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<article xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:oasis="http://docs.oasis-open.org/ns/oasis-exchange/table" dtd-version="3.0"><?xmltex \makeatother\@nolinetrue\makeatletter?>
  <front>
    <journal-meta>
<journal-id journal-id-type="publisher">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-16-2381-2016</article-id><title-group><article-title>Improved simulation of tropospheric ozone by a global-multi-regional two-way
coupling model system</article-title>
      </title-group><?xmltex \runningtitle{Two-way coupled simulation of tropospheric ozone}?><?xmltex \runningauthor{Y.-Y.~Yan et al.}?>
      <contrib-group>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Yan</surname><given-names>Yingying</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-6251-0899</ext-link></contrib>
        <contrib contrib-type="author" corresp="yes" rid="aff1">
          <name><surname>Lin</surname><given-names>Jintai</given-names></name>
          <email>linjt@pku.edu.cn</email>
        <ext-link>https://orcid.org/0000-0002-2362-2940</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Chen</surname><given-names>Jinxuan</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2">
          <name><surname>Hu</surname><given-names>Lu</given-names></name>
          
        </contrib>
        <aff id="aff1"><label>1</label><institution>Laboratory for Climate and Ocean-Atmosphere Studies, Department of Atmospheric and<?xmltex \hack{\newline}?> Oceanic Sciences, School of Physics, Peking University, Beijing 100871, China</institution>
        </aff>
        <aff id="aff2"><label>2</label><institution>School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138, USA</institution>
        </aff>
      </contrib-group>
      <author-notes><corresp id="corr1">Jintai Lin (linjt@pku.edu.cn)</corresp></author-notes><pub-date><day>29</day><month>February</month><year>2016</year></pub-date>
      
      <volume>16</volume>
      <issue>4</issue>
      <fpage>2381</fpage><lpage>2400</lpage>
      <history>
        <date date-type="received"><day>13</day><month>August</month><year>2015</year></date>
           <date date-type="rev-request"><day>23</day><month>September</month><year>2015</year></date>
           <date date-type="rev-recd"><day>13</day><month>January</month><year>2016</year></date>
           <date date-type="accepted"><day>11</day><month>February</month><year>2016</year></date>
      </history>
      <permissions>
<license license-type="open-access">
<license-p>This work is licensed under a Creative Commons Attribution 3.0 Unported License. To view a copy of this license, visit <ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by/3.0/">http://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>Small-scale nonlinear chemical and physical processes over pollution source
regions affect the tropospheric ozone (O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>), but these processes are not
captured by current global chemical transport models (CTMs) and
chemistry–climate models that are limited by coarse horizontal resolutions
(100–500 km, typically 200 km). These models tend to contain large (and
mostly positive) tropospheric O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> biases in the Northern Hemisphere.
Here we use the recently built two-way coupling system of the GEOS-Chem CTM to
simulate the regional and global tropospheric O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> in 2009. The system
couples the global model (at 2.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 2<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat.) and its three nested models (at 0.667<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat.) covering Asia, North America and Europe,
respectively. Specifically, the nested models take lateral boundary
conditions (LBCs) from the global model, better capture small-scale
processes and feed back to modify the global model simulation within the
nested domains, with a subsequent effect on their LBCs.</p>
    <p>Compared to the global model alone, the two-way coupled system better
simulates the tropospheric O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> both within and outside the nested
domains, as found by evaluation against a suite of ground (1420 sites from
the World Data Centre for Greenhouse Gases (WDCGG), the United
States National Oceanic and Atmospheric Administration (NOAA) Earth System
Research Laboratory Global Monitoring Division (GMD), the Chemical
Coordination Centre of European Monitoring and Evaluation Programme (EMEP), and the United States Environmental Protection Agency Air Quality System (AQS)), aircraft (the High-performance Instrumented Airborne
Platform for Environmental Research (HIAPER) Pole-to-Pole Observations
(HIPPO) and Measurement of Ozone and Water Vapor by Airbus In-
Service Aircraft (MOZAIC)) and satellite
measurements (two Ozone Monitoring Instrument (OMI) products). The two-way coupled simulation enhances the
correlation in day-to-day variation of afternoon mean surface O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> with
the ground measurements from 0.53 to 0.68, and it reduces the mean model
bias from 10.8 to 6.7 ppb. Regionally, the coupled system reduces the bias
by 4.6 ppb over Europe, 3.9 ppb over North America and 3.1 ppb over other
regions. The two-way coupling brings O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> vertical profiles much closer
to the HIPPO (for remote areas) and MOZAIC (for polluted regions) data,
reducing the tropospheric (0–9 km) mean bias by 3–10 ppb at most MOZAIC
sites and by 5.3 ppb for HIPPO profiles. The two-way coupled simulation also
reduces the global tropospheric column ozone by 3.0 DU (9.5 %, annual
mean), bringing them closer to the OMI data in all seasons. Additionally,
the two-way coupled simulation also reduces the global tropospheric mean
hydroxyl radical by 5 % with improved estimates of methyl chloroform and
methane lifetimes. Simulation improvements are more significant in the
Northern Hemisphere, and are mainly driven by improved representation of
spatial inhomogeneity in chemistry/emissions.</p>
    <p>Within the nested domains, the two-way coupled simulation reduces surface
ozone biases relative to typical GEOS-Chem one-way nested simulations, due
to much improved LBCs. The bias reduction is 1–7 times the bias reduction
from the global to the one-way nested simulation. Improving model
representations of small-scale processes is important for understanding the
global and regional tropospheric chemistry.</p>
  </abstract>
    </article-meta>
  </front>
<body>
      

<sec id="Ch1.S1" sec-type="intro">
  <title>Introduction</title>
      <p>Tropospheric ozone (O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>) is a critical pollutant and the primary source
of the hydroxyl radical (OH; the dominant atmospheric oxidant). Tropospheric
ozone comes from stratosphere–troposphere exchange (STE) and photochemical
production, and is destroyed by chemical loss and dry deposition to the
ground. Current global chemical transport models (CTMs) and
chemistry–climate models simulate the spatiotemporal variations of ozone and
its precursors, facilitating a global-scale source attribution analysis to
improve mitigation strategies (Lin et al., 2014; HTAP, 2010; Monks et al.,
2015). However, most global models are limited by coarse horizontal
resolutions (100–500 km, typically 200 km), and they cannot resolve the
fine-scale processes controlling the formation, transport and removal of
ozone and its precursors. Many of these models tend to overestimate the
tropospheric ozone in the Northern Hemisphere (Lin et al., 2008; Stevenson
et al., 2006; Fiore et al., 2009; Reidmiller et al., 2009; Young et al.,
2013; Parrish et al., 2014). Previous studies have suggested various sources
of model biases in emissions, chemical mechanisms, meteorological inputs
and model resolutions (Wild and Prather, 2006; Lin et al., 2008; Weaver et
al., 2009; J.-T. Lin et al., 2012; Doherty et al., 2013; Parrish et al.,
2014; Fiore et al., 2014; Fu et al., 2015; Monks et al., 2015). Lack of
capability in representing small-scale processes not resolved by the
coarse-resolution global models may be an important factor for model biases,
whereas the quantitative effect is much less clear, especially for the
global effect of processes at scales below 100 km.</p>
      <p>The coarse global models underrepresent many resolution-dependent processes.
Ozone simulations greatly depend on horizontal resolutions due to their
nonlinear dependence on concentrations of nitrogen oxides (NO<inline-formula><mml:math 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> NO <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>) and non-methane volatile organic compounds (NMVOCs) (Sillman
et al., 1990). Natural (biogenic and lightning) emissions are often
calculated online by the models driven by resolution-specific meteorological
conditions. Coarse-resolution global models cannot resolve the strong
chemical and emission contrasts between urban and surrounding areas (Wild
and Prather, 2006; Yan et al., 2014). In particular, the ozone chemistry is
mostly NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> saturated (or volatile organic compound (VOC)-limited) in the urban areas but
NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> limited in the surrounding rural regions, but the contrast is not
resolved by the global model by assuming a fully mixed grid box with no
sub-grid variability. Vertical transport is also resolution dependent and
not well resolved by global models by smoothing out the nearby upward and
downward motions. Chen et al. (2009) showed that the global GEOS-Chem (at a
<inline-formula><mml:math display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 200 km resolution) poorly represents the terrain-related
circulation around the Tibetan Plateau as the topographical feature is
smoothed out. M. Lin et al. (2012a) showed that the simulated Asian
influence to the US ozone is stronger with an increase in model resolution.</p>
      <p><?xmltex \hack{\newpage}?>Several global high-resolution simulations have been conducted in part to
enhance the representation of small-scale processes (M. Lin et al., 2012a, b;
Emmons et al., 2010). For example, M. Lin et al. (2012a) used the Geophysical Fluid Dynamics Laboratory Atmospheric Model version 3 (GFDL AM3)
model (at <inline-formula><mml:math display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 50 km resolution) to simulate the Asian pollution
influence for the US in May–June 2010; the high-resolution simulation was
performed for 6 months. Emmons et al. (2010) used the MOZART-4 simulation
(at <inline-formula><mml:math display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 70 km) to simulate Mexican air quality in March 2006. A global high-resolution simulation is often prohibitive due to much
enhanced computational and data requirements. This is particularly true for
a relatively long simulation (1 year or more) that is necessary to quantify
the effect of small-scale processes in different seasons and to allow for a
high-resolution model spin-up period. Many high-resolution regional models
have also been developed that better simulate the small-scale processes in
the targeted domains (e.g., Huang et al., 2008; Lin et al., 2010; Huang et
al., 2010). Most of these regional models take the lateral boundary
conditions (LBCs) of chemicals from a coarse-resolution global model without
affecting the global model simulation, i.e., a typical “one-way” nesting
setup. Thus, the improved representation of small-scale processes within the
regional domain does not affect the global large-scale chemical background
(simulated by the global model) that would otherwise have additional effects
on the LBCs of regional models. Our previous study on carbon monoxide (CO)
demonstrated that accounting for these feedback processes enhances the
simulated CO concentrations both within and outside the regional model
domains, with a global average enhancement of 10 % (equivalent to a 25 %
increase in global CO emissions) (Yan et al., 2014).</p>
      <p>This study aims to address how the small-scale processes over the pollution
source regions (not resolved by a typical global model at a <inline-formula><mml:math display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 200 km resolution) affect the tropospheric O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> in the global domain,
both inside and outside the source regions. For this purpose, we contrast
the global tropospheric O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> in 2009 simulated by a coarse-resolution
global GEOS-Chem model (at 2.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 2<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat.) against the simulation by a recently built GEOS-Chem-based
global-multi-regional two-way coupling system (Yan et al., 2014). The system
uses the PeKing University CouPLer (PKUCPL) to integrate the global
GEOS-Chem model (at 2.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 2<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat.)
and its three nested models (at 0.667<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat.) covering the major pollution source regions of
Asia (Chen et al., 2009), North America (Zhang et al., 2011) and Europe
(Vinken et al., 2014), respectively. See Fig. 1 for a visualized model
domain definition. In particular, the nested models provide results to
modify the global model simulation within respective nested domains, while
taking the LBCs from the global model. The
high-resolution nested models better resolve atmospheric processes at scales
smaller than 200 km over these pollution source regions, and the “two-way”
coupling allows for the improvements to have a global impact, i.e., via
feedbacks between the global and nested regional models. Note that our
nested model resolution is still relatively coarse compared to some other
regional model studies (e.g., Huang et al., 2008; Lin et al., 2009; Kuhlmann
et al., 2015; Terrenoire et al., 2015); our future studies will take
advantage of the new generation GEOS-Chem nested models at
0.3125<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.25<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat. to capture
smaller-scale processes not resolved on a 0.667<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat. grid.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F1"><caption><p>Dark green squares bounding the domains of three nested models
covering Asia (70–150<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E, 11–55<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N), North America
(140–40<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W, 10–70<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N) and Europe (30<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W–50<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E, 30–70<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E). Also shown are sites of ground-level
ozone measurements from WDCGG (black circle), GMD (red triangle), AQS (blue
triangle) and EMEP (purple diamond); airports in the MOZAIC program for the
tropospheric ozone profiles (pink square); and aircraft flight tracks in the
HIPPO campaigns (red line for HIPPO-1, and green line for HIPPO-2). The
overlaid map is the surface elevation (m) from a 2 min Gridded Global
Relief Data (ETOPO2v2) available at NGDC Marine Trackline Geophysical
database (<uri>http://www.ngdc.noaa.gov/mgg/global/etopo2.html</uri>).</p></caption>
        <?xmltex \igopts{width=241.848425pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2381/2016/acp-16-2381-2016-f01.png"/>

      </fig>

      <p>Simulations by the coupled system and the global model alone are evaluated
against a suite of ozone measurements within and outside the nested model
domains from the World Data Centre for Greenhouse Gases (WDCGG), the United
States National Oceanic and Atmospheric Administration (NOAA) Earth System
Research Laboratory Global Monitoring Division (GMD), the Chemical
Coordination Centre of European Monitoring and Evaluation Programme (EMEP),
the United States Environmental Protection Agency Air Quality System (AQS),
the airborne measurements from High-performance Instrumented Airborne
Platform for Environmental Research (HIAPER) Pole-to-Pole Observations
(HIPPO) campaigns, the Measurement of Ozone and Water Vapor by Airbus In-
Service Aircraft (MOZAIC) aircraft program and two satellite products
retrieved from the Ozone Monitoring Instrument (OMI). Surface ozone
simulations are compared between the two-way system and a traditional
one-way nesting setup. Model evaluation reveals important simulation
improvements via the two-way coupling.</p>
      <p>The rest of the paper is organized as follows. Section 2 describes the
two-way coupled model system. Section 3 presents the ground, aircraft and
OMI measurements. Section 4 compares the tropospheric budgets of ozone and
related species between the coupled system and the global CTM alone. The
section also delineates the individual effects of various chemical and
non-chemical factors affecting the simulated ozone differences. Section 5
compares the simulated tropospheric ozone with measurements, focusing on
daily, seasonal and vertical variability of ozone to demonstrate the
superiority of the coupled system over the global model alone and a
traditional one-way nesting setup. Section 6 concludes the present study.</p>
</sec>
<sec id="Ch1.S2">
  <title>Two-way coupled GEOS-Chem model system</title>
      <p>The current global-multi-regional two-way coupled model system
(<uri>http://wiki.seas.harvard.edu/geos-chem/index.php/Two-way_coupling_between_global_and_nested_GEOS-Chem_models</uri>) is
built on version 9-02 of GEOS-Chem. In this system, both the global and
three nested CTMs are driven by the GEOS-5 assimilated meteorological fields
from the National Aeronautic and Space Administration (NASA) Global Modeling
and Assimilation Office (GMAO). The GEOS-5 data on the native
0.667<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat. grid are used
directly to drive the nested models. To drive the global model, the
meteorological data are regridded to a reduced resolution at
2.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 2<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat. All models have 47
vertical layers, with about 10 layers of <inline-formula><mml:math display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 0.13 km thickness
below 850 hPa.</p>
      <p>In the coupling system, all global and nested models are run with the full
O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>–NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>–VOC–CO–HO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> gaseous chemistry (Mao et al., 2013), the Linoz
stratospheric ozone scheme (McLinden et al., 2000), and online aerosol
calculations. Based on J.-T. Lin et al. (2012), we have modified the
chemical mechanism as follows. The reaction constants for OH <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>
follow Mollner et al. (2010) for low- and high-pressure limits, i.e.,
<inline-formula><mml:math display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mn mathvariant="normal">0</mml:mn></mml:msub><mml:mo>=</mml:mo><mml:mn>1.48</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn>10</mml:mn><mml:mrow><mml:mo>-</mml:mo><mml:mn>30</mml:mn></mml:mrow></mml:msup><mml:mo>×</mml:mo><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>/</mml:mo><mml:mn>300</mml:mn><mml:msup><mml:mo>)</mml:mo><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> cm<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msup></mml:math></inline-formula> molecule<inline-formula><mml:math 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> s<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>, and
<inline-formula><mml:math display="inline"><mml:mrow><mml:msub><mml:mi>k</mml:mi><mml:mi mathvariant="normal">inf</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mn>2.58</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn>10</mml:mn><mml:mrow><mml:mo>-</mml:mo><mml:mn>11</mml:mn></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> cm<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msup></mml:math></inline-formula> molecule<inline-formula><mml:math 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> s<inline-formula><mml:math 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>. Aerosol uptake of the hydroperoxyl radical (HO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>) accounts for
its self-reaction in aqueous particles (Thornton et al., 2008). Over the
continental boundary layer, the uptake rate is fixed at 0.07 to account for
catalysis by transition metal ions (TMIs) (Thornton et al., 2008). Over
China, however, the HO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> uptake rate is assumed to be at least 0.2 to
account for the much higher fraction of TMIs in Chinese aerosols (J.-T. Lin
et al., 2012); the large uptake rate is supported by recent observations
(Taketani et al., 2012). The uptake of nitrogen pentoxide (N<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">5</mml:mn></mml:msub></mml:math></inline-formula>)
on aerosols follows the Evans and Jacob (2005) parameterization, but the uptake
rate is reduced by 10 times based on more recent estimates (Bertram et al.,
2009). Vertical mixing in the planetary boundary layer (PBL) employs a
non-local scheme (Holtslag and Boville, 1993; Lin and McElroy, 2010). Model
convection adopts the relaxed Arakawa–Schubert scheme (Rienecker et al.,
2008).</p>
      <p>We use the Linoz stratospheric ozone scheme (McLinden et al., 2000) that
produces the stratospheric ozone with reasonable stratosphere–troposphere
exchange (STE) of ozone on an annual basis (Zhang et al., 2014). A model
with a full stratospheric chemistry (e.g., M. Lin et al., 2012b; Eastham et
al., 2014) would better simulate the variability of stratospheric ozone and
its STE. This variability is particularly important for understanding the
episodic ozone events (M. Lin et al., 2012b, 2015). Nevertheless, here we
aim to evaluate the effect of small-scale processes within the troposphere
on the general annual and spatial pattern of tropospheric ozone. Thus, a
simulation with detailed stratospheric chemistry is outside the scope of this
study. Also, for the STE of ozone within the nested domains, we adjust the
nested model simulations to approximate the global model results by halving
the Linoz ozone production rate in the stratosphere, as we focus on the
processes that affect the tropospheric ozone. This adjustment does not
affect the tropospheric radiation influx, which is constrained by monthly
Total Ozone Mapping Spectrometer Solar Backscattered UltraViolet (TOMS/SBUV) ozone data (<uri>http://acdb-ext.gsfc.nasa.gov/Data_services/merged/</uri>).</p>
      <p>The two-way coupling system employs the PKUCPL coupler to integrate all
models. Yan et al. (2014) presented a detailed description and evaluation of
the coupling mechanism. Briefly, the coupler takes global model results for
all chemical concentrations to update the LBCs of nested models. The coupler
simultaneously replaces global model results in the troposphere within the
nested domains by nested model results, after a mass-conserved area-weighted
grid conversion procedure. The model information is exchanged every 3 h; a higher exchange frequency at 1 h leads to similar results. All
model simulations proceed in parallel under the two-way coupling framework.
The chemistry time step is 30 min in the global model and 20 min in the
nested models; and the transport time step is half of the chemistry time
step for all models. Chemical and transport processes are simulated in
sequence: transport <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> chemistry <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> transport, transport <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> chemistry <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> transport, etc.</p>
      <p>For our focused analysis in 2009, both the two-way coupled system and the
global model alone are run from July 2008 to December 2009, allowing
for a 6-month spin-up period in 2008. Initial conditions of chemicals are
regridded from a simulation at 5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 4<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat. conducted from 2005. All models in the two-way coupling framework
proceed in parallel with eight-core (Intel(R) Xeon(R) CPU X7550 at 2.00 GHz)
OpenMP parallelization for each model; a total of 32 cores are used for the
coupled system and eight for the global model alone. The wall-clock time of
the coupled system is slightly higher (by &lt; 2 %) than that of the
slowest model, the North American nested model, due to some overhead for
data exchange. On this relatively old and slow computer, it takes about 15 days for the coupled system to finish 1 simulation year.</p>
<sec id="Ch1.S2.SSx1" specific-use="unnumbered">
  <title>Model emissions</title>
      <p>Table 1 summarizes the prescribed anthropogenic and biomass burning
emissions. Global anthropogenic emissions are taken from the Emission
Database for Global Atmospheric Research (EDGAR) v4.2 inventory for CO and NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>. Anthropogenic emissions of NMVOCs use as default
the REanalysis of the TROpospheric chemical composition (RETRO) monthly
global inventory for 2000, as implemented by Hu et al. (2015). These global
inventories are further replaced by regional inventories over Asia, North
America and Europe. Emission data include monthly or seasonal variability.</p>

<?xmltex \floatpos{p}?><table-wrap id="Ch1.T1" specific-use="star"><caption><p>Anthropogenic and biomass burning emission inventories used by
GEOS-Chem.</p></caption><oasis:table frame="topbot"><?xmltex \begin{scaleboxenv}{.97}[.97]?><oasis:tgroup cols="6">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="justify" colwidth="36.988583pt"/>
     <oasis:colspec colnum="3" colname="col3" align="justify" colwidth="85.358268pt"/>
     <oasis:colspec colnum="4" colname="col4" align="left"/>
     <oasis:colspec colnum="5" colname="col5" align="justify" colwidth="82.512992pt"/>
     <oasis:colspec colnum="6" colname="col6" align="justify" colwidth="184.942913pt"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Region</oasis:entry>  
         <oasis:entry colname="col2">Data set</oasis:entry>  
         <oasis:entry colname="col3">Resolution<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">a</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col4">Year</oasis:entry>  
         <oasis:entry colname="col5">Species</oasis:entry>  
         <oasis:entry colname="col6">References and notes</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row rowsep="1">  
         <oasis:entry namest="col1" nameend="col6">Anthropogenic (fossil <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> biofuel) emissions </oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Global</oasis:entry>  
         <oasis:entry colname="col2">EDGAR v4.2</oasis:entry>  
         <oasis:entry colname="col3">0.1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, seasonal</oasis:entry>  
         <oasis:entry colname="col4">2008</oasis:entry>  
         <oasis:entry colname="col5">CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col6">Janssens-Maenhout et al. (2010)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Global</oasis:entry>  
         <oasis:entry colname="col2">RETRO</oasis:entry>  
         <oasis:entry colname="col3">0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, monthly</oasis:entry>  
         <oasis:entry colname="col4">2000</oasis:entry>  
         <oasis:entry colname="col5">NMVOCs<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col6"><uri>http://accent.aero.jussieu.fr/RETRO_metadata.php</uri></oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Global</oasis:entry>  
         <oasis:entry colname="col2">GEIA</oasis:entry>  
         <oasis:entry colname="col3">1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, seasonal</oasis:entry>  
         <oasis:entry colname="col4">1990</oasis:entry>  
         <oasis:entry colname="col5">NH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col6">Bouwman et al. (1997)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Global</oasis:entry>  
         <oasis:entry colname="col2">T. Bond</oasis:entry>  
         <oasis:entry colname="col3">1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, monthly</oasis:entry>  
         <oasis:entry colname="col4">2000</oasis:entry>  
         <oasis:entry colname="col5">BC, OC</oasis:entry>  
         <oasis:entry colname="col6">Bond et al. (2007)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Global</oasis:entry>  
         <oasis:entry colname="col2">AEIC (aircraft)</oasis:entry>  
         <oasis:entry colname="col3">1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, annual</oasis:entry>  
         <oasis:entry colname="col4">2005</oasis:entry>  
         <oasis:entry colname="col5">CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, NMVOCs<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula>, <?xmltex \hack{\hfill\break}?>SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, BC, OC</oasis:entry>  
         <oasis:entry colname="col6">Simone et al. (2013)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Asia</oasis:entry>  
         <oasis:entry colname="col2">INTEX-B</oasis:entry>  
         <oasis:entry colname="col3">0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, monthly</oasis:entry>  
         <oasis:entry colname="col4">2006</oasis:entry>  
         <oasis:entry colname="col5">CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, NMVOCs<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula>, <?xmltex \hack{\hfill\break}?>SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, BC, OC</oasis:entry>  
         <oasis:entry colname="col6">Zhang et al. (2009)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Asia</oasis:entry>  
         <oasis:entry colname="col2">D. Streets</oasis:entry>  
         <oasis:entry colname="col3">1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, monthly</oasis:entry>  
         <oasis:entry colname="col4">2000</oasis:entry>  
         <oasis:entry colname="col5">NH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col6">Streets et al. (2003)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">China</oasis:entry>  
         <oasis:entry colname="col2">MEIC</oasis:entry>  
         <oasis:entry colname="col3">0.25<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.25<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, monthly</oasis:entry>  
         <oasis:entry colname="col4">2008<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">c</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col5">CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, NMVOCs<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula>, <?xmltex \hack{\hfill\break}?>NH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>, SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col6">Lin et al. (2015), Huang et al. (2012); <?xmltex \hack{\hfill\break}?> <uri>http://www.meicmodel.org/</uri></oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">US</oasis:entry>  
         <oasis:entry colname="col2">NEI05</oasis:entry>  
         <oasis:entry colname="col3">4 km <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 4 km, monthly <?xmltex \hack{\hfill\break}?>and weekend/weekday</oasis:entry>  
         <oasis:entry colname="col4">2005<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">c</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col5">CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, NMVOCs, <?xmltex \hack{\hfill\break}?>NH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>, SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col6"><uri>ftp://aftp.fsl.noaa.gov/divisions/taq/emissions_data_2005</uri></oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Canada</oasis:entry>  
         <oasis:entry colname="col2">CAC</oasis:entry>  
         <oasis:entry colname="col3">1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, annual</oasis:entry>  
         <oasis:entry colname="col4">2005<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">c</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col5">CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, NH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>, SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col6"><uri>http://www.ec.gc.ca/pdb/cac/cac_home_e.cfm</uri></oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Mexico</oasis:entry>  
         <oasis:entry colname="col2">BRAVO</oasis:entry>  
         <oasis:entry colname="col3">1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, annual</oasis:entry>  
         <oasis:entry colname="col4">1999</oasis:entry>  
         <oasis:entry colname="col5">CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col6">Kuhns et al. (2003)</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Europe</oasis:entry>  
         <oasis:entry colname="col2">EMEP</oasis:entry>  
         <oasis:entry colname="col3">0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, monthly</oasis:entry>  
         <oasis:entry colname="col4">2005</oasis:entry>  
         <oasis:entry colname="col5">CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, NMVOCs<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula>, <?xmltex \hack{\hfill\break}?>NH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>, SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col6">Auvray and Bey (2005)</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry namest="col1" nameend="col6">Biomass burning emissions </oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Global</oasis:entry>  
         <oasis:entry colname="col2">GFED3</oasis:entry>  
         <oasis:entry colname="col3">0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, monthly</oasis:entry>  
         <oasis:entry colname="col4">2009</oasis:entry>  
         <oasis:entry colname="col5">CO, NMVOCs, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, <?xmltex \hack{\hfill\break}?>NH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>, SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, BC, OC</oasis:entry>  
         <oasis:entry colname="col6">van der Werf et al. (2010)</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup><?xmltex \end{scaleboxenv}?></oasis:table><?xmltex \begin{scaleboxenv}{.97}[.97]?><table-wrap-foot><p><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">a</mml:mi></mml:msup></mml:math></inline-formula> Before re-gridded to model horizontal resolutions. For more
information, see <uri>http://wiki.seas.harvard.edu/geos-chem/index.php/Anthropogenic_emissions</uri>.<?xmltex \hack{\\}?><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula> RETRO includes PRPE, C<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>H<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">8</mml:mn></mml:msub></mml:math></inline-formula>, ALK<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, ALD<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>,
CH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O and MEK; in the CTM, MEK emissions are further allocated to MEK
(25 %) and ACET (75 %). AEIC, INTEX-B and MEIC include PRPE,
C<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>H<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msub></mml:math></inline-formula>, C<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>H<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">8</mml:mn></mml:msub></mml:math></inline-formula>, ALK<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, ALD<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, MEK and
ACET. NEI05 includes PRPE, C<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>H<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">8</mml:mn></mml:msub></mml:math></inline-formula>, ALK<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, MEK and
ACET. EMEP includes PRPE, ALK<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, ALD<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> and MEK. Emissions of
C<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>H<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msub></mml:math></inline-formula> outside Asia are from Xiao et al. (2008).<?xmltex \hack{\\}?><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">c</mml:mi></mml:msup></mml:math></inline-formula> Over China, emissions of NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> are further scaled to 2009
based on the tropospheric NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> columns from OMI measurements (Lin, et
al., 2015). Over the US and Canada, emissions of CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>
are scaled to 2009
(<uri>http://wiki.seas.harvard.edu/geos-chem/index.php/Scale_factors_for_anthropogenic_emissions</uri>).</p></table-wrap-foot><?xmltex \end{scaleboxenv}?></table-wrap>

<?xmltex \floatpos{p}?><table-wrap id="Ch1.T2" specific-use="star"><caption><p>Global emissions of CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and NMVOCs in GEOS-Chem for 2009.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry namest="col1" nameend="col2">Total emissions<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">a</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">Global model</oasis:entry>  
         <oasis:entry colname="col4">Two-way model</oasis:entry>  
         <oasis:entry colname="col5">Percentage difference</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry namest="col1" nameend="col2">CO emissions (Tg) </oasis:entry>  
         <oasis:entry colname="col3">869.9</oasis:entry>  
         <oasis:entry colname="col4">877.8</oasis:entry>  
         <oasis:entry colname="col5">0.9 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Fossil <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> biofuel</oasis:entry>  
         <oasis:entry colname="col3">500.5</oasis:entry>  
         <oasis:entry colname="col4">504.3</oasis:entry>  
         <oasis:entry colname="col5">0.8 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Biomass burning</oasis:entry>  
         <oasis:entry colname="col3">327.6</oasis:entry>  
         <oasis:entry colname="col4">327.3</oasis:entry>  
         <oasis:entry colname="col5"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.1 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry namest="col1" nameend="col2">NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions (TgN) </oasis:entry>  
         <oasis:entry colname="col3">45.2</oasis:entry>  
         <oasis:entry colname="col4">45.5</oasis:entry>  
         <oasis:entry colname="col5">0.7 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Fossil <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> biofuel</oasis:entry>  
         <oasis:entry colname="col3">27.5</oasis:entry>  
         <oasis:entry colname="col4">27.5</oasis:entry>  
         <oasis:entry colname="col5">0</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Lightning</oasis:entry>  
         <oasis:entry colname="col3">6.08</oasis:entry>  
         <oasis:entry colname="col4">6.18</oasis:entry>  
         <oasis:entry colname="col5">1.7 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Natural soil</oasis:entry>  
         <oasis:entry colname="col3">5.81</oasis:entry>  
         <oasis:entry colname="col4">5.86</oasis:entry>  
         <oasis:entry colname="col5">0.9 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Fertilizer soil</oasis:entry>  
         <oasis:entry colname="col3">0.71</oasis:entry>  
         <oasis:entry colname="col4">0.89</oasis:entry>  
         <oasis:entry colname="col5">25.4 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Biomass burning</oasis:entry>  
         <oasis:entry colname="col3">4.55</oasis:entry>  
         <oasis:entry colname="col4">4.54</oasis:entry>  
         <oasis:entry colname="col5"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.2 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Aircraft</oasis:entry>  
         <oasis:entry colname="col3">0.51</oasis:entry>  
         <oasis:entry colname="col4">0.51</oasis:entry>  
         <oasis:entry colname="col5">0</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry namest="col1" nameend="col2">NMVOCs emissions (TgC)<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">678.4</oasis:entry>  
         <oasis:entry colname="col4">722.7</oasis:entry>  
         <oasis:entry colname="col5">6.5 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Fossil <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> biofuel</oasis:entry>  
         <oasis:entry colname="col3">27.8</oasis:entry>  
         <oasis:entry colname="col4">28.1</oasis:entry>  
         <oasis:entry colname="col5">1.1 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Biogenic NMVOCs</oasis:entry>  
         <oasis:entry colname="col3">640</oasis:entry>  
         <oasis:entry colname="col4">684</oasis:entry>  
         <oasis:entry colname="col5">6.9 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Biomass burning</oasis:entry>  
         <oasis:entry colname="col3">10.6</oasis:entry>  
         <oasis:entry colname="col4">10.6</oasis:entry>  
         <oasis:entry colname="col5">0</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table><table-wrap-foot><p><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">a</mml:mi></mml:msup></mml:math></inline-formula> Slight differences may exist between the two model frameworks in the
prescribed anthropogenic (fossil <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> biofuel) and biomass burning emissions,
as a result of the combination of and regridding from various inventories.
The consequent impacts on model simulations are negligible.<?xmltex \hack{\\}?><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula> Emitted NMVOCs include ISOP, PRPE, C<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>H<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">8</mml:mn></mml:msub></mml:math></inline-formula>, ALK<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>,
C<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>H<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msub></mml:math></inline-formula>, ALD<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, ACET and MEK.</p></table-wrap-foot></table-wrap>

      <p>Monthly biomass burning emissions are taken from the Global Fire Emissions
Database version 3 (GFED3) (van der Werf et al., 2010). Other natural
emissions (lightning NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, and biogenic NMVOCs) are parameterized
and calculated on-the-fly based on model meteorology; these emissions are
thus resolution dependent. Soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions follow Hudman et al. (2012). Lightning NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions follow the Price and Rind scheme with a
further satellite-based adjustment and a backward “C-shape” vertical profile
(Price and Rind, 1992; Ott et al., 2010;
Murray et al., 2012). Biogenic
NMVOC emissions are calculated with the MEGAN v2.1 (PECCA) model (Guenther
et al., 2012) driven by monthly mean MODIS leaf area index data.</p>
      <p>Table 2 shows slight differences in global total emissions of ozone
precursors (CO, NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, and NMVOCs) between the global model alone and the
two-way coupled system. In the coupled system, global emissions from all
sources are about 878 Tg yr<inline-formula><mml:math 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> for CO, 45.5 Tg N yr<inline-formula><mml:math 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> for NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
and 723 Tg C yr<inline-formula><mml:math 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> for NMVOCs. These values are larger than those in the
global model by about 0.9, 0.7 and 6.5 %, respectively. Greater
emission differences are found for biogenic NMVOCs (by 6.9 %) and
fertilizer soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (by 25.4 %), reflecting strong resolution
dependence.</p>
      <p>Figure 2 shows the spatial distributions of annual NMVOCs and NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
emissions in the nested models (first and third columns) and the global
model (second and fourth columns). The nested and global models exhibit
similar spatial patterns for NMVOCs emissions. Summed over a given nested
domain, the nested models have higher emissions of NMVOCs than the global
model by 16–48 %, mainly a result of stronger isoprene emissions. The
spatial patterns of NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions differ greatly between the nested and
global models, with local emission spikes much more obvious in the nested
models, although the regional totals are similar (within 5 %).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F2" specific-use="star"><caption><p>Total (anthropogenic <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> natural) emissions of NMVOCs and NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
over Asia, North America and Europe in 2009, as represented in the nested
models (0.667<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>) and the global model
(2.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 2<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>). Values outside the upper bound of color
intervals are shown in black. Color intervals are nonlinear to better
present the data range; an interval without labeling represents the mean of
adjacent two intervals. Also depicted in each panel is the regional total.</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2381/2016/acp-16-2381-2016-f02.png"/>

        </fig>

      <p>The differences in model representation of NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and NMVOCs emissions
affect the simulated ozone chemistry. The difference in regional emission
magnitude (mainly for biogenic NMVOC in summer) affects the surface ozone
simulation within the nested domains (Sect. 5.1), but with a marginal effect
on the global tropospheric ozone as a whole (Sect. 4.3). The better resolved
emission spatial variability, as well as associated chemical contrast by the nested
models, greatly affects both the surface (Sect. 5.1) and the tropospheric
ozone (Sect. 4.3, 5.2, and 5.3).</p>
</sec>
</sec>
<sec id="Ch1.S3">
  <title>Ground, aircraft and OMI measurements</title>
<sec id="Ch1.S3.SS1">
  <title>Ground measurements from WDCGG, GMD, EMEP and AQS</title>
      <p>We employ four measurement networks to evaluate the modeled ground-level
ozone mixing ratios in 2009. As shown in Fig. 1, these networks contain
hourly ozone measurements from a total of 1420 urban, suburban or remote
sites from WDCGG (64 sites,
<uri>http://ds.data.jma.go.jp/gmd/wdcgg/cgi-bin/wdcgg/catalogue.cgi</uri>), GMD (12 sites, <uri>http://www.esrl.noaa.gov/gmd/</uri>), EMEP (130 sites,
<uri>http://www.nilu.no/projects/ccc/emepdata.html</uri>) and AQS (1214 sites,
<uri>http://aqsdr1.epa.gov/aqsweb/aqstmp/airdata/download_files.html</uri>). For model evaluation, we derive the afternoon (12:00–18:00 LT,
local time) mean ozone mixing ratios from the hourly data. Modeled afternoon
ozone is sampled from the lowest layer (centered at <inline-formula><mml:math display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 0.065 km) in grid cells covering the ground sites, and are sampled from the hourly
outputs coincident with available measurements. The afternoon mean ozone is
close to the maximum 8 h average ozone in both measurements (36.1
vs. 39.3 ppb averaged over the 1420 sites) and model simulations (46.8 vs. 48.4 ppb for the global model alone; 42.6 vs. 44.5 ppb for
the two-way coupled system). Models also capture the diurnal cycle of
measured ozone fairly well, although with positive biases in both daytime
and nighttime (not shown), consistent with our previous work (Lin and
McElroy, 2010).</p>
</sec>
<sec id="Ch1.S3.SS2">
  <title>Aircraft measurements from MOZAIC and HIPPO</title>
      <p>We take ozone vertical profiles in 2009 at 11 sites of the MOZAIC program
(pink squares in Fig. 1; data available at <uri>http://www.iagos.fr/web/</uri>) to
evaluate the modeled vertical and seasonal distributions of tropospheric
ozone. Located in major cities, these sites are representative of the
polluted environment. Since 1994, the MOZAIC program has employed five
commercial aircrafts to measure ozone concentrations throughout the
troposphere and lower stratosphere (Marenco et al., 1998). Ozone is measured
with an accuracy estimated at <inline-formula><mml:math display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula>(2 ppbv <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> 2 %) and a 4 s time
response (&lt; 50 m vertical resolution) (Thouret et al., 1998). We use
measurements taken during both takeoff and landing of the aircrafts to
represent the vertical profiles over the associated airports (Zbinden et
al., 2013). Each of the 11 sites chosen here has at least 40 profiles in
2009. Measurements are available from the ground level (0.075 km) to the
upper troposphere and lower stratosphere (UTLS) at 0.15 km intervals. Model
results are sampled at times and locations consistent with the measurements.</p>
      <p>For model evaluation in the remote areas, we use 282 ozone vertical profiles
over the Pacific Ocean from two HIPPO (HIPPO-1 and HIPPO-2) aircraft
campaigns conducted in 2009. The HIPPO campaigns were conducted in the
remote troposphere over the Pacific, Arctic and near-Antarctic regions to
facilitate atmospheric chemistry analysis (Wofsy, 2011). During HIPPO, ozone
was measured by the NOAA O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> photometer using direct absorption at 254 nm (Proffitt and McLaughlin, 1983; Kort et al., 2012). We use the merged
data set that has a vertical resolution of 0.1 km (data available at
<uri>http://hippo.ornl.gov/data_access/</uri>). To ensure spatiotemporal
consistency with the HIPPO data, model ozone is sampled at the times and
locations of the measurements.</p>
</sec>
<sec id="Ch1.S3.SS3">
  <title>Two OMI products for tropospheric column ozone</title>
      <p>We use two monthly OMI tropospheric column ozone (TCO) products that have
been used to study the tropospheric ozone variability and sources (Ziemke et
al., 2011; Kim et al., 2013). The first product is based on an optimal
estimation technique by Liu et al. (2007, 2010) with modifications as described
in Kim et al. (2013), and is referred to as OMI/LIU hereafter. For OMI/LIU,
errors for individual TCO retrievals are typically 2–5 DU (Liu et al.,
2010). Validation against ozonesonde data shows that mean OMI/LIU TCO agrees
with ozonesonde data to within 2 DU for both the tropics
(30<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S–30<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N) and northern mid-latitudes
(30–60<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N), but with season-dependent
biases, varying from <inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.8 DU in summer (JJA) to 2.1 DU in winter (DJF) for
30<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S–30<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, and varying from <inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.1 DU in
JJA to 3 DU in DJF for 30–60<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N (X. Liu,
personal communication, 2015). The second product is the OMI/Microwave Limb Sounder (MLS) data set that
subtracts the OMI total column ozone by the MLS stratospheric ozone (Ziemke
et al., 2011). Ziemke et al. (2011) validated the OMI/MLS data against the
Southern Hemisphere Additional OZonesondes (SHADOZ) and the World Ozone and
Ultraviolet radiation Data Center (WOUDC) ozonesonde measurements. They
found that, on average, the monthly mean OMI/MLS tropospheric ozone mixing
ratio is smaller than the ozonesonde data by about 1 ppb (2 %), with large
seasonal dependence and a root mean square error at 6–8 ppb. For the
present analysis, we average these two independent TCO data sets to reduce
data uncertainties; this leads to a third data set referred to as
OMI_MEAN.</p>
      <p><?xmltex \hack{\newpage}?>We use the monthly mean OMI products for 2009. The OMI/LIU data set is on a
2.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 2<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat. grid. The OMI/MLS
product provides data at 1.25<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 1<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat. from 60<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S to 60<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N. We calculate the
OMI_MEAN TCO after re-gridding the OMI/MLS data to match
OMI/LIU. Data polarward of 60<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> are discarded due to higher
uncertainty. Modeled monthly mean TCO is calculated from all daily data at
the OMI overpass time (13:00–15:00 LT) applied with the monthly mean OMI/LIU
averaging kernel; daily averaging kernel data are not available, and the
modeled global annual average TCO with and without applying the averaging
kernel differ by 0.6 %. These OMI products and model simulations differ
between each other in definitions of tropopause height and days of valid
data, whose effects are found to be small. To examine the effect of
different tropopause heights, we re-calculated in a test analysis the
OMI/LIU, OMI_MEAN and model TCO by applying the OMI/MLS
tropopause. The resulting bias of the global model relative to
OMI_MEAN (2.8 DU, 8.9 %) is similar to the bias without
adjusting the tropopause (2.9 DU, 9.2 %). The differences in days of valid
data also have a marginal effect, as confirmed by examining the TCO
difference between OMI/MLS and global model simulation sampled from days
with valid OMI/MLS data (note that the OMI/MLS product also provides daily
data for such analysis). The calculated TCO difference (3.9 DU; 12.8 %) is
close to the difference (4.0 DU; 13.1 %) without sampling model results.</p>
</sec>
</sec>
<sec id="Ch1.S4">
  <title>Effects of two-way coupling on simulated tropospheric budgets of ozone
and related species</title>
      <p>This section examines the effect of two-way coupling on the simulated
tropospheric ozone budget in 2009 (Sect. 4.1), with additional discussions
on NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, CO, NMVOCs, OH and lifetimes of methane and methyl chloroform
(MCF) (Sect. 4.2). In Sect. 4.3, we delineate the chemical and non-chemical
factors driving the differences between the two-way system and the global
model alone.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T3" specific-use="star"><caption><p>Global tropospheric budgets of ozone and related species for 2009.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2"/>  
         <oasis:entry colname="col3">Global model</oasis:entry>  
         <oasis:entry colname="col4">Two-way model</oasis:entry>  
         <oasis:entry colname="col5">Percentage difference</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry namest="col1" nameend="col5">Tropospheric budget of ozone<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">a</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Chemical loss of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (Tg)</oasis:entry>  
         <oasis:entry colname="col3">4491</oasis:entry>  
         <oasis:entry colname="col4">4537</oasis:entry>  
         <oasis:entry colname="col5">1.0 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Chemical production of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (Tg)</oasis:entry>  
         <oasis:entry colname="col3">4885</oasis:entry>  
         <oasis:entry colname="col4">4928</oasis:entry>  
         <oasis:entry colname="col5">0.9 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Dry deposition of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (Tg)</oasis:entry>  
         <oasis:entry colname="col3">909</oasis:entry>  
         <oasis:entry colname="col4">894</oasis:entry>  
         <oasis:entry colname="col5"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>1.7 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">STE of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (Tg)<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">515</oasis:entry>  
         <oasis:entry colname="col4">503</oasis:entry>  
         <oasis:entry colname="col5"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>2.3 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Dry deposition of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> (Tg)</oasis:entry>  
         <oasis:entry colname="col3">882</oasis:entry>  
         <oasis:entry colname="col4">867</oasis:entry>  
         <oasis:entry colname="col5"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>1.7 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">STE of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> (Tg)<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">488</oasis:entry>  
         <oasis:entry colname="col4">478</oasis:entry>  
         <oasis:entry colname="col5"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>2.0 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> burden (Tg)</oasis:entry>  
         <oasis:entry colname="col3">384</oasis:entry>  
         <oasis:entry colname="col4">348</oasis:entry>  
         <oasis:entry colname="col5"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>9.5 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Mean TCO (DU)</oasis:entry>  
         <oasis:entry colname="col3">34.5</oasis:entry>  
         <oasis:entry colname="col4">31.5</oasis:entry>  
         <oasis:entry colname="col5"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>8.7 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> lifetime (days)</oasis:entry>  
         <oasis:entry colname="col3">26.1</oasis:entry>  
         <oasis:entry colname="col4">23.5</oasis:entry>  
         <oasis:entry colname="col5"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>9.9 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry namest="col1" nameend="col5">Tropospheric burdens and lifetimes of other species </oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> burden (TgN)</oasis:entry>  
         <oasis:entry colname="col3">0.169</oasis:entry>  
         <oasis:entry colname="col4">0.176</oasis:entry>  
         <oasis:entry colname="col5">4.1 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">NMVOCs burden (TgC)<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">c</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">10.1</oasis:entry>  
         <oasis:entry colname="col4">10.2</oasis:entry>  
         <oasis:entry colname="col5">1.0 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">CO burden (Tg)</oasis:entry>  
         <oasis:entry colname="col3">359</oasis:entry>  
         <oasis:entry colname="col4">398</oasis:entry>  
         <oasis:entry colname="col5">10.8 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">OH number concentration (10<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msup></mml:math></inline-formula> cm<inline-formula><mml:math 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>)</oasis:entry>  
         <oasis:entry colname="col3">1.18</oasis:entry>  
         <oasis:entry colname="col4">1.12</oasis:entry>  
         <oasis:entry colname="col5"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>5.0 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">OH-related MCF lifetime (yr)<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">d</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">5.58</oasis:entry>  
         <oasis:entry colname="col4">5.87</oasis:entry>  
         <oasis:entry colname="col5">5.2 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">OH-related methane lifetime (yr)<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">d</mml:mi></mml:msup></mml:math></inline-formula></oasis:entry>  
         <oasis:entry colname="col3">9.63</oasis:entry>  
         <oasis:entry colname="col4">10.12</oasis:entry>  
         <oasis:entry colname="col5">5.1 %</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table><table-wrap-foot><p><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">a</mml:mi></mml:msup></mml:math></inline-formula> Chemical production and loss rates are calculated for the odd oxygen family
(O<inline-formula><mml:math 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> O<inline-formula><mml:math 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> O <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> NO<inline-formula><mml:math 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> 2NO<inline-formula><mml:math 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> 3N<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">5</mml:mn></mml:msub></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> PANs <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> HNO<inline-formula><mml:math 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> HNO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, Wu et al., 2007), to exclude recycling
reactions between O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> and other O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> species. We note that O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>
accounts for over 95 % of the mass of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>. The tropopause is defined
in GEOS-5 as at the pressure where the function [<inline-formula><mml:math display="inline"><mml:mrow><mml:mn>0.03</mml:mn><mml:mi>T</mml:mi><mml:mo>-</mml:mo><mml:msub><mml:mi>log⁡</mml:mi><mml:mn>10</mml:mn></mml:msub><mml:mi>P</mml:mi></mml:mrow></mml:math></inline-formula>]
reaches its first minimum above the surface
(<ext-link xlink:href="http://acmg.seas.harvard.edu/geos/wiki_docs/geos5/GEOS-5.2.0-File_Specification.pdf">http://acmg.seas.harvard.edu/geos/wiki_docs/geos5/GEOS-5.2.0-File_Specification.pdf</ext-link>).<?xmltex \hack{\\}?><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">b</mml:mi></mml:msup></mml:math></inline-formula> Stratosphere–troposphere exchange is inferred from mass balance: O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> STE <inline-formula><mml:math display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
chemical loss <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> dry deposition <inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula> O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> chemical
production, and O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> STE <inline-formula><mml:math display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> chemical loss <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> dry
deposition<inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula> O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> chemical production.<?xmltex \hack{\\}?><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">c</mml:mi></mml:msup></mml:math></inline-formula> NMVOCs for burden calculation include the emitted species only: ISOP, PRPE,
C<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>H<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">8</mml:mn></mml:msub></mml:math></inline-formula>, ALK<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>, C<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>H<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msub></mml:math></inline-formula>, ALD<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>, CH<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O, ACET and
MEK.<?xmltex \hack{\\}?><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mi mathvariant="normal">d</mml:mi></mml:msup></mml:math></inline-formula> Observation-based estimates are 10.2 <inline-formula><mml:math display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.8 (Prinn et al., 2005) or
11.2 <inline-formula><mml:math display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 1.3 (Prather et al., 2012) years for OH-related methane
lifetime, and 6.0 <inline-formula><mml:math display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.4 (Prinn et al., 2005) or 6.3 <inline-formula><mml:math display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.4
(Prather et al., 2012) years for OH-related MCF lifetime.</p></table-wrap-foot></table-wrap>

<sec id="Ch1.S4.SS1">
  <title>Tropospheric ozone budget</title>
      <p>Table 3 contrasts the global tropospheric O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> budgets in 2009 simulated
by the two-way coupled system against those by the global model alone. The
chemical production and loss are calculated for the odd oxygen family
(O<inline-formula><mml:math 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> O<inline-formula><mml:math 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> O <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> NO<inline-formula><mml:math 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> 2NO<inline-formula><mml:math 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> 3N<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">5</mml:mn></mml:msub></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> PANs <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> HNO<inline-formula><mml:math 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> HNO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:math></inline-formula>), following Wu et al. (2007). The
chemical production of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> is mainly driven by reactions of NO with
peroxy radicals, and the chemical loss is mostly due to the O(<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">1</mml:mn></mml:msup></mml:math></inline-formula>D) <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> H<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>O reaction and reactions of ozone with OH and HO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>. The coupled
system produces slightly higher (by <inline-formula><mml:math display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 1.0 %) chemical loss
and production of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> than the global model alone. Ozone dry deposition
in the coupled system (867 Tg) is smaller by 1.7 % than the global model
alone (882 Tg). The STE of ozone in the coupled simulation (478 Tg) is also
lower than the global model alone (488 Tg) by 2.0 %, partly compensating
for the weaker deposition. This small difference in STE affects the
simulated global tropospheric mean ozone by 1.1 % (see Sect. 4.3).</p>
      <p>Table 3 shows that the coupled system produces a tropospheric ozone burden
at 348 Tg, about 9.5 % lower than the burden simulated by the global model
alone (384 Tg). Correspondingly, the lifetime of tropospheric ozone in the
coupled system (burden divided by sink <inline-formula><mml:math display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 23.5 days) is shorter than that
in the global model (26.1 days) by 9.9 %. The large reduction in ozone
burden and lifetime, despite the small change in chemical production and
loss of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, reflects a faster chemical evolution of ozone on a per
molecule basis. Although both lifetimes calculated here are broadly
consistent with previous studies (19.9–25.5 days from ACCMIP, Young et al.,
2013; and 17.3–25.9 days from ACCENT, Stevenson et al., 2006), the
reduction due to our model coupling indicates a significant effect of
small-scale processes resolved by the finer resolution, especially the
fine-scale spatial variability of emissions and associated chemistry.</p>
      <p>Table 4 shows the seasonal dependence of ozone burden and O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> chemical
loss and production. The global model alone produces the largest chemical
loss in the Northern Hemisphere (NH) summer (1252 Tg) and the smallest loss
in winter (1036 Tg). The coupled model reduces the chemical loss by 1.2 %
(to 1237 Tg) in NH summer, due to a lower ozone abundance overcompensating
for a higher per-molecule loss rate. In winter, the coupled model enhances
the loss by 2.3 % (to 1060 Tg), because a higher per-molecule loss rate
from reactions with NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> more than offsets a lower ozone abundance. By
comparison, the coupled model slightly increases the chemical production by
0.3–1.3 % in all seasons.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T4" specific-use="star"><caption><p>Global tropospheric ozone burden and O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> chemical production
and loss in individual seasons of 2009.</p></caption><oasis:table frame="topbot"><?xmltex \begin{scaleboxenv}{.85}[.85]?><oasis:tgroup cols="16">
     <oasis:colspec colnum="1" colname="col1" align="justify" colwidth="119.501575pt"/>
     <oasis:colspec colnum="2" colname="col2" align="right"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="left"/>
     <oasis:colspec colnum="6" colname="col6" align="right"/>
     <oasis:colspec colnum="7" colname="col7" align="right"/>
     <oasis:colspec colnum="8" colname="col8" align="right"/>
     <oasis:colspec colnum="9" colname="col9" align="left"/>
     <oasis:colspec colnum="10" colname="col10" align="right"/>
     <oasis:colspec colnum="11" colname="col11" align="right"/>
     <oasis:colspec colnum="12" colname="col12" align="right"/>
     <oasis:colspec colnum="13" colname="col13" align="left"/>
     <oasis:colspec colnum="14" colname="col14" align="right"/>
     <oasis:colspec colnum="15" colname="col15" align="right"/>
     <oasis:colspec colnum="16" colname="col16" align="right"/>
     <oasis:thead>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry rowsep="1" namest="col2" nameend="col4" align="center">MAM </oasis:entry>  
         <oasis:entry colname="col5"/>  
         <oasis:entry rowsep="1" namest="col6" nameend="col8" align="center">JJA </oasis:entry>  
         <oasis:entry colname="col9"/>  
         <oasis:entry rowsep="1" namest="col10" nameend="col12" align="center">SON </oasis:entry>  
         <oasis:entry colname="col13"/>  
         <oasis:entry rowsep="1" namest="col14" nameend="col16" align="center">DJF </oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">GB</oasis:entry>  
         <oasis:entry colname="col3">TW</oasis:entry>  
         <oasis:entry colname="col4">Diff. (%)</oasis:entry>  
         <oasis:entry colname="col5"/>  
         <oasis:entry colname="col6">GB</oasis:entry>  
         <oasis:entry colname="col7">TW</oasis:entry>  
         <oasis:entry colname="col8">Diff. (%)</oasis:entry>  
         <oasis:entry colname="col9"/>  
         <oasis:entry colname="col10">GB</oasis:entry>  
         <oasis:entry colname="col11">TW</oasis:entry>  
         <oasis:entry colname="col12">Diff. (%)</oasis:entry>  
         <oasis:entry colname="col13"/>  
         <oasis:entry colname="col14">GB</oasis:entry>  
         <oasis:entry colname="col15">TW</oasis:entry>  
         <oasis:entry colname="col16">Diff. (%)</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">Chemical loss of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (Tg)</oasis:entry>  
         <oasis:entry colname="col2">1087</oasis:entry>  
         <oasis:entry colname="col3">1099</oasis:entry>  
         <oasis:entry colname="col4">1.1 %</oasis:entry>  
         <oasis:entry colname="col5"/>  
         <oasis:entry colname="col6">1252</oasis:entry>  
         <oasis:entry colname="col7">1237</oasis:entry>  
         <oasis:entry colname="col8"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>1.2 %</oasis:entry>  
         <oasis:entry colname="col9"/>  
         <oasis:entry colname="col10">1116</oasis:entry>  
         <oasis:entry colname="col11">1141</oasis:entry>  
         <oasis:entry colname="col12">2.2 %</oasis:entry>  
         <oasis:entry colname="col13"/>  
         <oasis:entry colname="col14">1036</oasis:entry>  
         <oasis:entry colname="col15">1060</oasis:entry>  
         <oasis:entry colname="col16">2.3 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Chemical production of O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (Tg)</oasis:entry>  
         <oasis:entry colname="col2">1197</oasis:entry>  
         <oasis:entry colname="col3">1213</oasis:entry>  
         <oasis:entry colname="col4">1.3 %</oasis:entry>  
         <oasis:entry colname="col5"/>  
         <oasis:entry colname="col6">1446</oasis:entry>  
         <oasis:entry colname="col7">1460</oasis:entry>  
         <oasis:entry colname="col8">1.0 %</oasis:entry>  
         <oasis:entry colname="col9"/>  
         <oasis:entry colname="col10">1199</oasis:entry>  
         <oasis:entry colname="col11">1211</oasis:entry>  
         <oasis:entry colname="col12">1.0 %</oasis:entry>  
         <oasis:entry colname="col13"/>  
         <oasis:entry colname="col14">1042</oasis:entry>  
         <oasis:entry colname="col15">1045</oasis:entry>  
         <oasis:entry colname="col16">0.3 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> burden (Tg)</oasis:entry>  
         <oasis:entry colname="col2">374</oasis:entry>  
         <oasis:entry colname="col3">340</oasis:entry>  
         <oasis:entry colname="col4"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>9.1 %</oasis:entry>  
         <oasis:entry colname="col5"/>  
         <oasis:entry colname="col6">394</oasis:entry>  
         <oasis:entry colname="col7">362</oasis:entry>  
         <oasis:entry colname="col8"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>8.0 %</oasis:entry>  
         <oasis:entry colname="col9"/>  
         <oasis:entry colname="col10">370</oasis:entry>  
         <oasis:entry colname="col11">339</oasis:entry>  
         <oasis:entry colname="col12"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>8.4 %</oasis:entry>  
         <oasis:entry colname="col13"/>  
         <oasis:entry colname="col14">399</oasis:entry>  
         <oasis:entry colname="col15">352</oasis:entry>  
         <oasis:entry colname="col16"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>11.7 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Lifetime against chemical loss <?xmltex \hack{\hfill\break}?>(O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> burden / O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> loss)</oasis:entry>  
         <oasis:entry colname="col2">31.4</oasis:entry>  
         <oasis:entry colname="col3">28.3</oasis:entry>  
         <oasis:entry colname="col4"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>9.8 %</oasis:entry>  
         <oasis:entry colname="col5"/>  
         <oasis:entry colname="col6">28.7</oasis:entry>  
         <oasis:entry colname="col7">26.7</oasis:entry>  
         <oasis:entry colname="col8"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>6.9 %</oasis:entry>  
         <oasis:entry colname="col9"/>  
         <oasis:entry colname="col10">30.3</oasis:entry>  
         <oasis:entry colname="col11">27.1</oasis:entry>  
         <oasis:entry colname="col12"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>10.5 %</oasis:entry>  
         <oasis:entry colname="col13"/>  
         <oasis:entry colname="col14">35.1</oasis:entry>  
         <oasis:entry colname="col15">30.3</oasis:entry>  
         <oasis:entry colname="col16"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>13.6 %</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup><?xmltex \end{scaleboxenv}?></oasis:table></table-wrap>

</sec>
<sec id="Ch1.S4.SS2">
  <?xmltex \opttitle{NO${}_{{x}}$, CO, NMVOCs, OH, methane lifetime and MCF lifetime}?><title>NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, CO, NMVOCs, OH, methane lifetime and MCF lifetime</title>
      <p>Table 3 shows that the two-way coupling also significantly affects the
tropospheric burdens of ozone-related species. Burdens of NMVOCs
(10.2 Tg C;
see footnote of Table 3 for species included), NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (0.176 Tg N) and CO
(398 Tg) in 2009 are higher than those simulated by the global model alone
by 1.0, 4.1 and 10.8 %, respectively. Table 3 also shows that the
global annual mean air-mass-weighted tropospheric OH simulated by the
two-way coupled system is lower by 5.0 % than that simulated by the global
model alone (1.12 vs. 1.18 <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 10<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">6</mml:mn></mml:msup></mml:math></inline-formula> cm<inline-formula><mml:math 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>). The sensitivity of OH
to model resolution is broadly consistent with previous studies (Yan et al.,
2014; Wild and Prather, 2006; Valin et al., 2011). In particular, Yan et al. (2014) showed a similar OH reduction by 4 % via the two-way coupling based
on an earlier version of GEOS-Chem (v8-3-02).</p>
      <p><?xmltex \hack{\newpage}?>Table 3 further presents methane and MCF lifetimes due to reactions with the
tropospheric OH. The lifetime calculation follows the formulae used by Yan
et al. (2014); it accounts for the grid-box-specific air mass,
temperature-dependent reaction constant, OH content and vertical gradients
of methane and MCF with an adjustment coefficient of 0.97 for methane
(Predoi-Cross et al., 2006) and 0.92 for MCF (Prather et al., 2012). The
coupled system leads to longer lifetimes than the global model alone, by
about 5.2 % (from 5.58 to 5.87 yr) for MCF and 5.1 % (from 9.63 to 10.12 yr) for methane. These results are closer to the observation-based estimates
of MCF lifetime (6.0 <inline-formula><mml:math display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.4 yr from Prinn et al., 2005; 6.3 <inline-formula><mml:math display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.4 yr from Prather et al., 2012) and methane lifetime (10.2 <inline-formula><mml:math display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.8 yr from
Prinn et al., 2005; 11.2 <inline-formula><mml:math display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 1.3 yr from Prather et al., 2012).</p>
</sec>
<sec id="Ch1.S4.SS3">
  <title>Delineating the factors driving the difference between the two-way
system and the global model alone</title>
      <p>Compared to the global model alone, the two-way coupled system produces
lower global tropospheric mean ozone by 9.5 % (Table 3). This difference
is driven by four factors including the sub-coarse-grid chemical variability
resolved by nested resolution (i.e., emission spatial variability and
associated chemical contrast), the sub-coarse-grid variability of
non-chemical factors (such as topography), a slight difference in the
magnitude of natural emissions (mainly for biogenic NMVOC emissions, Sect. 2) and a slight difference in the magnitude of STE (Sect. 4.1). To
delineate the individual effects of these factors, we conducted three
additional sensitivity simulations from July 2008 to December 2009 as
follows. Results are summarized in Table 5.</p>
      <p>The first test simulation was conducted with the global model alone, by
adopting at each time step the emissions outputted from the two-way system.
Here the global model has the same emission magnitude as the two-way model,
which is slightly larger than the original global model simulation (Sect. 2). As a result, the simulated global tropospheric mean ozone
was
enhanced by 1.1 % relative to the original global model simulation. By
linear subtraction, we determine that factors other than emission magnitude
lead to an ozone reduction by 10.6 % from the global model alone to the
two-way system.</p>
      <p><?xmltex \hack{\newpage}?>The second test is the counterpart of the first test, by re-running the
two-way system and adopting the emissions outputted from the global model
simulation. Here the actual resolution of emissions is 2.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 2<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat.; thus, the sub-coarse-grid variability of
emissions and associated chemical contrast is not resolved. The resulting
tropospheric ozone is lower than the original global model by 2.0 %. This
difference represents the combined effect of the difference in the magnitude
of STE and the sub-coarse-grid variability in non-chemical factors.</p>
      <p>The third test addresses the slight difference in STE. The test re-run the
global model but with a reduction in the STE by 1.0 %, by scaling down the
Linoz stratospheric ozone production rate. As a result, the global
tropospheric mean ozone is reduced by 0.55 %. By linear scaling, we
determine that a 2.0 % reduction in STE from the global model to the
two-way system (Table 3) would lead to a 1.1 % reduction in the global
tropospheric mean ozone. Combining the result here and from the second test
implies that the sub-coarse-grid non-chemical processes would reduce the
global tropospheric mean ozone by 0.9 % from the global model alone to the
two-way system.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T5" specific-use="star"><caption><p>Contributions of chemical and non-chemical factors to the change in
2009 tropospheric ozone from the global model alone to the two-way coupled
system.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="3">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry namest="col1" nameend="col2">Factors </oasis:entry>  
         <oasis:entry colname="col3">% contribution</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry namest="col1" nameend="col2">All factors </oasis:entry>  
         <oasis:entry colname="col3"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>9.5 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry namest="col1" nameend="col2">A. Higher emission magnitude (mainly related to biogenic NMVOC) </oasis:entry>  
         <oasis:entry colname="col3"><inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula>1.1 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry namest="col1" nameend="col2">B. Lower STE </oasis:entry>  
         <oasis:entry colname="col3"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>1.1 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry namest="col1" nameend="col2">C. Nonlinear processes within the troposphere </oasis:entry>  
         <oasis:entry colname="col3"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>9.5 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">C1. Small-scale chemical contrast associated with sub-coarse-grid</oasis:entry>  
         <oasis:entry colname="col3"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>8.6 %</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">variability in emissions of NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, NMVOC, CO, etc.</oasis:entry>  
         <oasis:entry colname="col3"/>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">C2. Non-chemical small-scale (sub-coarse-grid) processes</oasis:entry>  
         <oasis:entry colname="col3"><inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.9 %</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table><table-wrap-foot><p>A. Obtained by contrasting simulations of the global model with vs. without
adopting the nested model emissions at individual time steps; emissions are
regridded from the nested to coarse resolution.<?xmltex \hack{\\}?>B. Obtained by perturbing the STE in the global model.<?xmltex \hack{\\}?>C. Residual of “All factors” subtracting A and B.<?xmltex \hack{\\}?>C1. Residual of C subtracting C2, as driven by small-scale horizontal
distributions of emissions resolved on the nested grid but not on the coarse
global grid.<?xmltex \hack{\\}?>C2. Obtained by (1) contrasting simulations of the two-way coupled model with
vs. without adopting the global model emissions at individual time steps
(here emissions are regridded from the coarse to nested resolution, and are
thus resolved only at the scale of the coarse grid), and then (2) subtracting
B from the result of (1).</p></table-wrap-foot></table-wrap>

      <p>In summary, of the <inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>9.5 % tropospheric mean ozone change from the global
model to the two-way coupled simulation, <inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.9 % is related to
sub-coarse-grid non-chemical processes, <inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>1.1 % is related to the lowered
STE, <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula>1.1 % is associated with the increased natural emission magnitude,
and the remaining <inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>8.6 % represents the effect of sub-coarse-grid
emission–chemical variability. Thus, the small-scale nonlinear chemical
processes (resolved by the nested resolution but not by the coarse
resolution) are the dominant driver of the overall ozone difference.</p>
</sec>
</sec>
<sec id="Ch1.S5">
  <title>Evaluation of modeled tropospheric ozone against ground, aircraft and
satellite measurements</title>
<sec id="Ch1.S5.SS1">
  <title>Surface ozone</title>
      <p>As shown in Fig. 1, most ground measurement sites are located in the US
(1214 sites from AQS) and Europe (130 sites from EMEP). Averaged over the
US AQS sites, the measured annual mean afternoon (12:00–18:00 LT)
mean ozone is 35.8 ppb in 2009. The afternoon ozone is slightly higher over
Europe, about 37.7 ppb averaged over the EMEP sites. The ozone level is
highest over Asia, with a value of 43.1 ppb averaged over the seven WDCGG
sites. The afternoon ozone from the 17 WDCGG sites worldwide is about 33.8 ppb on average.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F3" specific-use="star"><caption><p>Anneal mean model biases in afternoon (12:00–18:00 LT)
mean ground-level ozone for the global model alone <bold>(a)</bold> and the two-way
coupled model <bold>(b)</bold>, with respect to measurements from WDCGG, GMD, AQS and
EMEP. The symbol shapes differentiate measurement networks, consistent with
Fig. 1 (circle for WDCGG, large triangle for GMD, small triangle for AQS,
and diamond for EMEP). The US and European domains are enlarged in
panels <bold>(c–f)</bold> to better show spatial distributions. Blue lines separate the regions
presented in Fig. 4.</p></caption>
          <?xmltex \igopts{width=369.885827pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2381/2016/acp-16-2381-2016-f03.png"/>

        </fig>

      <p>Figure 3 shows the horizontal distributions of annual mean afternoon ozone
biases simulated by the global model alone (Fig. 3a, c and e) and by the
two-way coupled system (Fig. 3b, d and f), relative to the four ground
networks. All model results are derived from the global model component,
i.e., from the 2.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 2<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat. grid
cell covering a given site. The global model tends to overestimate the ozone
concentrations (biases range from <inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>5 to 25 ppb), with a mean bias at <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula>10.8 ppb globally, <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula>10.5 ppb over the US, and <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula>12.1 ppb over Europe. The
positive biases exceed 15 ppb at several high-elevation sites of the western
US (Fig. 3c) and some coastal sites of Europe (Fig. 3e). These results are
broadly consistent with previous multi-model evaluation for the
Hemispheric Transport of Air Pollution (HTAP)
(Reidmiller et al., 2009) and Atmospheric Composition Change European Network of Excellence (ACCENT) (Dentener et al., 2006) projects that
showed an ensemble mean positive bias at 10–20 ppb over the summertime
eastern US and 15–20 ppb over South Asia, respectively. Similar model
biases are also found from our previous evaluation of MOZART and GEOS-Chem
over the US (Lin et al., 2008; Lin and McElroy, 2010). Compared to the
global model alone, the two-way coupled system generally reduces the ozone
bias worldwide (Fig. 3b, d, and f). The positive bias is reduced to 6.7 ppb
globally, 6.6 ppb over the US and 7.5 ppb over Europe. The bias reduction
is apparent at several WDCGG sites over the North Pacific and North Atlantic
(comparing Fig. 3a and b) and over the eastern US (comparing Fig. 3c and
d). The two-way simulation biases against the EMEP measurements are larger
than those for the EMEP/MSC-W regional CTM at a horizontal resolution of 50 km <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 50 km
driven by year-specific emissions (within 10 %) (<uri>http://emep.int/publ/reports/2014/sup_Status_Report_1_2014.pdf</uri>). Our higher biases are
partly because the 2005 EMEP NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions used here are higher than
those in 2009 by 25.3 %
(<uri>http://webdab.umweltbundesamt.at/official_country_trend.html</uri>).</p>

      <?xmltex \floatpos{p}?><fig id="Ch1.F4" specific-use="star"><caption><p>Day-to-day time series of afternoon (12:00–18:00 LT) mean
ground-level ozone from AQS and EMEP measurements (black lines) and from
model simulations (red lines for two-way coupled system, blue lines for
global model alone and green lines for one-way nested models). Data are
averaged over individual triangular regions indicated in Fig. 3. Numbers
shown in each panel are mean model biases for annul mean, spring (MAM),
summer (JJA), fall (SON) and winter (DJF).</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2381/2016/acp-16-2381-2016-f04.png"/>

        </fig>

      <?xmltex \floatpos{p}?><fig id="Ch1.F5" specific-use="star"><caption><p>Day-to-day time series of afternoon (12:00–18:00 LT) mean
surface ozone observed at 12 background sites from WDCGG (black lines) and
coincident model simulations (red lines for two-way simulations, blue lines
for global model alone and green lines for one-way nested simulations).
Also shown in each panel are latitude, longitude and model correlation with
and bias against the observations.</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2381/2016/acp-16-2381-2016-f05.png"/>

        </fig>

      <p>Figure 4 compares the modeled and measured day-to-day time series of
regional mean afternoon ozone in 2009 for six regions in the US (from AQS)
and two regions in Europe (from EMEP). The regions are defined in Fig. 3c–f, as separated by blue lines. In general, the measured ozone levels are
the highest in spring and summer (Fig. 4, black lines), due to stronger STE
and/or higher chemical production. Both the global model and the two-way
coupled system capture the seasonal variation of measured ozone (Fig. 4,
blue and red lines). The global model alone tends to overestimate the
observations; the annual mean bias is 9–15 ppb for any given region.
Seasonally, the overestimate is the largest in winter over the western US
(Fig. 4a and b), in summer over the eastern US and northern Europe (Fig. 4c–g) and in fall over southern Europe (Fig. 4h). The two-way coupled
simulation reduces the ozone biases in most days and regions (Fig. 4, red
lines). On a seasonal mean basis, the largest reductions occur in winter
(2–8 ppb for individual regions), due mainly to much enhanced titration by
NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (not shown). The bias reductions are smallest in summer (&lt; 3 ppb). It is partly because the enhanced ozone production from the
increased natural precursor emissions (Table 2) compensate to some extent
for a stronger chemical ozone loss; a sensitivity global model simulation
adopting emissions in the two-way system produces more summertime ozone than
the original global model by 1.7 ppb over the eastern US
(100–70<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W, 30–50<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N) and by 2.1 ppb over Europe
(10<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W–30<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E, 35–70<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N). Furthermore, although
the nested models reduce the net chemical production of ground-level ozone
(Sect. 4.3), the effect is partly offset by stronger vertical transport that
brings more high-ozone air aloft down to the ground (Roelofs et al., 2003;
M. Lin et al., 2012b). The persistent large summertime bias may also be due
to some non-resolution-dependent factors such as isoprene nitrate chemistry
and dry deposition (Lin et al., 2008; Fiore et al., 2014; Monks et al.,
2015). Although the two-way coupling leads to a relatively small improvement
in summertime ground-level ozone simulations over the US and Europe (Fig. 4), the coupling results in large error reductions for tropospheric ozone
(see Sect. 5.2 and 5.3 below).</p>
      <p>Figure 5 compares the day-to-day time series of modeled afternoon ozone
against the observations at 12 background sites from WDCGG (panels a, b for
Europe, c, d for US, e–g for Asia, h for North Pole, i for Mauna Loa in the
North Pacific and j for the Southern Hemisphere). Each observation site
provides a nearly complete hourly data set for model evaluation. Although the
global model alone and the two-way coupled system generally overestimate the
observed ozone, both simulations reproduce the observed temporal patterns
fairly well. At 11 sites, the correlation between modeled and observed ozone
time series exceeds 0.61 and 0.55 for the coupled system and the global
model, respectively. At six sites, the correlation exceeds 0.75 and 0.71,
respectively. Compared to the global model alone, the coupled simulation is
closer to the observations with a lower bias and higher correlation. At MLO
(outside the nested domains, Fig. 5i), the coupled system produces a
positive bias of 3.0 ppb with a correlation coefficient at 0.61, compared to
the values at 8.2 ppb and 0.59 for the global model alone. Over the three
Asian sites (Figs. 5e–g), the coupled system reduces the biases by 7.1,
5.1 and 6.1 ppb. Although both simulations capture the
observed temporal variability at the two tropical Asian sites (Fig. 5e and
f) with correlation coefficients exceeding 0.66, their performances are
poorer at the mid-latitude mountain site (Fig. 5g) due to large
overestimates in the cold seasons and much smaller biases in the warm
seasons. Nevertheless, the spring–summer high values at these Asian sites
are captured fairly well by both simulations. The spring–summer peaks are
also found for other Asian regions (Lin et al., 2009; Wang et al., 2011).</p>
      <p>Figure 6 further presents for individual sites the day-to-day correlation
and mean bias of simulated afternoon ozone relative to the observations.
Figure 6a presents the results for all 1420 sites. It shows that compared to
the global model alone, the two-way coupled simulation increases the
correlation for 1179 sites and decreases the bias for 1221 sites. Averaged
over all sites, the correlation is increased from 0.53 to 0.68, and the bias
is reduced from 10.8 to 6.7 ppb. Figure 6b further shows the evaluation
results at the 25 sites outside the nested domains from WDCGG and GMD. The
two-way coupled simulation results are within 5 ppb of the observations at
21 sites, compared to 17 sites for the global model alone. Averaged across
all the 25 sites, the coupled simulation has a mean bias at 2.2 ppb and
correlation at 0.74, compared to the global model bias at 4.6 ppb and
correlation at 0.61. These results again indicate the improvement by the
two-way coupling for ozone simulations both within and outside the nested
domains.</p>
<sec id="Ch1.S5.SS1.SSSx1" specific-use="unnumbered">
  <title>Improvement of two-way coupling upon one-way nesting</title>
      <p>Within the nested domains, the two-way coupled simulation improves upon the
traditional one-way nested simulations, because of the improved ozone
simulation at the global scale that in turn affects the LBCs of the nested
models. To illustrate this feedback effect, we conducted additional nested
model simulations between July 2008 and December 2009 in a one-way
nesting mode. Here the nested models take the LBCs from the global model
without affecting the global model simulation, with other model setups the
same as the nested models in the two-way coupled system. Results are
regridded to 2.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 2<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat. for
consistency with the two-way and the global model results; we note that for
the comparison in this section, the effect of this regridding is negligible.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F6"><caption><p><bold>(a)</bold> Mean bias and day-to-day correlation of afternoon
(12:00–18:00 LT) mean ground-level ozone for model simulations with respect to
measurements from WDCGG, GMD, EMEP and AQS (a total of 1420 sites).
<bold>(b)</bold> Similar to panel <bold>(a)</bold> but with respect to measurements outside the three nested
domains from WDCGG and GMD (a total of 25 sites).</p></caption>
            <?xmltex \igopts{width=227.622047pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2381/2016/acp-16-2381-2016-f06.png"/>

          </fig>

      <p>The green lines in Fig. 4 show the regional average one-way nested
simulation results over eight regions of the US and Europe. Compared to
the global model alone (blue lines), the one-way models produce lower biases
on an annual mean basis and for almost all seasons, reflecting the effect of
finer resolution prior to accounting for the improved LBCs, broadly
consistent with previous regional model studies (Fiore et al., 2003; Huang
et al., 2008; Emery et al., 2012). The improvements are most obvious in fall
and winter, by up to 1–2 ppb on a seasonal mean basis. The smallest
differences in summer are a result of better resolved chemical regimes
compensated by higher natural emissions and stronger vertical transport (see
above discussion for two-way vs. global). The two-way coupled system (red
lines) produces much smaller biases than the one-way nested simulations due
to improved LBCs. For any of these eight regions, on a regional annual mean
basis, the amount of bias reduction (1.0–4.0 ppb) from the one-way nesting
to the two-way coupling is larger than the reduction (0.4–0.9 ppb) from the
global modeling to the one-way nesting by a factor of 1–7. The large
influence of LBCs on the one-way nested modeling was also found by previous
studies (e.g., Huang et al., 2008). Our results suggest that the improved
LBCs through two-way coupling are very beneficial for the nested models.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F7" specific-use="star"><caption><p>Measured (black) and simulated (red for two-way coupled model and
blue for global model alone) vertical profiles of ozone in 2009 for the
MOZAIC <bold>(a–k)</bold> and HIPPO campaigns <bold>(l)</bold>. MOZAIC measurements are from the
ground level (0.075 km) to the UTLS at 0.15 km intervals, as averaged over
all profiles. HIPPO data are averaged over all profiles at 0.1 km intervals.
Model results are sampled at times and locations coincident to the
measurements, except that the model vertical layers are kept for clarity.
Horizontal lines indicate 1 standard deviation. Also shown in each panel
are the city name, longitude, latitude, number of profiles and mean model
biases below 9 km (the mean tropopause height). The black dot in each panel
depicts the average tropopause height calculated from the two-way coupled
model.</p></caption>
            <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2381/2016/acp-16-2381-2016-f07.png"/>

          </fig>

      <p>Figure 5a–g contrast the one-way simulated ozone time series (green lines)
at the seven background sites within the nested domains against the
simulations of the two-way system (red lines) and the global model alone
(blue lines). At any site, the one-way nested model produces lower ozone
than the global model alone on average, with a difference of up to 10 ppb in
some days. This leads to a lower bias against the observations, consistent
with previous regional model studies (Fiore et al., 2003; Huang et al.,
2008; Emery et al., 2012). Furthermore, the two-way coupled simulation
produces lower ozone than the one-way nested model, leading to a lower bias
and higher correlation against the observations. This again indicates an
important additional effect by accounting for improved LBCs via the two-way
coupling.</p>
</sec>
</sec>
<sec id="Ch1.S5.SS2">
  <title>Tropospheric ozone profile</title>
      <p>The black lines in Fig. 7a–k show the measured vertical profiles of
tropospheric ozone averaged over 2009 at individual MOZAIC sites. In
general, the measured ozone increases with height, from 20–40 ppb in the
lower troposphere to 40–70 ppb at 5 km, and to larger values in the upper
troposphere. For the HIPPO campaigns (black line in Fig. 7l), the average
ozone mixing ratio is between 20 and 50 ppb below 9 km.</p>
      <p>The red and blue lines in Fig. 7 show the ozone profiles simulated by the
two-way coupled system and the global model alone, respectively. Here the
model evaluation is focused on ozone biases below 9 km, the mean tropopause
height. Both simulations capture the general vertical structures of MOZAIC
and HIPPO ozone. Below 9 km, the global model generally overestimates the
measured ozone, with a positive bias by 10.4 ppb averaged vertically and
across all profiles. This overestimate is consistent with the positive bias,
especially north of 30<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, reported from the ACCENT and ACCMIP
model ensemble evaluation against ozonesonde data (Stevenson at al., 2006;
Young et al., 2013). The coupled system produces lower ozone concentrations
in the troposphere (0–9 km) than the global model alone. This translates to
ozone bias reductions by 3–11 ppb at most MOZAIC sites (in the polluted
areas) and by 5.3 ppb for HIPPO profiles (in the remote areas), averaged
over 0–9 km. These improvements are a result of interactions between
improved ozone simulations over pollution source regions and improved
simulations of background ozone, as initially driven by a higher resolution
over the source regions.</p>
      <p>Figure 7 shows that for the MOZAIC sites, the observed ozone variability at
a particular height of the profile is much larger than the modeled
variability. This is because the observation is sampled at every 0.15 km
vertically, at a much finer resolution than the vertical resolution of the
model. When the observations are mapped to the vertical resolution of the
model, the observed variability is greatly reduced to a level comparable to
the modeled variability (not shown).</p>
      <p>Figure 8 further shows the ozone profiles in individual seasons of 2009 at
Frankfurt. With several hundred profiles in each season, this site allows
for a detailed seasonal analysis. Again, although both the two-way coupled
system and the global model alone capture the general vertical distribution
of ozone in any given season, the coupled system leads to much lower biases
below 9 km.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F8" specific-use="star"><caption><p>Similar to Fig. 7 but for seasonal profiles at Frankfurt from the
MOZAIC program.</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2381/2016/acp-16-2381-2016-f08.png"/>

        </fig>

      <?xmltex \floatpos{t}?><fig id="Ch1.F9" specific-use="star"><caption><p>Measured and modeled annual and seasonal mean tropospheric ozone
columns from 60<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S to 60<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N in 2009: (from left to
right) OMI/MLS, OMI retrieval by Liu et al. (2010), average of the two
satellite data sets, simulation of the two-way coupled system, and simulation
of the global model alone. Also shown in each panel are global, NH and SH
means.</p></caption>
          <?xmltex \igopts{width=369.885827pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2381/2016/acp-16-2381-2016-f09.png"/>

        </fig>

</sec>
<sec id="Ch1.S5.SS3">
  <title>Tropospheric column ozone</title>
      <p>Figure 9 presents the horizontal distributions of TCO in individual seasons
from OMI/MLS, OMI/LIU, their average OMI_MEAN, the two-way
coupled system, and the global model alone. OMI/MLS and OMI/LIU produce
similar seasonal and spatial distributions of TCO, with lower values in the
tropics but higher values in the northern mid-latitudes (especially in the
Northern Hemisphere (NH) summer and fall) and near 30<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S. In
general, OMI/LIU produces higher TCO values than OMI/MLS by 0.8 DU
(2.8 %), 1.6 DU (5.3 %), 3.8 DU (11.9 %) and 2.8 DU (9.0 %) in NH
spring, summer, fall and winter, respectively. These differences are broadly
consistent with the uncertainties in OMI/MLS and OMI/LIU discussed in Sect. 3.3. We thus use their average, OMI_MEAN, for model
evaluation.</p>
      <p><?xmltex \hack{\newpage}?>Figure 9 shows that both the global model alone and the coupled system
reproduce the general seasonal and spatial structures of OMI_MEAN TCO. The global model tends to overestimate the seasonal TCO in
OMI_MEAN, with a global mean bias of 4.4 DU (15.2 %), 3.4 DU (10.9 %), 2.2 DU (6.5 %), and 1.6 DU (4.9 %) in NH spring, summer,
fall, and winter, respectively. The positive bias is more significant in the
NH (annual mean bias <inline-formula><mml:math display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 3.6 DU) than in the Southern Hemisphere (SH, bias <inline-formula><mml:math display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 2.2 DU). The large NH overestimate was found also for the ACCMIP model
ensemble (Young et al., 2013). Compared to the global model alone, the
coupled system reduces the annual average TCO by 3.0 DU (9.5 %) globally,
by 3.8 DU in the NH, and by 2.1 DU in the SH. The coupled system also leads
to TCO values closer to OMI_MEAN, with a global mean bias of
1.2 DU (4.1 %) in NH spring, 0.1 DU (0.3 %) in summer, <inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.7 DU
(<inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>2.1 %) in fall and <inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.7 DU (<inline-formula><mml:math display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>2.2 %) in winter. The model improvements
are more significant in the NH.</p>
</sec>
</sec>
<sec id="Ch1.S6" sec-type="conclusions">
  <title>Conclusions</title>
      <p>This study evaluates the effects on the global tropospheric ozone of
nonlinear small-scale chemical and physical processes over the three major
pollution source regions (Asia, North America, and Europe) not resolved by a
typical global model (at a <inline-formula><mml:math display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 200 km resolution). For this
purpose, we simulate the tropospheric ozone in 2009 simulated by a two-way
coupled system integrating the global GEOS-Chem CTM (at 2.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 2<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat.) and its three fine-resolution nested models (at
0.667<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> long. <inline-formula><mml:math display="inline"><mml:mo>×</mml:mo></mml:math></inline-formula> 0.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> lat.) covering Asia, North America
and Europe. The nested models better capture nonlinear small-scale processes
within the nested domains; and the two-way coupling allows such improvements
to have a global impact, which in turn improves the LBCs of the nested
models.</p>
      <p>The coupled system is compared against the coarse global model alone, by
employing a suite of ozone measurements in 2009 from four ground networks
(WDCGG, GMD, AQS in the US, and EMEP in Europe, with 1420 sites), MOZAIC
and HIPPO aircraft campaigns, and two OMI TCO products. Model evaluation
clearly indicates the superiority of the two-way coupled system. Compared to
the global model alone, the coupled system produces afternoon (12:00–18:00 LT) mean ground-level ozone much closer to the measurements. On an
annual mean basis, the model bias is reduced by 4.1 ppb (from 10.8 to 6.7 ppb) globally, by 3.9 ppb (from 10.5
to 6.6 ppb) over the US, and by 4.6 ppb (from 12.1 to 7.5 ppb) over Europe. The coupled system also enhances the
correlation to the measurements in day-to-day ozone variability from 0.53 to
0.68, averaged over the 1420 sites. Although both the global model alone and
the coupled system capture the vertical distributions of ozone measured from
MOZAIC and HIPPO, the coupled system produces lower ozone values. This leads
to bias reductions by 3–10 ppb at most MOZAIC sites and by 5.3 ppb for
HIPPO profiles (for ozone averaged over 0–9 km). The coupled system also
produces lower TCO values than the global model alone, with a global annual
mean reduction by 3.0 DU (9.5 %), leading to better agreement with OMI
data in all seasons. These model improvements are mainly driven by better
representation of spatially inhomogeneous nonlinear ozone chemistry
associated with sub-coarse-grid spatial variability of precursor emissions.</p>
      <p>Within the nested domains, the two-way coupling also leads to smaller
surface ozone biases than a traditional one-way nested model setup. This
is because the two-way coupling improves the ozone simulation in the global
domain, which in turn improves the LBCs of the nested models. On a regional
annual mean basis, the bias reduction from the one-way nesting to the
two-way coupling is larger than the reduction from the global modeling to
the one-way nesting by a factor of 1–7 over the US and Europe. This
result has important implications for nested/regional model studies of
surface air quality.</p>
      <p>Compared to the global model alone, the two-way coupled system also reduces
the global tropospheric mean OH by 5.0 %, with corresponding enhancements
in methane lifetime (by 5.1 %), MCF lifetime (by 5.2 %) and CO burden
(by 10.8 %). The improved quantities are closer to observation-based
estimates (Prinn et al., 2005; Prather et al., 2012; Yan et al., 2014).
These results are consistent with our previous analysis (Yan et al., 2014),
and they point to the importance of small-scale processes to the global
chemistry. Similar simulations with other global models would further test
the importance of small-scale chemical variability for the global ozone
chemistry.</p>
      <p>At last, we note that the coupled system requires an amount of computational
resource affordable for most users, i.e., 32 cores compared to eight cores
for the global model alone for a similar wall-clock time. As a global
high-resolution simulation is often prohibited by large computational costs,
we suggest a low-cost two-way coupled system integrating global and nested
CTMs, like ours, to be a viable choice for most researchers.</p>
</sec>

      
      </body>
    <back><ack><title>Acknowledgements</title><p>This research is supported by the National Natural Science Foundation of
China, grants 41422502 and 41175127, and the 973 program, grant 2014CB441303. We acknowledge the free use of ozone data from WDCGG
(<uri>http://ds.data.jma.go.jp/gmd/wdcgg/</uri>), GMD (<uri>http://www.esrl.noaa.gov/gmd/</uri>), EMEP
(<uri>http://www.nilu.no/projects/ccc/emepdata.html</uri>), AQS (<ext-link xlink:href="http://aqsdr1.epa.gov/aqsweb/aqstmp/airdata/download_files.html">http://aqsdr1.epa.gov/aqsweb/aqstmp/airdata/download_files.html</ext-link>),
MOZAIC-IAGOS (<ext-link xlink:href="http://www.iagos.fr/web/">http://www.iagos.fr/web/</ext-link>), HIPPO
(<uri>http://hippo.ornl.gov/dataaccess</uri>), OMI/MLS (<uri>http://ozoneaq.gsfc.nasa.gov/</uri>)
and OMI TCO data from Xiong Liu. We thank
the European Commission for the support to the MOZAIC project (1994–2003)
and the preparatory phase of IAGOS (2005–2012) partner institutions of the
IAGOS Research Infrastructure (FZJ, DLR, MPI, KIT in Germany, CNRS, CNES,
Météo-France in France and University of Manchester in United
Kingdom), ETHER (CNES-CNRS/INSU) for hosting the database, the participating
airlines (Lufthansa, Air France, Austrian, China Airlines, Iberia, Cathay
Pacific) for the transport free of charge of the instrumentation.<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?>
Edited by: Y. Cheng</p></ack><?xmltex \hack{\newpage}?><?xmltex \hack{\newpage}?><ref-list>
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    </app></app-group></back>
    <!--<article-title-html>Improved simulation of tropospheric ozone by a global-multi-regional two-way
coupling model system</article-title-html>
<abstract-html><p class="p">Small-scale nonlinear chemical and physical processes over pollution source
regions affect the tropospheric ozone (O<sub>3</sub>), but these processes are not
captured by current global chemical transport models (CTMs) and
chemistry–climate models that are limited by coarse horizontal resolutions
(100–500 km, typically 200 km). These models tend to contain large (and
mostly positive) tropospheric O<sub>3</sub> biases in the Northern Hemisphere.
Here we use the recently built two-way coupling system of the GEOS-Chem CTM to
simulate the regional and global tropospheric O<sub>3</sub> in 2009. The system
couples the global model (at 2.5° long.  ×  2° lat.) and its three nested models (at 0.667° long.  ×  0.5° lat.) covering Asia, North America and Europe,
respectively. Specifically, the nested models take lateral boundary
conditions (LBCs) from the global model, better capture small-scale
processes and feed back to modify the global model simulation within the
nested domains, with a subsequent effect on their LBCs.</p><p class="p">Compared to the global model alone, the two-way coupled system better
simulates the tropospheric O<sub>3</sub> both within and outside the nested
domains, as found by evaluation against a suite of ground (1420 sites from
the World Data Centre for Greenhouse Gases (WDCGG), the United
States National Oceanic and Atmospheric Administration (NOAA) Earth System
Research Laboratory Global Monitoring Division (GMD), the Chemical
Coordination Centre of European Monitoring and Evaluation Programme (EMEP), and the United States Environmental Protection Agency Air Quality System (AQS)), aircraft (the High-performance Instrumented Airborne
Platform for Environmental Research (HIAPER) Pole-to-Pole Observations
(HIPPO) and Measurement of Ozone and Water Vapor by Airbus In-
Service Aircraft (MOZAIC)) and satellite
measurements (two Ozone Monitoring Instrument (OMI) products). The two-way coupled simulation enhances the
correlation in day-to-day variation of afternoon mean surface O<sub>3</sub> with
the ground measurements from 0.53 to 0.68, and it reduces the mean model
bias from 10.8 to 6.7 ppb. Regionally, the coupled system reduces the bias
by 4.6 ppb over Europe, 3.9 ppb over North America and 3.1 ppb over other
regions. The two-way coupling brings O<sub>3</sub> vertical profiles much closer
to the HIPPO (for remote areas) and MOZAIC (for polluted regions) data,
reducing the tropospheric (0–9 km) mean bias by 3–10 ppb at most MOZAIC
sites and by 5.3 ppb for HIPPO profiles. The two-way coupled simulation also
reduces the global tropospheric column ozone by 3.0 DU (9.5 %, annual
mean), bringing them closer to the OMI data in all seasons. Additionally,
the two-way coupled simulation also reduces the global tropospheric mean
hydroxyl radical by 5 % with improved estimates of methyl chloroform and
methane lifetimes. Simulation improvements are more significant in the
Northern Hemisphere, and are mainly driven by improved representation of
spatial inhomogeneity in chemistry/emissions.</p><p class="p">Within the nested domains, the two-way coupled simulation reduces surface
ozone biases relative to typical GEOS-Chem one-way nested simulations, due
to much improved LBCs. The bias reduction is 1–7 times the bias reduction
from the global to the one-way nested simulation. Improving model
representations of small-scale processes is important for understanding the
global and regional tropospheric chemistry.</p></abstract-html>
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