July 2013 with the NSF/NCAR C-130 aircraft</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">OA:</oasis:entry>  
         <oasis:entry colname="col2">organic aerosol</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">OC:</oasis:entry>  
         <oasis:entry colname="col2">organic carbon</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">OM:</oasis:entry>  
         <oasis:entry colname="col2">organic matter</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">PAN:</oasis:entry>  
         <oasis:entry colname="col2">peroxyacetyl nitrate</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">PMF:</oasis:entry>  
         <oasis:entry colname="col2">positive matrix factorization</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">POA:</oasis:entry>  
         <oasis:entry colname="col2">primary organic aerosol</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">SAS:</oasis:entry>  
         <oasis:entry colname="col2">Southeast Atmosphere Studies</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">SEAC4RS:</oasis:entry>  
         <oasis:entry colname="col2">Studies of Emissions, Atmospheric Composition, Clouds and Climate Coupling by</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Regional Surveys aircraft campaign, which took place during August–September 2013</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">with NASA DC-8 and ER-2 aircraft</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">SEARCH:</oasis:entry>  
         <oasis:entry colname="col2">Southeastern Aerosol Research and Characterization Network</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">SENEX:</oasis:entry>  
         <oasis:entry colname="col2">Southeast Nexus of air quality and climate campaign</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">S <inline-formula><mml:math id="M259" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> IVOCs:</oasis:entry>  
         <oasis:entry colname="col2">semivolatile <inline-formula><mml:math id="M260" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> intermediate volatility organic compounds</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">SOA:</oasis:entry>  
         <oasis:entry colname="col2">secondary organic aerosols</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">SOAS:</oasis:entry>  
         <oasis:entry colname="col2">the Southern Oxidant and Aerosol Study ground-based campaign, which took place during</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">June–July 2013 near Brent, Alabama</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">SURFRAD:</oasis:entry>  
         <oasis:entry colname="col2">Surface Radiation Budget Network</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">VBS:</oasis:entry>  
         <oasis:entry colname="col2">volatility basis set</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">WRF-Chem:</oasis:entry>  
         <oasis:entry colname="col2">Weather Research and Forecasting with Chemistry model</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap></p><?xmltex \hack{\clearpage}?>
</app>
  </app-group><notes notes-type="competinginterests">

      <p id="d1e4657">The authors declare that they have no conflict of interest.</p>
  </notes><notes notes-type="disclaimer">

      <p id="d1e4663">Although this document has been reviewed by the US EPA and
approved for publication, it does not necessarily reflect the US EPA's
policies or views.</p>
  </notes><ack><title>Acknowledgements</title><p id="d1e4669">This work is based on a workshop held in GFDL in 2015, funded by the National
Science Foundation Atmospheric Chemistry Program (AGS-1505306). Jose L. Jimenez was supported by EPA STAR 83587701-0 and NASA NNX15AT96G. We
acknowledge Haofei Yu (University of Central Florida), Vaishali Naik (NOAA
GFDL), Tom Knutson (NOAA GFDL), John Crounse (Caltech), Paul Wennberg
(Caltech), Daniel Jacob (Harvard), Jen Kaiser (Harvard), Luke Valin (EPA),
Petros Vasilakos (Georgia Tech), Arlene Fiore (Columbia), Nora Mascioli
(Columbia), Yiqi Zheng (Yale), Tzung-May Fu (PKU),
Michael Trainer (NOAA ESRL), Siwan Kim (NOAA ESRL), Ravan Ahmadov (NOAA
ESRL), Nick Wagner (NOAA ESRL) and Eladio Knipping (EPRI) for their
contributions. We also acknowledge travel supports from US Environmental
Protection Agency (EPA) NOAA Climate Program Office and the Cooperative
Institute for Climate Science (CICS) at Princeton University. In particular,
we would like to thank the Princeton and GFDL staff for support on logistics. We
would also like to thank Ann Marie Carlton's group (Thien Khoi Nguyen,
Caroline Farkas, Neha Sareen) and Luke Valin for additional support on
meeting logistics.
<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?>
Edited by:  Yugo Kanaya<?xmltex \hack{\newline}?>
Reviewed by: three anonymous referees</p></ack><ref-list>
    <title>References</title>

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    <!--<article-title-html>Southeast Atmosphere Studies: learning from model-observation syntheses</article-title-html>
<abstract-html><p class="p">Concentrations of atmospheric trace species in the United States have changed
dramatically over the past several decades in response to pollution control
strategies, shifts in domestic energy policy and economics, and economic
development (and resulting emission changes) elsewhere in the world. Reliable
projections of the future atmosphere require models to not only accurately
describe current atmospheric concentrations, but to do so by representing
chemical, physical and biological processes with conceptual and quantitative
fidelity. Only through incorporation of the processes controlling emissions
and chemical mechanisms that represent the key transformations among reactive
molecules can models reliably project the impacts of future policy, energy
and climate scenarios. Efforts to properly identify and implement the
fundamental and controlling mechanisms in atmospheric models benefit from
intensive observation periods,
during which collocated measurements of
diverse, speciated chemicals in both the gas and condensed phases are
obtained. The Southeast Atmosphere Studies (SAS, including SENEX, SOAS,
NOMADSS and SEAC4RS) conducted during the summer of 2013 provided an
unprecedented opportunity for the atmospheric modeling community to come
together to evaluate, diagnose and improve the representation of fundamental
climate and air quality processes in models of varying temporal and spatial
scales.</p><p class="p">This paper is aimed at discussing progress in evaluating, diagnosing and
improving air quality and climate modeling using comparisons to SAS
observations as a guide to thinking about improvements to mechanisms and
parameterizations in models. The effort focused primarily on model
representation of fundamental atmospheric processes that are essential to
the formation of ozone, secondary organic aerosol (SOA) and other trace
species in the troposphere, with the ultimate goal of understanding the
radiative impacts of these species in the southeast and elsewhere. Here we
address questions surrounding four key themes: gas-phase chemistry, aerosol
chemistry, regional climate and chemistry interactions, and natural and
anthropogenic emissions. We expect this review to serve as a guidance for
future modeling efforts.</p></abstract-html>
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