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  <front>
    <journal-meta>
<journal-id journal-id-type="publisher">ACP</journal-id>
<journal-title-group>
<journal-title>Atmospheric Chemistry and Physics</journal-title>
<abbrev-journal-title abbrev-type="publisher">ACP</abbrev-journal-title>
<abbrev-journal-title abbrev-type="nlm-ta">Atmos. Chem. Phys.</abbrev-journal-title>
</journal-title-group>
<issn pub-type="epub">1680-7324</issn>
<publisher><publisher-name>Copernicus Publications</publisher-name>
<publisher-loc>Göttingen, Germany</publisher-loc>
</publisher>
</journal-meta>

    <article-meta>
      <article-id pub-id-type="doi">10.5194/acp-16-2323-2016</article-id><title-group><article-title>Land cover change impacts on atmospheric chemistry: simulating projected
large-scale tree mortality in the United States</article-title>
      </title-group><?xmltex \runningtitle{Land cover change impacts on atmospheric chemistry}?><?xmltex \runningauthor{J.~A.~Geddes et al.}?>
      <contrib-group>
        <contrib contrib-type="author" corresp="yes" rid="aff1">
          <name><surname>Geddes</surname><given-names>Jeffrey A.</given-names></name>
          <email>jeff.geddes@dal.ca</email>
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2">
          <name><surname>Heald</surname><given-names>Colette L.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0003-2894-5738</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2">
          <name><surname>Silva</surname><given-names>Sam J.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-6343-8382</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1 aff3">
          <name><surname>Martin</surname><given-names>Randall V.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0003-2632-8402</ext-link></contrib>
        <aff id="aff1"><label>1</label><institution>Department of Physics and Atmospheric Science, Dalhousie
University, P.O. Box 15000, Halifax, <?xmltex \hack{\newline}?>Nova Scotia, B3H 4R2,
Canada</institution>
        </aff>
        <aff id="aff2"><label>2</label><institution>Department of Civil and Environmental Engineering,
Massachusetts Institute of Technology, <?xmltex \hack{\newline}?>77 Massachusetts Avenue, Cambridge,
Massachusetts 02139-4307, USA</institution>
        </aff>
        <aff id="aff3"><label>3</label><institution>Harvard-Smithsonian Center for Astrophysics, Cambridge,
Massachusetts, USA</institution>
        </aff>
      </contrib-group>
      <author-notes><corresp id="corr1">Jeffrey A. Geddes (jeff.geddes@dal.ca)</corresp></author-notes><pub-date><day>29</day><month>February</month><year>2016</year></pub-date>
      
      <volume>16</volume>
      <issue>4</issue>
      <fpage>2323</fpage><lpage>2340</lpage>
      <history>
        <date date-type="received"><day>28</day><month>September</month><year>2015</year></date>
           <date date-type="rev-request"><day>28</day><month>October</month><year>2015</year></date>
           <date date-type="rev-recd"><day>1</day><month>February</month><year>2016</year></date>
           <date date-type="accepted"><day>8</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/16/2323/2016/acp-16-2323-2016.html">This article is available from https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016.html</self-uri>
<self-uri xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016.pdf">The full text article is available as a PDF file from https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016.pdf</self-uri>


      <abstract>
    <p>Land use and land cover changes impact climate and air quality by
altering the exchange of trace gases between the Earth's surface and
atmosphere. Large-scale tree mortality that is projected to occur across the
United States as a result of insect and disease may therefore have unexplored
consequences for tropospheric chemistry. We develop a land use module for the
GEOS-Chem global chemical transport model to facilitate simulations involving
changes to the land surface, and to improve consistency across
land–atmosphere exchange processes. The model is used to test the impact of
projected national-scale tree mortality risk through 2027 estimated by the
2012 USDA Forest Service National Insect and Disease Risk Assessment. Changes
in biogenic emissions alone decrease monthly mean O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> by up to 0.4 ppb,
but reductions in deposition velocity compensate or exceed the effects of
emissions yielding a net increase in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> of more than 1 ppb in some
areas. The O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> response to the projected change in emissions is affected
by the ratio of baseline NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC concentrations, suggesting that in
addition to the degree of land cover change, tree mortality impacts depend on
whether a region is NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>-limited or NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>-saturated. Consequently, air
quality (as diagnosed by the number of days that 8 h average O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> exceeds
70 ppb) improves in polluted environments where changes in emissions are
more important than changes to dry deposition, but worsens in clean
environments where changes to dry deposition are the more important term. The
influence of changes in dry deposition demonstrated here underscores the need
to evaluate treatments of this physical process in models. Biogenic secondary
organic aerosol loadings are significantly affected across the US, decreasing
by 5–10 % across many regions, and by more than 25 % locally. Tree
mortality could therefore impact background aerosol loadings by between 0.5
and 2 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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>. Changes to reactive nitrogen oxide abundance
and partitioning are also locally important. The regional effects simulated
here are similar in magnitude to other scenarios that consider future biofuel
cropping or natural succession, further demonstrating that
biosphere–atmosphere exchange should be considered when predicting future
air quality and climate. We point to important uncertainties and further
development that should be addressed for a more robust understanding of land
cover change feedbacks.</p>
  </abstract>
    </article-meta>
  </front>
<body>
      

<sec id="Ch1.S1" sec-type="intro">
  <title>Introduction</title>
      <p>Land use and land cover changes impact climate by altering energy exchange
at the surface of the Earth, and by altering the composition of the
atmosphere through changes in biogeochemical cycling (Feddema et al., 2005;
Pielke et al., 2011). Though recognized as a crucial factor in future
climate scenarios (van Vuuren et al., 2011), projections of land use and
land cover change remain highly uncertain (Smith et al., 2010). The
terrestrial biosphere also plays an important role in surface–atmosphere
exchange of reactive trace species that control the oxidative chemistry of
the troposphere (Arneth et al., 2010; Laothawornkitkul et al., 2009; Mellouki
et al., 2015; Monson and Holland, 2001), so that changes in vegetation can
further impact air quality and climate (Heald and Spracklen, 2015; Unger,
2014). These changes can be human-driven (e.g., urbanization, forestry
management, and agricultural practices) or natural (e.g., wildfires, insect
infestations, and biome shifts). Over the 21st century, variations in
biogenic volatile organic compound (BVOC) emissions due to climate change
and crop management will likely impact surface ozone (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> and secondary
organic aerosol (SOA) concentrations (Ashworth et al., 2012; Chen et al.,
2009; Ganzeveld et al., 2010; Hardacre et al., 2013; Heald et al., 2008; Wu
et al., 2012). Here we consider the air quality and atmospheric chemistry
implications of another form of land cover change on relatively shorter
timescales: large-scale insect- and disease-driven tree mortality.</p>
      <p>Modifications to vegetation distribution, plant type, canopy
characteristics, and soil properties alter the regional emission and
deposition of reactive trace gases from the terrestrial biosphere. For
example, large-scale deforestation of the Amazonian rainforest, the
expansion of oil palm plantations in Asia, and cultivation of biofuel
feedstocks can significantly alter BVOC emissions, with various implications
for secondary pollutants (Ashworth et al., 2012; Beltman et al., 2013;
Ganzeveld, 2004; MacKenzie et al., 2011). In the eastern US, harvest
practices and forest management have likely resulted in a net increase in
BVOC emissions since the 1980s, counteracting successful anthropogenic
emission reductions (Purves et al., 2004). Ecological succession, either
from anthropogenic land management or natural processes, could also impact
regional chemistry (Drewniak et al., 2014). Some changes in land cover have
compensating impacts. For example, higher vegetation density could lead to
increased O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> precursor emissions but also faster depositional losses
(Ganzeveld et al., 2010; Wu et al., 2012). Consequently, we require models
that account for the combination of these mechanisms in a consistent manner
to understand the relevant net impacts on air quality and climate.</p>
      <p>Almost a third of the Earth's land surface is covered by forests, providing
a variety of economic, recreational, and ecosystem services including
regulating climate through complex biogeophysical and hydrological feedbacks
and by taking up CO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> from the atmosphere (Bonan, 2008; MEA, 2005). A
prominent risk to forests in the near future (&lt; decades) is tree
mortality resulting from insect attack and disease (Krist et al., 2014).
Biotic disturbances resulting in tree mortality occur naturally at low and
predictable rates (Smith et al., 2001), but in the coming decades many
forests across the US are predicted to experience tree mortality well above
background. Between 2013 and 2027, over 80 million acres of treed land in
the United States are projected to experience basal area mortality rates
exceeding 25 %, with some tree species at risk of losing more than 50 %
of their volume (Krist et al., 2014). The dominant contributing hazards are
expected to be root diseases, bark beetles, and oak decline, with highest
risks occurring in Idaho, Montana, and Oregon in the western US and in Rhode
Island, Connecticut, and Massachusetts in the eastern US (Krist et al.,
2014). The wood volume lost from insects and pathogens can cost the US
several times more than losses by wildfire (Dale et al., 2001), and can have
a major impact on carbon cycling (Hicke et al., 2012), but the atmospheric
chemistry impacts have not been fully explored. Berg et al. (2013) simulated
the impact of past bark beetle infestations in the western US using a decade
of tree mortality data. They found large changes to monoterpene emissions,
and subsequently SOA concentrations, that could potentially affect
background aerosol concentrations and visibility in pristine regions.</p>
      <p>Given the important role of natural emissions in the chemistry of the
atmosphere (Zare et al., 2014), large-scale future tree mortality may
influence ozone production and organic aerosol concentrations. Nonattainment
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> air quality standards in the US is more sensitive to BVOC
emissions than anthropogenic VOC emissions (Hakami et al., 2006), and
secondary organic aerosol mass can be dominated by biogenic sources (Pye et
al., 2010). The main anticipated effect of tree mortality is a reduction of
the BVOC emissions from the species that die, but a change in local
vegetation density would also be expected to impact dry deposition, since
this is directly related to the surface area available for deposition.
Vegetation changes can also affect the local microclimate, further impacting
depositional processes. Changes in dry deposition may be significant for
species (such as 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> whose depositional losses are competitive with
chemical sinks near the surface of the earth. Finally, since soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
emissions to the atmosphere depend not only on available nitrogen and soil
conditions but also on the extent of uptake to vegetation canopies, changes
to forests driven by tree mortality could impact these emissions as well.</p>
      <p>Here we use the GEOS-Chem chemical transport model to investigate the impact
of projected tree mortality on atmospheric composition. We harmonize the
description of land cover across the relevant surface–atmosphere exchange
processes, and use this adapted model to simulate the impacts of predicted
tree losses as a result of insect and disease in the United States from
2013–2027. We explore how changes in dry deposition might compensate for
changes in chemical production by separating these impacts in individual
simulations. We highlight that even modest tree mortality could impact
regional atmospheric chemistry across the US, and identify specific regions
for further investigation. We also discuss directions for future development
to better understand the influence of vegetation changes on atmospheric
reactivity and composition.</p>
</sec>
<sec id="Ch1.S2">
  <title>Model description</title>
<sec id="Ch1.S2.SS1">
  <title>General description of GEOS-Chem</title>
      <p>We use the GEOS-Chem model (Bey et al., 2001; <uri>www.geos-chem.org</uri>) v9-02 to
simulate the impact of changes in vegetation on atmospheric chemistry.
GEOS-Chem is a global 3-D atmospheric chemical transport model driven by
assimilated meteorology from the NASA Global Modeling and Assimilation
Office. Our simulations are driven by GEOS-5 meteorological data for the
year 2010 and performed over North America at the nested horizontal
resolution of <inline-formula><mml:math display="inline"><mml:mrow><mml:msup><mml:mn>0.5</mml:mn><mml:mo>∘</mml:mo></mml:msup><mml:mo>×</mml:mo><mml:msup><mml:mn>0.667</mml:mn><mml:mo>∘</mml:mo></mml:msup></mml:mrow></mml:math></inline-formula>, with dynamic boundary
conditions supplied from a global simulation at <inline-formula><mml:math display="inline"><mml:mrow><mml:msup><mml:mn mathvariant="normal">2</mml:mn><mml:mo>∘</mml:mo></mml:msup><mml:mo>×</mml:mo><mml:msup><mml:mn>2.5</mml:mn><mml:mo>∘</mml:mo></mml:msup></mml:mrow></mml:math></inline-formula>.</p>
      <p>The model includes a detailed HO<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-O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> chemical scheme
originally presented by Bey et al. (2001). The chemical mechanism includes
over 90 species (including the following lumped categories: &gt; C3
alkanes, &gt; C2 alkenes, &gt; C4 alkynitrates,
&gt; C1 aldehydes, &gt; C1 alcohols, and &gt; C1 organic acids),
over 200 chemical reactions, and over 50 photolysis reactions, incorporating
the latest JPL and IUPAC recommendations. Detailed isoprene oxidation
chemistry is included, following Paulot et al. (2009a, b) as implemented for
GEOS-Chem by Mao et al. (2013). Explicit oxidation pathways are not yet
included for terpenes. Given that isoprene dominates biogenic OH reactivity
over the continental US, we assume terpenes play a minor role outside of SOA
formation (see below) in our land cover change simulations. Gas-aerosol
partitioning in the sulfate-nitrate-ammonium system is described according
to the thermodynamic ISORROPIA II equilibrium model (Fountoukis and Nenes,
2007).</p>
      <p>Carbonaceous aerosol sources include primary emissions from fossil fuel,
biofuel, and biomass burning (Park et al., 2003) and reversible SOA
formation following Pye et al. (2010). Secondary organic aerosol are lumped
into five species based on the parent hydrocarbons (terpenes, isoprene,
light aromatics, and intermediate volatile organic compounds, semivolatile
organic compounds (SVOCs), and oxidized SVOCs). Aerosol yields are
parameterized using a volatility basis set (Donahue et al., 2006) for
aerosol systems with multiple parent hydrocarbons or aerosol formation
pathways, or an Odum 2-product approach (Odum et al., 1996) for systems with
one parent hydrocarbon. Emitted biogenic parent hydrocarbons are lumped in
the following manner: (1) <inline-formula><mml:math display="inline"><mml:mi mathvariant="italic">α</mml:mi></mml:math></inline-formula>-pinene <inline-formula><mml:math display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mi mathvariant="italic">β</mml:mi></mml:mrow></mml:math></inline-formula>-pinene <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> sabinine <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> carene; (2) limonene; (3) t-<inline-formula><mml:math display="inline"><mml:mi mathvariant="italic">β</mml:mi></mml:math></inline-formula>-ocimene <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> myrcene <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> other
monoterpenes; (4) farnesene <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> caryophyllene <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> other sesquiterpenes; and
(5) isoprene. SOA yields from ozonolysis (at high and low 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> and
nitrate radical oxidation are represented in the model for groups (1)–(4),
while yields from photooxidation (initiated by OH) and nitrate radical
oxidation are represented for isoprene. Further gas-aerosol phase coupling
occurs for example through 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> uptake (Evans and Jacob, 2005) 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>
uptake (Mao et al., 2013).<?xmltex \hack{\newpage}?></p>
      <p>We use anthropogenic emission inventories according to the NEI-2005
inventory for the United States (<uri>http://www.epa.gov/ttnchie1/trends/</uri>), CAC
for Canada (<uri>http://www.ec.gc.ca/pdb/cac/</uri>), and BRAVO (Kuhns et al., 2005)
for Mexico, and scale these to the year 2010 following van Donkelaar et al.
(2008). The model also includes biomass burning emissions (GFED3, Mu et al.,
2011), lightning NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (Murray et al., 2012), and volcanic SO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula>
emissions (Fisher et al., 2011). Soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and BVOC emissions are
described below.</p>
</sec>
<sec id="Ch1.S2.SS2">
  <title>Default land–atmosphere exchange in GEOS-Chem</title>
      <p>Here we briefly describe the main mechanisms in the model by which vegetated
land cover impacts atmospheric chemistry.</p>
      <p>GEOS-Chem v9-02 includes the Berkeley-Dalhousie Soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
Parameterization (Hudman et al., 2012). In this parameterization, the flux
of NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> from soils is a function of temperature, soil moisture, and
emission coefficients which depend on available nitrogen and biome type.
Biomes (and basal emission coefficients) are defined according to Steinkamp
and Lawrence (2011), with 24 different land cover types. Dry spell length is
also included to account for pulsing. A canopy reduction factor is
calculated according to leaf area index (LAI), wind speed, and surface
resistance, and is designed to simulate the uptake of NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> by vegetation
following soil emission (Wang et al., 1998).</p>
      <p>Biogenic VOC emissions from vegetation are calculated using the Model of
Emissions of Gases and Aerosols from Nature (MEGAN v2.02: Guenther et al.,
2006, with updates from Sakulyanontvittaya et al., 2008). In GEOS-Chem
v9-02, mapped basal BVOC emission factors are provided as an input to the
model and are modulated online by activity factors that are a function of
temperature, LAI, photosynthetically active radiation (PAR), and average
leaf age.</p>
      <p>Dry deposition is calculated by the resistance-in-series scheme of Wesely (1989),
using a “big-leaf” approximation where the deposition surface is
treated as a single uniform surface (or leaf). Dry deposition velocities are
calculated as a combination of aerodynamic resistance (<inline-formula><mml:math display="inline"><mml:mrow><mml:msub><mml:mi>R</mml:mi><mml:mtext>a</mml:mtext></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, laminar
layer resistance (<inline-formula><mml:math display="inline"><mml:mrow><mml:msub><mml:mi>R</mml:mi><mml:mtext>b</mml:mtext></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, and surface resistance (<inline-formula><mml:math display="inline"><mml:mrow><mml:msub><mml:mi>R</mml:mi><mml:mtext>c</mml:mtext></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>. <inline-formula><mml:math display="inline"><mml:mrow><mml:msub><mml:mi>R</mml:mi><mml:mtext>a</mml:mtext></mml:msub></mml:mrow></mml:math></inline-formula> is
calculated separately for unstable, moderately stable, and very stable
atmospheric conditions, and is a function of roughness heights (which would
be a function of land cover type) that are provided by the meteorological
input data. <inline-formula><mml:math display="inline"><mml:mrow><mml:msub><mml:mi>R</mml:mi><mml:mtext>b</mml:mtext></mml:msub></mml:mrow></mml:math></inline-formula> depends on meteorological data and the identity of the
gas-phase species being deposited. The <inline-formula><mml:math display="inline"><mml:mrow><mml:msub><mml:mi>R</mml:mi><mml:mtext>c</mml:mtext></mml:msub></mml:mrow></mml:math></inline-formula> parameterization depends on
the solubility and reactivity of individual chemical compounds and on land
type according to Wesely (1989), and is scaled by LAI. Land types are
derived by the USGS global land characteristics database (<uri>http://edc2.usgs.gov/glcc/globdoc2_0.php</uri>), known also as
the Olson Land Map. Over 70 land types are represented and mapped to the 11
deposition surface types given by Wesely (1989). Aerosol deposition is also
parameterized by the resistance-in-series scheme according to Zhang et al. (2001),
with deposition to snow and/or ice as presented by Fisher et al. (2011).
Gravitational settling of dust and sea salt is described according to
Fairlie et al. (2007) and Alexander et al. (2005) respectively.</p>
      <p>As described above, the parameterizations of soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions, BVOC
emissions, and dry deposition all depend on LAI in some way. By default,
GEOS-Chem uses a MODIS-derived monthly LAI product (Myneni et al., 2007)
that is mapped to the GEOS-Chem grid (year-specific or a climatology), and
linearly interpolated to daily values.</p>
</sec>
<sec id="Ch1.S2.SS3">
  <title>Modifications to land–atmosphere exchange in GEOS-Chem</title>
      <p>Here we document the development of a land use module to describe
land–atmosphere exchange in GEOS-Chem and to facilitate simulations
involving changes in land cover and land use, such as the tree mortality
being explored here.</p>
      <p>To increase the flexibility in the BVOC emissions, basal emission factors
are now mapped at simulation initialization using input land cover data. As
a base input, we use present-day (year 2000) land cover from the Community
Land Model (CLM) v. 4 (<uri>http://www.cgd.ucar.edu/tss/clm/</uri> and
Lawrence et al., 2011). Vegetation is divided into 16 plant functional
types (PFTs, Table A1 in the Appendix) and their fractional coverage is mapped globally at a
native resolution of <inline-formula><mml:math display="inline"><mml:mrow><mml:msup><mml:mn>0.23</mml:mn><mml:mo>∘</mml:mo></mml:msup><mml:mo>×</mml:mo><mml:msup><mml:mn>0.3125</mml:mn><mml:mo>∘</mml:mo></mml:msup></mml:mrow></mml:math></inline-formula>. We incorporate
updated emission factors following MEGAN v2.1 (Guenther et al., 2012).</p>
      <p>We also eliminate the dependence of the dry deposition velocities on the
Olson Land Map. Instead, the same PFTs that drive BVOC emissions are mapped
directly to the 11 deposition types from Wesely (1989). We replace the
roughness heights provided by the assimilated meteorological product with
values that are specific to the land cover or plant functional type (Table A1).
Furthermore, rather than basing dry deposition on the dominant land
type at a certain native resolution, the complete sub-grid fractional
coverage of all PFT/land types are accounted for. In this way, deposition in
the model should be less dependent of the horizontal resolution of the
simulation or land cover data set. For soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions, we map the
same set of PFTs to the 24 biomes of Steinkamp and Lawrence (2011) based on
plant type and latitude (Fig. A1).</p>
      <p>To achieve consistency between our land type description and the LAI used in
the model, we replace the monthly MODIS-derived gridded LAI with the
sub-grid PFT-specific monthly LAI from the CLM4 land cover description, also
based on MODIS observations as well as additional cropping data (Lawrence et
al., 2011).</p>
      <p>In this way, BVOC emissions, soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions, dry deposition, and
surface roughness are all newly harmonized to the same land cover input and
vegetation density. These changes make it possible to alter the specified
PFT distributions and/or fractional coverages, and self-consistently
investigate the impact on biosphere–atmosphere exchange.</p>
</sec>
<sec id="Ch1.S2.SS4">
  <title>Impact of updates and land use harmonization on GEOS-Chem
simulation</title>
      <p>Our modifications to GEOS-Chem impact the emissions, deposition, and
simulated concentrations compared to the default model, demonstrating the
important role of land cover on atmospheric chemistry. GEOS-Chem and other
chemical transport models have previously shown a large sensitivity to land
cover data sets (Li et al., 2013) and biogenic emission models (Fiore, 2005;
Kim et al., 2014; Zare et al., 2012). Globally, we find annual emissions of
isoprene decrease by 14 % from 531 to 459 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> with
land use harmonization and updated emission factors. The emissions of some
monoterpenes decrease (e.g., <inline-formula><mml:math display="inline"><mml:mi mathvariant="italic">β</mml:mi></mml:math></inline-formula>-pinene, limonene, sabinene, and carene
by 10 % or less; ocimene by 36 %), while others increase significantly
(<inline-formula><mml:math display="inline"><mml:mi mathvariant="italic">α</mml:mi></mml:math></inline-formula>-pinene by 64 %, myrcene by 145 %). Sesquiterpene emissions
increase between 20 and 60 % depending on the species. These changes result
from the new maps of PFTs, the updated emission factors from MEGAN v2.1
(Guenther et al., 2012), and the new LAI values used. Our modified global
emissions are generally consistent with those for MEGAN v2.1 as formulated
by Guenther et al. (2012). For example, our <inline-formula><mml:math display="inline"><mml:mi mathvariant="italic">α</mml:mi></mml:math></inline-formula>-pinene emissions
increase from 40 to 66 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>, compared to 66 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> estimated
by Guenther et al. (2012). Global soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
emissions, which depend on biome mapping from the PFT data set and LAI,
decrease by 2 % compared to the default model (from 9.8 to 9.6 Tg yr<inline-formula><mml:math display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F1"><caption><p>Simulated global 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> concentrations for August 2010 in
the (top) default, and (middle) modified GEOS-Chem configuration. (Bottom)
Difference between the modified and default simulations.</p></caption>
          <?xmltex \igopts{width=199.169291pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016-f01.png"/>

        </fig>

      <?xmltex \floatpos{t}?><fig id="Ch1.F2" specific-use="star"><caption><p>Fraction of grid box covered by trees in present day (left), and the
loss in tree cover due to predicted mortality from 2013 to 2027 based on the
National Insect and Disease Risk Map (right). <bold>(a, b)</bold> Total tree
cover; <bold>(c, d)</bold> needleleaf tree cover only; <bold>(e, f)</bold> broadleaf
tree cover only.</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016-f02.png"/>

        </fig>

      <p>Figure 1 shows how all of the modifications impact predicted global monthly
mean O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentrations for August 2010. The spatial agreement between
the simulations is very high (<inline-formula><mml:math display="inline"><mml:mrow><mml:mi>r</mml:mi><mml:mo>=</mml:mo><mml:mn>0.99</mml:mn></mml:mrow></mml:math></inline-formula>), suggesting that our modifications
have not resulted in significant changes to predicted O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>. While the changes
that we made to the model were not in principle intended to improve the
accuracy of the GEOS-Chem O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> simulation (rather the priority was to more
easily enable land-cover change experiments), the updated land cover data and
the new consistency in the descriptions modestly improve the spatial
correlation (from <inline-formula><mml:math display="inline"><mml:mrow><mml:mi>r</mml:mi><mml:mo>=</mml:mo></mml:mrow></mml:math></inline-formula> 0.54<inline-formula><mml:math display="inline"><mml:mrow><mml:mi>i</mml:mi><mml:mi>n</mml:mi><mml:mi>t</mml:mi><mml:mi>h</mml:mi><mml:mi>e</mml:mi><mml:mi>d</mml:mi><mml:mi>e</mml:mi><mml:mi>f</mml:mi><mml:mi>a</mml:mi><mml:mi>u</mml:mi><mml:mi>l</mml:mi><mml:mi>t</mml:mi><mml:mi>m</mml:mi><mml:mi>o</mml:mi><mml:mi>d</mml:mi><mml:mi>e</mml:mi><mml:mi>l</mml:mi><mml:mi>t</mml:mi><mml:mi>o</mml:mi></mml:mrow></mml:math></inline-formula>r=<inline-formula><mml:math display="inline"><mml:mn> 0.56</mml:mn></mml:math></inline-formula> in the modified model) between the simulated and gridded monthly mean
O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> observed over North America, Europe, and other locations worldwide
(Evans and Sofen, 2015) for the whole year. The modifications tend to
decrease the high O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentrations at midlatitudes of the Northern and
Southern hemispheres. In particular, the high summer bias in monthly mean
O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> drops by 0.5–0.9 ppb (e.g., from RMSE <inline-formula><mml:math display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula>15.6–14.8 in August)
while making little difference to winter month O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> (RMSE changed by
&lt; 0.3 ppb).<?xmltex \hack{\newpage}?></p>
</sec>
</sec>
<sec id="Ch1.S3">
  <title>Predicted tree mortality in the United States</title>
      <p>To simulate national-scale tree mortality across the US, we use projected
tree mortality rates from the 2012 National Insect and Disease Risk Forest
Risk (NIDR) Assessment for 2013–2027, assembled by the Forest Health
Technology Enterprise Team of the United States Department of Agriculture
Forest Service (Krist et al., 2014). This assessment includes results from
186 individual insect and disease hazard models. We gridded the 240 m
spatially resolved total tree mortality data
(<uri>http://www.fs.fed.us/foresthealth/technology/nidrm.shtml</uri>) to the native
resolution of the new GEOS-Chem land input file (<inline-formula><mml:math display="inline"><mml:mrow><mml:msup><mml:mn>0.23</mml:mn><mml:mo>∘</mml:mo></mml:msup><mml:mo>×</mml:mo><mml:msup><mml:mn>0.31</mml:mn><mml:mo>∘</mml:mo></mml:msup></mml:mrow></mml:math></inline-formula>) and focused on the conterminous United States. We use these
data to contrast atmospheric chemistry before vs. after the change in tree
cover.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T1" specific-use="star"><caption><p>Descriptions of the individual simulations used here to test the impacts of large-scale tree mortality.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="2">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:thead>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1">Simulation</oasis:entry>  
         <oasis:entry colname="col2">Description</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">1</oasis:entry>  
         <oasis:entry colname="col2">Base land cover simulation (no tree mortality)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">2</oasis:entry>  
         <oasis:entry colname="col2">Tree mortality-driven BVOC emissions (soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and dry deposition using base land cover)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">3</oasis:entry>  
         <oasis:entry colname="col2">Tree mortality-driven BVOC and soil NOx emissions (dry deposition using base land cover)</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">4</oasis:entry>  
         <oasis:entry colname="col2">Tree mortality-driven emissions and dry deposition.</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

      <?xmltex \floatpos{t}?><fig id="Ch1.F3" specific-use="star"><caption><p>Mean JJA (June-July-August) biogenic VOC emissions in the base
scenario (left), and the change in emissions resulting from predicted tree
mortality (right). <bold>(a, b)</bold> Isoprene emissions; <bold>(c, d)</bold> total
monoterpene emissions; <bold>(e, f)</bold> total sesquiterpene emissions.</p></caption>
        <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016-f03.png"/>

      </fig>

      <p>Figure 2 shows the default fractional area covered by the sum of all tree
PFT categories, and the resulting loss in tree-covered fractions due to
projected mortality after applying the fractional loss from the NIDR. We
applied mortality losses predicted by the NIDR to all tree species in a
particular input grid box, instead of accounting for losses specific to one
plant functional type only. The magnitude and spatial distribution of tree
loss is qualitatively consistent with the agent- and species-specific
summaries in the NIDR assessment (Krist et al., 2014), since certain PFT
categories usually dominate in specific regions or grid boxes. We briefly
summarize the major agents driving projected mortality in the NIDR
assessment here. In the western US, insects causing evergreen mortality
include the mountain, western, and Jeffrey pine beetles, spruce and Douglas
fir beetles, the Douglas fir tussock moth, and the Western spruce budworm.
In the east, insect-driven evergreen mortality is driven by the Eastern
spruce and Jack pine budworm and hemlock woolly adelgid in the north, and
the southern pine beetle in the south. Engraver beetles and the balsam
woolly adelgid affect evergreens in both the west and east. Deciduous tree
mortality is large in the northeast and eastern US, where oak and maple
decline is high. Deciduous tree mortality by diseases such as beech bark,
oak wilt, and Dutch elm is also large. Aspen and cottonwood declines are
significant in the western US and Great Plains. While root diseases, which
impact both needleleaf and broadleaf tree categories, represent the largest
single agent-level hazard, the impact of all bark beetles together are
projected to cause the highest basal area losses (Krist et al., 2014).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F4" specific-use="star"><caption><p>Mean JJA soil 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 base scenario for (left), and
the change in emissions resulting from predicted tree mortality (right).</p></caption>
        <?xmltex \igopts{width=398.338583pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016-f04.png"/>

      </fig>

</sec>
<sec id="Ch1.S4">
  <title>Impact of tree mortality on atmospheric chemistry in the US</title>
      <p>We perform four simulations (Table 1) to investigate the role of insect- and
disease-driven tree mortality on atmospheric chemistry: (1) a base scenario
in which the vegetation is not altered; (2) a scenario where the BVOC
emissions respond to the scaled tree cover, but where soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and dry
deposition are calculated using the land cover in the base scenario; (3) a
scenario where the BVOC and soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions respond to the scaled
tree cover, but where dry deposition is calculated using the land cover in
the base scenario; and (4) a full tree mortality scenario where the BVOC
emissions, soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions, and dry deposition are all calculated
using the scaled tree cover. The combination of these simulations allows us
to decouple the effects of changing BVOC and soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions from
the effects of changing deposition. We focus our analysis on June–August
since this is the seasonal peak in impacts of changes in biogenic emissions
on 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 SOA formation across the United States.</p>
<sec id="Ch1.S4.SS1">
  <title>Impacts on biogenic emissions and on deposition velocity</title>
      <p>Figure 3 shows the simulated emissions of isoprene, total monoterpenes, and
total sesquiterpenes, and the change in emissions due to tree mortality. The
impact to total emissions across the US is a 6–7 % decrease for isoprene,
monoterpenes, and sesquiterpenes, with much larger impacts locally. Over the
continental US, isoprene emissions are projected to decrease by more than
5 % for more than 25 % of the model grid boxes (762 out of a total of
2693). The highest relative impact to isoprene emissions occurs in the Rocky
Mountain forests of the northwestern US, where mortality is projected to be
high. For example, the largest relative decrease occurs in Idaho
[46.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 115.3<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W] where isoprene emissions decrease by
47 % (1.8 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>mol m<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> h<inline-formula><mml:math display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, compared to the base simulation.
These pine-, spruce-, and fir-dominated forests of the northwest are
relatively low isoprene emitters compared to the deciduous forests of the
eastern US. The reduction in mean OH reactivity due to tree
mortality-induced isoprene changes in the northwest is <inline-formula><mml:math display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn>0.2</mml:mn></mml:mrow></mml:math></inline-formula>–0.5 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> at most. In the oak-dominated Ozarks of Arkansas and
Missouri [<inline-formula><mml:math display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn>36</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 92<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W], and the central
Appalachian region [<inline-formula><mml:math display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn>38</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 81<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W],
baseline isoprene emissions are an order of magnitude higher; the
corresponding reduction in mean OH reactivity due to tree mortality-induced
isoprene changes exceeds 3 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>. The highest absolute impact of
mortality on isoprene emissions occurs at the border of West Virginia and
Virginia [38.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 80.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W], where emissions decrease by
8.6 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>mol m<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> h<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> (relative decrease of 26 %).</p>
      <p>Likewise, the highest relative impacts to total monoterpene and total
sesquiterpene emissions occur in the Rocky Mountain forests of the western
and northwestern US (the largest relative decrease occurs in Colorado
[38<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 106.7<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W] where the monoterpene and
sesquiterpene emissions decrease by 48–50 %). Significant relative impacts
are also predicted in the pine forests of the Sierra Nevada (10–20 %). In
terms of absolute magnitude, the difference in monoterpene and sesquiterpene
emissions is largest in pine-dominated forests of the southern US. The
highest absolute impacts in the country occur in eastern Texas
[31.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 94.7<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W] where the monoterpene emissions
decrease by 1.4 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>mol m<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> h<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> (or 22 %), and in Arkansas
[33.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 92.7<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W] where sesquiterpene emissions decrease
by 0.4 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>mol m<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> h<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> (or 18 %) compared to the base
simulation.</p>
      <p>Figure 4 shows the baseline emissions of NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> from soils and the
simulated change resulting from tree mortality. The highest soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>
emissions occur in the central US where crops contribute significantly to
the land cover. Soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions are also appreciable in the
needleleaf evergreen forests of the northwest and southern US. These forests
map to biomes with high NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emission factors (about four times greater
than for deciduous biomes), resulting in baseline emissions approaching
several <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>mol m<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> h<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>. The relative impact of tree mortality
on soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions exceeds 10 % in some of these areas (the
largest relative difference occurs in western Montana [46<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N,
115.3<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W] where soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions increase by 15 %). In
projecting changes to soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions, we allow the canopy reduction
factor to respond to changes in LAI, but we assume that the tree mortality
does not impact the basal soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emission factors (nor soil
temperature or moisture). The increase in net emission therefore arises from
a decrease in canopy reduction factor only, representing the impact of less
NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:math></inline-formula> uptake by the canopy before export into the lower mixed layer. A
better understanding of the canopy reduction factor, and accounting for
canopy chemistry, would facilitate a more thorough assessment of these
projected increases in soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F5" specific-use="star"><caption><p>Mean JJA O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> deposition velocity in the base scenario (left),
and the change in deposition velocity resulting from predicted tree mortality
(right).</p></caption>
          <?xmltex \igopts{width=398.338583pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016-f05.png"/>

        </fig>

      <p>Figure 5 shows the dry deposition velocity 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> in the baseline
scenario, and the simulated change resulting from tree mortality. In the
northeast, where deciduous forests dominate and vegetation is dense, O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>
deposition velocities are highest (0.6–0.7 cm s<inline-formula><mml:math display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, whereas the
deposition velocity over needleleaf forests is lower
(0.3–0.4 cm s<inline-formula><mml:math display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>. Lowest deposition velocities occur over the arid
and sparsely vegetated regions of the country. Where projected tree mortality
is high, O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> deposition velocity decreases by up to 0.08 cm 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>
due to reduced stomatal uptake and change in roughness height. The highest
absolute impact occurs in the eastern US, along the border of Virginia and
West Virginia [38.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 80.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W]. On a relative basis the
impact is largest in the northwest (deposition velocity in northern Idaho
[47.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 116.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W] decreases by 16 %, or
0.06 cm s<inline-formula><mml:math display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>. Spatially, the impact on the deposition velocity for
other constituents is similar. For example, the deposition velocity of
HNO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> (which is largely limited by aerodynamic resistance instead of
surface resistance as in the case for 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> also decreases in the same
regions due to the change in roughness heights in the tree mortality
scenario. In this case, decreases in HNO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> deposition velocity exceeding
20 % are predicted in the northwest and eastern US.</p>
</sec>
<sec id="Ch1.S4.SS2">
  <title>Impacts on surface ozone concentrations</title>
      <p>Figure 6a shows the June-July-August 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> concentrations
simulated in the base scenario (Simulation 1). The high concentrations in
the western US are consistent with previous work and are a consequence of
the elevation and the dry climate resulting in a deep boundary layer and
slow deposition velocities (Fiore et al., 2002; Wu et al., 2008). High
concentrations are also simulated in the eastern US. Figure 6b shows the
change in simulated O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentrations as a result of changes in BVOC
and soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions in a tree mortality scenario where deposition is
calculated using baseline land cover (Simulation 3 – Simulation 1). Changes
in soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions alone increase O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> slightly (Simulation 3 –
Simulation 2), but this response is an order of magnitude smaller (or less)
than the response to decreased BVOC emissions. The result is a net decrease
in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> on the order of 0.2–0.4 ppb across a large area of the eastern US
and in parts of the northwest and California. The largest change occurs in
eastern Texas [32.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 94.7<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W] where mean O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>
decreases by 0.44 ppb. Concentrations increase slightly over the Ozarks of
Arkansas and Missouri [<inline-formula><mml:math display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn>36</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 92<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W] and
the Appalachian region in West Virginia [<inline-formula><mml:math display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn>38</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N,
81<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W].</p>
      <p>Figure 6c shows the simulated change in 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> due to tree
mortality including the impact of changes to dry deposition (Simulation 4 –
Simulation 1). The increase in concentrations due to slower deposition
velocities counteracts the decrease in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentrations that result
from changes in BVOC emissions alone. In some regions these influences are
predicted to be roughly equal so that the net change in 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 close to
zero. However, in many parts of the country including the northeast (e.g.,
Vermont, New Hampshire, and Maine), and the northwest (northern Idaho and
western Montana), the predicted change in deposition is large compared to
the change from emissions alone, resulting in net increases to O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>
approaching 1 ppb or greater. Over the central Appalachian region (most
notably West Virginia) and Ozarks the predicted change including dry
deposition is also very large compared to the small increase from emissions
alone. The highest increase in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> occurs at the tristate intersection
of Kentucky, West Virginia and Virginia [37.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 82.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W],
where mean 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 1.4 ppb higher than in the base simulation. The
substantial effect of slower dry deposition underscores the importance of
understanding canopy deposition and the potential impact of canopy processes
on chemical losses in predictions of land cover change impacts. Given the
influence of changes in dry deposition in our simulations, exploring the
uncertainties in dry deposition calculations should be a priority for model
development.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F6"><caption><p>Top: mean JJA 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> concentrations in the base simulation
(Simulation 1). Middle: the change in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentrations resulting from
mortality-driven changes in emissions only (Simulation 3 – Simulation 1).
Bottom: the change in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentrations resulting from mortality-driven
changes in emissions and deposition velocity together (Simulation 4 –
Simulation 1).</p></caption>
          <?xmltex \igopts{width=236.157874pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016-f06.png"/>

        </fig>

      <p>Since regions where the impact on tree cover is largest are heavily forested
and removed from pollution sources, they tend to have relatively low
NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> concentrations. In such situations, O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> production is expected
to be NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>-limited so that decreases in VOC emissions weakly impact
O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> formation. This is the case over the central Appalachian and Ozarks
regions, where NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> concentrations are below 1 ppb and BVOC emissions
decreased by 10–20 %, but where 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 minimally impacted in the
scenario with altered emissions only (Fig. 6b). In these forest
environments, the change to dry deposition velocity will be the dominant
mechanism impacting O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentrations, and indeed we find 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>
increases when all mechanisms are considered (Fig. 6c). On the other hand,
in high-NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (or polluted) regions, O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> production can be expected
to be more sensitive to changes in VOC emissions, and since these areas tend
to be more developed, deposition plays a smaller role. As a result, in the
scenario considering only changes in emissions we find that the predicted
impact to O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentrations is relatively large in the heavily
populated regions along the coast of the mid-Atlantic (Fig. 6b, <inline-formula><mml:math display="inline"><mml:mrow><mml:mo>∼</mml:mo><mml:mn>40</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 74<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W).</p>
      <p>In general, we find that the ratio of NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> to VOC concentrations (ppb 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> ppb C)
in a grid box can explain some of the O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> response to
changes in tree cover across the US, despite varying degrees of predicted
land cover change. Figure 7 shows histograms of the change in 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> concentrations for two populations of grid boxes that had changes in
isoprene emissions of at least 0.1 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>mol m<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> h<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> (<inline-formula><mml:math display="inline"><mml:mrow><mml:mi>N</mml:mi><mml:mo>=</mml:mo><mml:mn>1115</mml:mn></mml:mrow></mml:math></inline-formula> grid boxes from a total of 2693 grid boxes in the continental US).
These two distributions (<inline-formula><mml:math display="inline"><mml:mrow><mml:mi>N</mml:mi><mml:mo>=</mml:mo><mml:mn>111</mml:mn></mml:mrow></mml:math></inline-formula> in both) are grid boxes with the lowest
10 % NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC concentrations in the base scenario, and grid boxes with
the highest 10 % NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC concentrations in the base scenario. These
distributions are statistically different (<inline-formula><mml:math display="inline"><mml:mrow><mml:mi>p</mml:mi><mml:mspace linebreak="nobreak" width="0.125em"/><mml:mi mathvariant="italic">&lt;</mml:mi><mml:mn> 0.001</mml:mn></mml:mrow></mml:math></inline-formula>, Wilcoxon
rank-sum test), and represent the general pattern of impact on “clean” and
“polluted” regions respectively. The top panel displays results based on
the scenario where only biogenic emissions change (Simulation 3 –
Simulation 1). Grid boxes with the highest NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> to VOC ratios tend
towards stronger changes in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentrations than the grid boxes with
lowest NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> to VOC ratios. This suggests more generally that in addition
to the extent of land cover change, the impacts of tree mortality on O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>
can depend on whether the conditions are NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>-limited (low NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC)
or VOC-limited (high NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC). This NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>-dependence of the regional
chemistry impacts resulting from land system changes has also been
identified by Wiedinmyer et al. (2006) and Hardacre et al. (2013) for
example. The bottom panel displays the results based on the scenario where
changes to biogenic emissions and dry deposition are accounted for
(Simulation 4 – Simulation 1). Here we find that the change in 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
more frequently positive (increasing O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> compared to the base scenario)
in the low NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC grid boxes, since the deposition response tends
to be large compared to the impact of emissions. In contrast, while slower
deposition counteracts some of the decrease in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentrations in the
more polluted grid boxes, the net impact remains largely negative
(decreasing O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> compared to the base scenario).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F7"><caption><p>Probability distributions of the change in JJA 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>
concentrations as a result of tree mortality for grid boxes with low
(&lt; 10th percentile) baseline NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC emission ratios and
high (&gt; 10th percentile) baseline NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC emission
ratios. Top: results from mortality-driven changes in emissions only
(Simulation 3 – Simulation 1). Bottom: results from mortality-driven changes
in emissions and deposition combined (Simulation 4 – Simulation 1).</p></caption>
          <?xmltex \igopts{width=170.716535pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016-f07.png"/>

        </fig>

      <?xmltex \floatpos{t}?><fig id="Ch1.F8" specific-use="star"><caption><p>Left: mean JJA mixing ratios of reactive nitrogen oxides in the base
scenario (Simulation 1). Right: the relative changes as a result of predicted
tree mortality (Simulation 4 – Simulation 1). <bold>(a, b)</bold> Total
NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>y</mml:mi></mml:msub></mml:math></inline-formula>; <bold>(c, d)</bold> NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>; <bold>(e, f)</bold> HNO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>; and
<bold>(g, h)</bold> the sum of all alkyl-, peroxy-, and acylperoxy-nitrates.</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016-f08.png"/>

        </fig>

      <p>The changes in monthly mean ozone mask even larger impacts on shorter
timescales (hours) that may be of importance to air quality standards. The
magnitude of the impact on 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> in the scenario that considered
changes to both emissions and deposition is highest during the day and less
significant at night due to the diurnal pattern of chemical O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>
production and biogenic emissions, and to the strong dependence of modeled
deposition velocities on time of day. As a result, the number of days with
O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> above a specific threshold changes in many locations depending on the
land cover scenario. We consider for example daily maximum 8 h averages. The
EPA has recently revised the O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> air quality standard to be based on 8 h
averages exceeding a threshold of 70 ppb instead of the previous 75 ppb
(<uri>http://www3.epa.gov/ttn/naaqs/standards/ozone/s_o3_index.html</uri>), so we
investigate the number of days during June-July-August in each grid box of
the US where the 8 h average O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> exceeds 70 ppb. In the scenario
considering only a change in emissions (Simulation 3 – Simulation 1), the
number of days exceeding an 8 h O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentration of 70 ppb decreases
in 16 % of the grid boxes in the lowest NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC decile
(“clean” regions of the US), and in 45 % of the grid boxes in the
highest NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC decile (“polluted” regions of the US). Across the
US, the number of exceedances decreases by 4 or more days in several regions
such as central South Carolina (34.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 81.3<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W), central
Kentucky (37.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, <inline-formula><mml:math display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn>86.0</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W), central Indiana
(38.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, <inline-formula><mml:math display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn>90.7</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W), northern Ohio (41.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N,
83.3<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W), and southwest Michigan (42.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N,
71.3<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>20 W). In the scenario considering both the change in biogenic
emissions and also the change to deposition rates (Simulation 4 –
Simulation 1), many grid boxes experience a net increase in the number of
days exceeding an 8 h O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentration of 70 ppb. The increase impacts
clean regions disproportionately (30 % of lowest NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC grid
boxes) compared to polluted regions (5 % of high NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC grid
boxes). The largest increase is 4 days, which occurs north of Richmond, VA
(38.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 77.3<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W). In the same scenario, less than 1 %
of the low NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC grid boxes experiences a decrease in the number of
days exceeding an 8 h O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> concentration of 70 ppb, compared to 26 % of the high NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> : VOC grid boxes.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F9" specific-use="star"><caption><p>Left: mean JJA biogenic-SOA surface mass concentrations in the base
scenario (Simulation 1). Right: the change in biogenic-SOA mass as a result
of predicted tree mortality (Simulation 4 – Simulation 1).</p></caption>
          <?xmltex \igopts{width=398.338583pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016-f09.png"/>

        </fig>

</sec>
<sec id="Ch1.S4.SS3">
  <title>Impacts on reactive nitrogen oxide compounds</title>
      <p>Figure 8 shows the mixing ratios of reactive nitrogen oxides in the base
scenario (Simulation 1), and the simulated changes resulting from tree
mortality (Simulation 4 – Simulation 1) on a relative scale (% change).
We plot the results for the sum of all reactive nitrogen oxides (NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>y</mml:mi></mml:msub></mml:math></inline-formula>,
Fig. 8a), in addition to the individual contributions from NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (Fig. 8c),
HNO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> (Fig. 8e) and the sum of all alkyl-, peroxy-, and
acylperoxy-nitrates (or “organic nitrates”, Fig. 8g). We find that the
relative impacts on NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>y</mml:mi></mml:msub></mml:math></inline-formula> and its partitioning as a result of the tree
mortality could be locally significant, and are a complex result of all
three mechanisms (changes in BVOC emissions, changes in soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, and
changes to the deposition velocities), depending on the chemical species.
Total NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>y</mml:mi></mml:msub></mml:math></inline-formula> increases by up to 8 % in the northwest (the largest
relative increase of 120 ppt is along the Idaho-Montana border
[47.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 115.3<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W]). The increases here consist of
roughly equal increases in NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> (79 ppt) and HNO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> (66 ppt) mixing
ratios with a smaller decrease in organic nitrates (29 ppt). Over the rest
of the country, changes in total NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>y</mml:mi></mml:msub></mml:math></inline-formula> are small, in part because the
increases in NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> and HNO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> are counteracted by decreases in organic
nitrate species. Significant changes in NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> abundance and NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>y</mml:mi></mml:msub></mml:math></inline-formula>
partitioning could alter the transport and removal 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> precursors,
and alter the peroxy radical chemistry involved in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> production.</p>
      <p>We find that the increases in NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> are largely a result of elevated soil
NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions (Simulation 3 – Simulation 1). On the other hand, the
increases in HNO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>, which are up to 18 % on a relative scale, are due
to both slower deposition and increasing soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions (Simulation 4 –
Simulation 1). Small increases in HNO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> (locally up to 3–4 %) are
also observed in the BVOC emissions only scenario (Simulation 2 –
Simulation 1). Broad decreases in the organic nitrate concentrations
(approaching 10 %) are found across large parts of the country. This
result is nearly entirely due to the reduction in BVOC emissions alone, with
only a small counteracting effect of lower deposition velocities. For
example, where the relative impact was largest (a 10 % decrease near
Missoula MT [47<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 114.7<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W]), the decrease from the
BVOC emissions alone is 36 ppt, while the decrease after accounting for dry
deposition and soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions is 29 ppt.</p>
</sec>
<sec id="Ch1.S4.SS4">
  <title>Impacts on organic aerosol</title>
      <p>Figure 9a shows the predicted biogenic SOA (BSOA) surface mass
concentrations in the base simulation (Simulation 1). The dominant
contributors to BSOA over the United States in these simulations are
terpenes, consistent with the results of Pye et al. (2010). This results
from nitrate radical oxidation included in the SOA mechanism, since terpenes
are emitted at night (in addition to during the day) and model aerosol
yields from nitrate oxidation are relatively high. The baseline simulation
predicts BSOA greater than 3 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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> throughout most of the
southeast US, approaching 10 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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> near the Mississippi–Alabama
and Missouri–Arkansas borders. Biogenic SOA contributes 80 % or more of
the modeled total OA mass concentration in this region and season. In parts
of the northeast and on the west coast, BSOA can also exceed 3 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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>
and the model predicts the biogenic contribution to total organic
aerosol to exceed 50 % there. In the northwest, BSOA approaches 1–2 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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>.</p>
      <p>Figure 9b shows the change in BSOA predicted due to tree mortality
(Simulation 4 – Simulation 1). In contrast to 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 NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>y</mml:mi></mml:msub></mml:math></inline-formula> species
(where the relative importance of deposition and chemical production could
vary), the simulation predicts consistent decreases in BSOA from the tree
mortality scenario as a result of decreasing BVOC emissions. The change in
atmospheric lifetime as a result of slower dry deposition is negligible
(Simulation 4 – Simulation 3). Across the eastern US, BSOA decreases by
5–10 %. The relative impacts are highest where terpene emissions are
significant and projected tree mortality is high due to the dominance of
terpenes as precursors to BSOA in these simulations. The impact on BSOA due
to tree mortality generally exceeds 10 % where the contributions of
terpene emissions represent 50 % or more of total BVOC emissions (in mass
carbon). The spatial pattern in <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">Δ</mml:mi></mml:math></inline-formula>BSOA corresponds most to the
relative contribution of the lumped MTPA category of terpenes (<inline-formula><mml:math display="inline"><mml:mi mathvariant="italic">α</mml:mi></mml:math></inline-formula>-pinene <inline-formula><mml:math display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mi mathvariant="italic">β</mml:mi></mml:mrow></mml:math></inline-formula>-pinene <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> sabinene <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> carene). In some parts of the
southeast the change exceeds 25 % (1–2 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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> in terms of
absolute mass). The largest absolute impact occurs in southern Arkansas
[33.5<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N, 92.7<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W], where BSOA decreases by
2.0 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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> (or 20 %). The relative impact is also high in the northwest,
where BSOA decreases by 0.5–1 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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 highest relative
difference of 39 % occurs in northern Idaho [46.0<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N,
115.3<inline-formula><mml:math display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W]).</p>
      <p>Given the dominance of BSOA in much of the US, these changes appreciably
impact total OA (and consequently total aerosol mass). Relative impacts to
the sum of all organic aerosol are on the order of 20 % or greater in many
parts of the south, northwest, and northern California. These simulations
suggest that tree mortality and the concomitant change in biogenic emissions
has the potential to impact background aerosol levels by up to
2 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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> in some regions. This may be of particular relevance to the EPA
Regional Haze Program, aimed at improving visibility in national parks and
wilderness areas (<uri>http://www3.epa.gov/visibility/program.html</uri>).</p>
</sec>
</sec>
<sec id="Ch1.S5">
  <title>Discussion</title>
      <p>In this study we develop and apply a land use module for GEOS-Chem to
demonstrate that projected tree mortality in the coming decades could impact
air quality across the US. We find that the changes in BVOC emissions, soil
NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions, and dry deposition can impact O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> mixing ratios,
reactive nitrogen oxide speciation and abundance, and biogenic secondary
organic aerosol formation. The magnitude of change in mean O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> (<inline-formula><mml:math display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn>0.4</mml:mn></mml:mrow></mml:math></inline-formula>
to <inline-formula><mml:math display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula>1.4 ppb depending on the simulation) and SOA (up to
<inline-formula><mml:math display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn>2.0</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<inline-formula><mml:math display="inline"><mml:mrow><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:msup><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> in some grid boxes is similar to regional changes predicted by
examples of biofuel cropping or natural succession scenarios (Ashworth et
al., 2012; Porter et al., 2012; Drewniak et al., 2014), and comparable with the
tree mortality effect from past bark beetle infestations simulated in
western North America by Berg et al. (2013).</p>
      <p>In the case 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>, we find that lower deposition velocities resulting
from the change in tree cover could reverse the impact of decreased chemical
production. This produces regional variability in the sign of the O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula>
response depending on which effect dominates locally. Generally, our
simulations predict that high levels 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> could be exacerbated in the
low-NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula>, densely forested areas where mortality is projected to be
high. This increase in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> could have further feedbacks given the
documented negative effect 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> on forest health (Ashmore, 2005;
Taylor et al., 1994). Using the number of days when 8 h O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> exceeds 70 ppb,
we find that tree mortality generally reduces the number of exceedances
for high-NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> environments.</p>
      <p>Our simulations also predict large impacts on organic aerosol. While the
exact yields and SOA composition are uncertain (Hallquist et al., 2009) and
depend on the SOA model used, the post-disturbance impact is a robust and
direct response to a reduction in biogenic emissions (and is not sensitive
to changes in deposition). Similar to the reduction in O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> that favors
polluted regions, the projected tree mortality could decrease background
aerosol levels by up to 1–2 <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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> locally, inadvertently making
progress in other air quality objectives (e.g., long-term visibility at
national parks and wilderness areas where mortality is in some cases
projected to be high).</p>
      <p>These results do not account for changes in anthropogenic emissions that may
occur over the same period of time as the changes to vegetation. We
therefore performed a subsequent test where the same land cover change was
applied, using anthropogenic emissions from 2005 (instead scaling the
emissions to 2010 as was performed for Simulations 1–4). Between 2005 and
2010, modeled anthropogenic emissions of 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> over the
continental US decreased by 30 and 44 % respectively. Despite this
large perturbation in anthropogenic emissions, the predicted impacts due to
the land cover change were fundamentally the same. The range of impact on
simulated mean O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> over the US due to both emissions and dry deposition
combined (Simulation 4 – Simulation 1) went from <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">Δ</mml:mi></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>
[<inline-formula><mml:math display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn>0.24</mml:mn><mml:mo>,</mml:mo><mml:mspace width="0.25em" linebreak="nobreak"/><mml:mo>+</mml:mo></mml:mrow></mml:math></inline-formula>1.45] ppb for the 2010 emissions, to <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">Δ</mml:mi></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:mo>[</mml:mo><mml:mo>-</mml:mo><mml:mn>0.34</mml:mn><mml:mo>,</mml:mo><mml:mspace width="0.25em" linebreak="nobreak"/><mml:mo>+</mml:mo><mml:mn>1.35</mml:mn></mml:mrow></mml:math></inline-formula>] ppb
for the 2005 emissions. Likewise, the maximum impact on SOA
changed very little, from <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">Δ</mml:mi></mml:math></inline-formula>BSOA <inline-formula><mml:math display="inline"><mml:mrow><mml:mo>=</mml:mo><mml:mo>-</mml:mo><mml:mn>2.05</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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> in the
2010 simulation, to <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">Δ</mml:mi></mml:math></inline-formula>BSOA <inline-formula><mml:math display="inline"><mml:mrow><mml:mo>=</mml:mo><mml:mo>-</mml:mo><mml:mn>1.94</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math display="inline"><mml:mi mathvariant="normal">µ</mml:mi></mml:math></inline-formula>g m<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> in the 2005
simulation. Nevertheless, simultaneous changes in both anthropogenic and
biogenic emissions increase the uncertainty in the exact magnitude of
projected changes in secondary pollutants.</p>
      <p>Many opportunities exist for development and incorporating further
complexity. For example, these simulations have not accounted for the
temporal dynamics of forests undergoing disturbances from insect attack and
disease. In the case of insect infestation, VOC emissions can be enhanced
during the attack (Amin et al., 2012), and Berg et al. (2013) found that the
spatiotemporal patterns in tree mortality can greatly affect the relative
impacts of the attack effect vs. the mortality effect on BVOC emissions.
Numerous compounds have been observed to be emitted by trees when under
stress (Faiola et al., 2015; Joutsensaari et al., 2015) that GEOS-Chem does
not yet represent. Not only have we compared simple “pre-” and “post-”
disturbance scenarios ignoring attack effects, but we have not considered
forest succession. Extensive mortality caused by insects and disease may be
compared to forest fires (Hicke et al., 2012), with growth of surviving
trees and understory potentially accelerating (Brown et al., 2010). In such
cases, BVOC emissions may not necessarily decrease universally, but the
composition of those emissions could change over time. Forest recovery after
an outbreak may be possible within decades, as has been predicted in the
case of bark beetle outbreak in the western US using a forest vegetation
simulator (Pfeifer et al., 2011). Successional dynamics could for example be
simulated by an individual-based model (e.g., Shuman et al., 2014), and used
as inputs at various time points in the chemical transport model. We have
also assumed that basal BVOC emission factors for the surviving vegetation
are the same as pre-disturbance, but experiments have shown for example that
monoterpene basal emission can increase significantly after forest thinning
(Schade and Goldstein, 2003), which may or may not be a temporary effect.</p>
      <p>Improvements in the parameterization 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> deposition should also be
explored. While we find changes in dry deposition velocity to be an
important (and in the majority of cases overriding) factor in our simulation
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> change, other hypothetical simulations where European crop- and
grass-lands were converted to poplar plantations for biomass production
found that changes from altered dry deposition velocity were an order of
magnitude lower than the change in biogenic emissions (Beltman et al.,
2013). Dry deposition rates can depend strongly on the choice of model
(Hardacre et al., 2015; Park et al., 2014; Wu et al., 2011), making
predictions that depend on this uncertain. Improvements can be expected by
more accurate representations of land cover (and subsequent changes)
(Hardacre et al., 2015), or by including a more process-based model of
deposition that depends on soil moisture and vapor deficit (Büker et
al., 2012; Pleim et al., 2001). There is also evidence that a significant
fraction of the O<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:math></inline-formula> uptake observed over forest canopies is actually an
unaccounted for chemical sink (Kurpius and Goldstein, 2003; Rannik et al.,
2012; Schade and Goldstein, 2003; Wolfe et al., 2011), but changes in this
above-canopy chemistry are not captured in our current set of simulations.</p>
      <p>Likewise, canopy chemistry and stand development post-disturbance will
affect the predicted impacts on soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions. The impacts of
canopy uptake and canopy chemistry resulting from changes in vegetation
density and composition could be explored in more detail with future work
using a 1-D forest canopy-chemistry model (e.g., Wolfe, 2011; Ashworth et al.,
2015) for the regions where we project large impacts. We have assumed that
the basal emissions from the soil after the disturbance will be the same as
those prior to the disturbance, but large-scale tree mortality and forest
succession have the potential to alter soil biogeochemistry (Gao et al., 2015;
Norton et al., 2015; Trahan et al., 2015).</p>
      <p>We anticipate the impacts of tree mortality that are simulated here to be
conservative. Future climate change is not included in the NIDR assessment,
but is expected to increase the risk of mortality from several pests (Krist
et al., 2014). Likewise, insect attack could make some tree species more
sensitive to climate stresses, resulting in mortality despite what might
have been an otherwise non-lethal insect attack (Anderegg et al., 2015).
Predictions over the timescale of years and decades will depend on how the
insect and/or disease disturbances interact with other abiotic environmental
disturbances (e.g., drought, extreme heat), but these interactions are rarely
fully coupled (Anderegg et al., 2015). Furthermore, tree mortality from many
other factors outside of pests and pathogens are not considered (e.g.,
competition from invasive exotic plants, drought, or other disturbances). As
a result, the actual tree loss in the coming decades, and the concomitant
impacts on atmospheric chemistry, may be higher than simulated here. We have
also ignored any potential feedback between tree mortality and fire
incidence or severity, which is not well understood (Bond et al., 2009).
Increases in wildfire (and associated emissions) due to climate change have
been predicted to have important consequences for ozone air quality (Yue et
al., 2015). Finally, our simulations only explored tree mortality across the
United States. No similar large-scale projection of mortality risk exists
for Canada, despite insect outbreak already being the dominant cause of tree
mortality in boreal forests of eastern Canada (Zhang et al., 2014), and
severe (although decreasing) mountain pine beetle infestations in western
Canada (Buston and Maclachlan, 2014). Increasing insect outbreaks are also a
potential threat to forests elsewhere in the world (Lindner et al., 2010). We
note that our simulations neglect any potential human intervention in
response to these risks.
<?xmltex \hack{\newpage}?></p>
</sec>
<sec id="Ch1.S6" sec-type="conclusions">
  <title>Conclusions</title>
      <p>Land use and land cover change is expected to be a major driver of global
change that remains difficult to constrain. The change in vegetation that we
have explored in these simulations represents one of a myriad of changes
that are occurring (and are projected to occur) to the Earth's land surface.
We anticipate that these GEOS-Chem model developments will enable
investigation of a wide range of land cover and land use change impacts
(e.g., vegetation succession, deforestation or afforestation, and crop
conversions). Properly representing changes in land cover by including
accurate and timely updates to chemical transport models will be an
important part of simulating global change. By linking all terrestrial
biosphere exchange to plant functional type, our GEOS-Chem developments
bring the model a step closer to eventual coupling with dynamic vegetation
and/or Earth system models.</p>
      <p>Our results add to the literature demonstrating that changes to vegetation
can have significant impacts on local chemistry due to changes in
biosphere-atmosphere fluxes of reactive trace species, with consequences for
controlling regional air quality. Given the general tightening of air
quality standards to improve the health of global populations, understanding
how changes in land cover will aid or abet these achievements could become
increasingly important.</p><?xmltex \hack{\clearpage}?>
</sec>

      
      </body>
    <back><app-group>

<app id="App1.Ch1.S1">
  <title>Land cover classification system</title>

<?xmltex \floatpos{t}?><table-wrap id="App1.Ch1.T1"><caption><p>Mapping of CLM-input land types used in the modified version of
GEOS-Chem to the Wesely deposition surfaces for deposition, and the
associated roughness (Zo) heights for each.</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 colname="col1">Land type</oasis:entry>  
         <oasis:entry colname="col2">Wesely surface</oasis:entry>  
         <oasis:entry colname="col3">Zo (m)</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">Lake/Ocean</oasis:entry>  
         <oasis:entry colname="col2">Water</oasis:entry>  
         <oasis:entry colname="col3">0.001</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Bare Ground</oasis:entry>  
         <oasis:entry colname="col2">Desert</oasis:entry>  
         <oasis:entry colname="col3">0.001</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">NET Temp</oasis:entry>  
         <oasis:entry colname="col2">Coniferous forest</oasis:entry>  
         <oasis:entry colname="col3">1</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">NET Boreal</oasis:entry>  
         <oasis:entry colname="col2">Coniferous forest</oasis:entry>  
         <oasis:entry colname="col3">1</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">NDT Boreal</oasis:entry>  
         <oasis:entry colname="col2">Coniferous forest</oasis:entry>  
         <oasis:entry colname="col3">1</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BET Trop</oasis:entry>  
         <oasis:entry colname="col2">Amazon Rainforest</oasis:entry>  
         <oasis:entry colname="col3">1</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BET Temp</oasis:entry>  
         <oasis:entry colname="col2">Deciduous forest</oasis:entry>  
         <oasis:entry colname="col3">1</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BDT Trop</oasis:entry>  
         <oasis:entry colname="col2">Deciduous forest</oasis:entry>  
         <oasis:entry colname="col3">1</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BDT Temp</oasis:entry>  
         <oasis:entry colname="col2">Deciduous forest</oasis:entry>  
         <oasis:entry colname="col3">1</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BDT Boreal</oasis:entry>  
         <oasis:entry colname="col2">Deciduous forest</oasis:entry>  
         <oasis:entry colname="col3">1</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BES Temp</oasis:entry>  
         <oasis:entry colname="col2">Shrub/grassland</oasis:entry>  
         <oasis:entry colname="col3">0.01</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BDS Temp</oasis:entry>  
         <oasis:entry colname="col2">Shrub/grassland</oasis:entry>  
         <oasis:entry colname="col3">0.01</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">BDS Boreal</oasis:entry>  
         <oasis:entry colname="col2">Shrub/grassland</oasis:entry>  
         <oasis:entry colname="col3">0.01</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">C3 Arctic GR</oasis:entry>  
         <oasis:entry colname="col2">Tundra</oasis:entry>  
         <oasis:entry colname="col3">0.002</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">C3 Other GR</oasis:entry>  
         <oasis:entry colname="col2">Shrub/grassland</oasis:entry>  
         <oasis:entry colname="col3">0.01</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">C4 GR</oasis:entry>  
         <oasis:entry colname="col2">Shrub/grassland</oasis:entry>  
         <oasis:entry colname="col3">0.01</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Crop</oasis:entry>  
         <oasis:entry colname="col2">Agricultural</oasis:entry>  
         <oasis:entry colname="col3">0.1</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Glacier</oasis:entry>  
         <oasis:entry colname="col2">Snow/ice</oasis:entry>  
         <oasis:entry colname="col3">0.0001</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Urban</oasis:entry>  
         <oasis:entry colname="col2">Urban</oasis:entry>  
         <oasis:entry colname="col3">2.5</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Wetland</oasis:entry>  
         <oasis:entry colname="col2">Wetland</oasis:entry>  
         <oasis:entry colname="col3">0.05</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

      <p>Table A1 lists the land and plant functional types in the CLM4 land cover
description which we use as a base land cover input for our simulations. The
table also shows how we have mapped these land cover types to the original
Wesely deposition surfaces and to roughness heights for the dry deposition
parameterization.</p>
      <p>Figure A1 schematically lays out how we have defined biomes in accordance
with the nomenclature used for soil NO<inline-formula><mml:math display="inline"><mml:msub><mml:mi/><mml:mi>x</mml:mi></mml:msub></mml:math></inline-formula> emissions based on the CLM4 land
and plant functional type coverage.<?xmltex \hack{\newpage}?></p>

      <?xmltex \floatpos{ht!}?><fig id="App1.Ch1.F1"><caption><p>Mapping of native CLM land input classes to soil-NOx biomes
(according to Steinkamp and Lawrence, 2011) for land cover harmonization in
GEOS-Chem.</p></caption>
        <?xmltex \igopts{width=236.157874pt}?><graphic xlink:href="https://acp.copernicus.org/articles/16/2323/2016/acp-16-2323-2016-f10.png"/>

      </fig>

<?xmltex \hack{\clearpage}?>
</app>
  </app-group><ack><title>Acknowledgements</title><p>This work was supported by NSERC and NSF (AGC-1238109). JAG was partially
supported by a NSERC CREATE IACPES postdoctoral fellowship and travel grant.<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?>
Edited by: A. Perring</p></ack><ref-list>
    <title>References</title>

      <ref id="bib1.bib1"><label>1</label><mixed-citation>Amin, H., Atkins, P. T., Russo, R. S., Brown, A. W., Sive, B., Hallar, A. G.,
and Huff Hartz, K. E.: Effect of bark beetle infestation on secondary organic
aerosol precursor emissions., Environ. Sci. Technol., 46, 5696–5703,
<ext-link xlink:href="http://dx.doi.org/10.1021/es204205m" ext-link-type="DOI">10.1021/es204205m</ext-link>, 2012.</mixed-citation></ref>
      <ref id="bib1.bib2"><label>2</label><mixed-citation>Amin, H., Atkins, P. T., Russo, R. S., Brown, A. W., Sive, B., Hallar, A. G.,
and Huff Hartz, K. E.: Effect of bark beetle infestation on secondary
organic aerosol precursor emissions., Environ. Sci. Technol., 46,
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    <!--<article-title-html>Land cover change impacts on atmospheric chemistry: simulating projected
large-scale tree mortality in the United States</article-title-html>
<abstract-html><p class="p">Land use and land cover changes impact climate and air quality by
altering the exchange of trace gases between the Earth's surface and
atmosphere. Large-scale tree mortality that is projected to occur across the
United States as a result of insect and disease may therefore have unexplored
consequences for tropospheric chemistry. We develop a land use module for the
GEOS-Chem global chemical transport model to facilitate simulations involving
changes to the land surface, and to improve consistency across
land–atmosphere exchange processes. The model is used to test the impact of
projected national-scale tree mortality risk through 2027 estimated by the
2012 USDA Forest Service National Insect and Disease Risk Assessment. Changes
in biogenic emissions alone decrease monthly mean O<sub>3</sub> by up to 0.4 ppb,
but reductions in deposition velocity compensate or exceed the effects of
emissions yielding a net increase in O<sub>3</sub> of more than 1 ppb in some
areas. The O<sub>3</sub> response to the projected change in emissions is affected
by the ratio of baseline NO<sub><i>x</i></sub> : VOC concentrations, suggesting that in
addition to the degree of land cover change, tree mortality impacts depend on
whether a region is NO<sub><i>x</i></sub>-limited or NO<sub><i>x</i></sub>-saturated. Consequently, air
quality (as diagnosed by the number of days that 8 h average O<sub>3</sub> exceeds
70 ppb) improves in polluted environments where changes in emissions are
more important than changes to dry deposition, but worsens in clean
environments where changes to dry deposition are the more important term. The
influence of changes in dry deposition demonstrated here underscores the need
to evaluate treatments of this physical process in models. Biogenic secondary
organic aerosol loadings are significantly affected across the US, decreasing
by 5–10 % across many regions, and by more than 25 % locally. Tree
mortality could therefore impact background aerosol loadings by between 0.5
and 2 µg m<sup>−3</sup>. Changes to reactive nitrogen oxide abundance
and partitioning are also locally important. The regional effects simulated
here are similar in magnitude to other scenarios that consider future biofuel
cropping or natural succession, further demonstrating that
biosphere–atmosphere exchange should be considered when predicting future
air quality and climate. We point to important uncertainties and further
development that should be addressed for a more robust understanding of land
cover change feedbacks.</p></abstract-html>
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