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  <front>
    <journal-meta><journal-id journal-id-type="publisher">ACP</journal-id><journal-title-group>
    <journal-title>Atmospheric Chemistry and Physics</journal-title>
    <abbrev-journal-title abbrev-type="publisher">ACP</abbrev-journal-title><abbrev-journal-title abbrev-type="nlm-ta">Atmos. Chem. Phys.</abbrev-journal-title>
  </journal-title-group><issn pub-type="epub">1680-7324</issn><publisher>
    <publisher-name>Copernicus Publications</publisher-name>
    <publisher-loc>Göttingen, Germany</publisher-loc>
  </publisher></journal-meta>
    <article-meta>
      <article-id pub-id-type="doi">10.5194/acp-18-5321-2018</article-id><title-group><article-title>The effect of South American biomass burning aerosol emissions<?xmltex \hack{\break}?> on the regional climate</article-title><alt-title>Effect Of South American biomass burning aerosol on climate</alt-title>
      </title-group><?xmltex \runningtitle{Effect Of South American biomass burning aerosol on climate}?><?xmltex \runningauthor{G. D. Thornhill et al.}?>
      <contrib-group>
        <contrib contrib-type="author" corresp="yes" rid="aff1">
          <name><surname>Thornhill</surname><given-names>Gillian D.</given-names></name>
          <email>g.thornhill@reading.ac.uk</email>
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Ryder</surname><given-names>Claire L.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-9892-6113</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Highwood</surname><given-names>Eleanor J.</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1 aff3">
          <name><surname>Shaffrey</surname><given-names>Len C.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0003-2696-752X</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2">
          <name><surname>Johnson</surname><given-names>Ben T.</given-names></name>
          
        <ext-link>https://orcid.org/0000-0003-3334-9295</ext-link></contrib>
        <aff id="aff1"><label>1</label><institution>Department of Meteorology, University of Reading, Reading, UK</institution>
        </aff>
        <aff id="aff2"><label>2</label><institution>Met Office, Exeter, UK</institution>
        </aff>
        <aff id="aff3"><label>3</label><institution>National Centre for Atmospheric Science, University of Reading, UK</institution>
        </aff>
      </contrib-group>
      <author-notes><corresp id="corr1">Gillian D. Thornhill (g.thornhill@reading.ac.uk)</corresp></author-notes><pub-date><day>19</day><month>April</month><year>2018</year></pub-date>
      
      <volume>18</volume>
      <issue>8</issue>
      <fpage>5321</fpage><lpage>5342</lpage>
      <history>
        <date date-type="received"><day>12</day><month>October</month><year>2017</year></date>
           <date date-type="rev-request"><day>3</day><month>November</month><year>2017</year></date>
           <date date-type="rev-recd"><day>20</day><month>February</month><year>2018</year></date>
           <date date-type="accepted"><day>5</day><month>March</month><year>2018</year></date>
      </history>
      <permissions>
        
        
      <license license-type="open-access"><license-p>This work is licensed under the Creative Commons Attribution 4.0 International License. To view a copy of this licence, visit <ext-link ext-link-type="uri" xlink:href="https://creativecommons.org/licenses/by/4.0/">https://creativecommons.org/licenses/by/4.0/</ext-link></license-p></license></permissions><self-uri xlink:href="https://acp.copernicus.org/articles/.html">This article is available from https://acp.copernicus.org/articles/.html</self-uri><self-uri xlink:href="https://acp.copernicus.org/articles/.pdf">The full text article is available as a PDF file from https://acp.copernicus.org/articles/.pdf</self-uri>
      <abstract>
    <p id="d1e132">The impact of biomass burning aerosol (BBA) on the regional climate in South
America is assessed using 30-year simulations with a global atmosphere-only
configuration of the Met Office Unified Model. We compare two simulations of
high and low emissions of biomass burning aerosol based on realistic
interannual variability. The aerosol scheme in the model has hygroscopic
growth and optical properties for BBA informed by recent observations,
including those from the recent South American Biomass Burning Analysis
(SAMBBA) intensive aircraft observations made during September 2012. We find
that the difference in the September (peak biomass emissions month) BBA
optical depth between a simulation with high emissions and a simulation with
low emissions corresponds well to the difference in the BBA emissions between
the two simulations, with a 71.6 % reduction from high to low emissions
for both the BBA emissions and the BB AOD in the region with maximum
emissions (defined by a box of extent 5–25<inline-formula><mml:math id="M1" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, 40–70<inline-formula><mml:math id="M2" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W,
used for calculating mean values given below). The cloud cover at all
altitudes in the region of greatest BBA difference is reduced as a result of
the semi-direct effect, by heating of the atmosphere by the BBA and changes
in the atmospheric stability and surface fluxes. Within the BBA layer the
cloud is reduced by burn-off, while the higher cloud changes appear to be
responding to stability changes. The boundary layer is reduced in height and
stabilized by increased BBA, resulting in reduced deep convection and reduced
cloud cover at heights of 9–14 km, above the layer of BBA. Despite the
decrease in cloud fraction, September downwelling clear-sky and all-sky
shortwave radiation at the surface is reduced for higher emissions by
13.77 <inline-formula><mml:math id="M3" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.39 W m<inline-formula><mml:math id="M4" 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> (clear-sky) and
7.37 <inline-formula><mml:math id="M5" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 2.29 W m<inline-formula><mml:math id="M6" 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> (all-sky), whilst the upwelling shortwave
radiation at the top of atmosphere is increased in clear sky by
3.32 <inline-formula><mml:math id="M7" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.09 W m<inline-formula><mml:math id="M8" 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>, but decreased by <inline-formula><mml:math id="M9" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1.36</mml:mn><mml:mo>±</mml:mo><mml:mn mathvariant="normal">1.67</mml:mn></mml:mrow></mml:math></inline-formula> W m<inline-formula><mml:math id="M10" 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>
when cloud changes are included. Shortwave heating rates increase in the
aerosol layer by 18 % in the high emissions case. The mean surface
temperature is reduced by 0.14 <inline-formula><mml:math id="M11" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.24 <inline-formula><mml:math id="M12" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C and mean
precipitation is reduced by 14.5 % in the peak biomass region due to both
changes in cloud cover and cloud microphysical properties. If the increase in
BBA occurs in a particularly dry year, the resulting reduction in
precipitation may exacerbate the drought. The position of the South Atlantic
high pressure is slightly altered by the presence of increased BBA, and the
strength of the southward low-level jet to the east of the Andes is
increased. There is some evidence that some impacts of increased BBA persist
through the transition into the monsoon, particularly in precipitation, but
the differences are only statistically significant in some small regions in
November. This study therefore provides an insight into how variability in
deforestation, realized through variability in biomass burning emissions, may
contribute to the South American climate, and consequently on the possible
impacts of future changes in BBA emissions.</p>
  </abstract>
    </article-meta>
  </front>
<body>
      

<sec id="Ch1.S1" sec-type="intro">
  <title>Introduction</title>
      <p id="d1e261">Land management practices in South America designed to increase available
land for agriculture and pasture and increasing urbanization have resulted in
deforestation altering an estimated 18 % of the original forest area
<?xmltex \hack{\mbox\bgroup}?><xref ref-type="bibr" rid="bib1.bibx6" id="paren.1"/><?xmltex \hack{\egroup}?>. <?pagebreak page5322?>The biomass burning aerosol (BBA) emissions
from fires tend to be largest where there is rapid deforestation (e.g.
south-east Amazonia) and lowest in the tropical forests in central Amazonia
where the density of the forest canopy and larger amounts of moisture
generally prevent fires, and areas where the fires occur in already cleared
agricultural and pastoral land tend to have lower fuel loads and result in
reduced fire emission per unit area compared to areas of rapid deforestation
<xref ref-type="bibr" rid="bib1.bibx50 bib1.bibx15" id="paren.2"/>. <xref ref-type="bibr" rid="bib1.bibx50" id="text.3"/>
show that there is a clear positive relationship between deforestation, BBA
emissions and aerosol optical depth (AOD).</p>
      <p id="d1e275">The biomass burning aerosols absorb and scatter radiation, and affect the
surface fluxes and atmospheric stability. BBA also increase the concentration
of cloud condensation nuclei (CCN) affecting the formation and lifetime of
clouds <xref ref-type="bibr" rid="bib1.bibx35 bib1.bibx53 bib1.bibx32" id="paren.4"/>. They
consist largely of carbonaceous material, with a relatively low single
scattering albedo (SSA) indicating they are more absorbing than, for example, sulfate
aerosols. There is a direct effect on the radiative budget from both
scattering and absorption <xref ref-type="bibr" rid="bib1.bibx11" id="paren.5"/>, as well as the absorption
results in atmospheric heating which, together with the reduced solar
radiation reaching the surface, changes the stability of the atmosphere.
Heating of the atmosphere where aerosols and clouds are co-located (in
altitude) is predicted to result in cloud cover changes as cloud “burns
off” or is prevented from forming due to the stabilization of the
atmospheric profile. This process has been termed the semi-direct effect
<xref ref-type="bibr" rid="bib1.bibx21 bib1.bibx35" id="paren.6"/>, although other studies have
pointed out that the semi-direct effect could have the opposite tendency, for
instance if increased atmospheric stability favours the persistence of
stratocumulus <xref ref-type="bibr" rid="bib1.bibx26" id="paren.7"/>. The overall aerosol–cloud
interaction is complex, however, with the semi-direct effect depending on the
relative heights of the aerosol and the clouds, the type of cloud and the
regional dynamics, e.g. convergent or divergent flow
<xref ref-type="bibr" rid="bib1.bibx32" id="paren.8"/>. The particles of smoke are also predicted to act
as cloud condensation nuclei <xref ref-type="bibr" rid="bib1.bibx55" id="paren.9"/>, changing the size
and number of cloud droplets and resulting in changes to the reflectivity and
lifetime of the clouds, referred to as the indirect effect
<xref ref-type="bibr" rid="bib1.bibx58 bib1.bibx3" id="paren.10"/>. Effects of BBA on convection and cloud
formation characteristics can result in changes in precipitation
<xref ref-type="bibr" rid="bib1.bibx20" id="paren.11"/>, which in turn will change hydrological
processes <xref ref-type="bibr" rid="bib1.bibx34" id="paren.12"/>. Furthermore, changes in the proportions
of direct and diffuse radiation at the surface will affect photosynthesis and
net primary productivity <xref ref-type="bibr" rid="bib1.bibx48" id="paren.13"/>. <xref ref-type="bibr" rid="bib1.bibx35" id="text.14"/>
investigated the effect of BBA on cloud formation and lifetime and suggested
that the stabilization of the lower atmosphere, and the reduction in fluxes
from the surface, can inhibit the formation of high and deep convective
clouds, despite the possible destabilization of the higher atmosphere due to
the increased heating of the atmosphere at lower levels. This effect is
dependent on the initial cloud cover fraction, however, as a lower initial
cloud cover permits more solar absorption and increases the aerosol heating
effects. The BB AOD is also a factor, with the suggestion that at low (high)
BB AOD, the indirect effect is more (less) important than the semi-direct
effect <xref ref-type="bibr" rid="bib1.bibx56" id="paren.15"/>. <xref ref-type="bibr" rid="bib1.bibx16" id="text.16"/> used large
eddy simulation modelling for biomass burning (BB) in Amazonia to show that
where the BBA was at the cloud formation layer, this would act to reduce
cloud fraction, but BBA at lower levels may tend to either increase or
decrease cloudiness. However, they also found that surface sensible and
latent heat fluxes are sufficient in themselves to reduce cloudiness.</p>
      <p id="d1e319">Assessing the relative importance of these various effects is crucial to
understanding the overall impact of BBA on the regional climate, but there is
some uncertainty in how to treat and describe aerosol properties in climate
models that can affect the results of such studies. Our approach uses new
observations of aerosol optical properties, and compares two different
scenarios, a high-BBA-emission experiment with a low-BBA-emission experiment,
so that we are considering changes due to decadal timescale variability in
emissions (rather than a comparison of the regional climate with BBA to one
without BBA). This provides some insight into how changes in deforestation
practices, which are positively related to BBA emissions and BBA AOD
<xref ref-type="bibr" rid="bib1.bibx50" id="paren.17"/>, and the resulting changes in the
characteristics of the BBA over time might affect the regional climate.</p>
      <p id="d1e325">The climate of South America shows considerable variability, due to its large
latitudinal extent (12<inline-formula><mml:math id="M13" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N to 53<inline-formula><mml:math id="M14" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S) covering tropical,
subtropical and extratropical climate zones. The Andes also produce large
east–west variation, compounded by the change in the east–west width of the
continent and the differences between the temperatures of the oceans, with
the south-western Atlantic being warm and the south-eastern Pacific being
cool <xref ref-type="bibr" rid="bib1.bibx19" id="paren.18"/>. In the tropics the intertropical convergence
zone corresponds to an east–west belt of low pressure and low-level
convergence of the trade winds, resulting in an area of high annual mean
precipitation which is largely produced by deep convective clouds. The annual
precipitation shows a seasonal cycle, with austral winter (JJA) maximum
rainfall in the north of the continent. Towards the end of October the
convection shifts southwards, so that the austral summer is characterized by
heavy precipitation from the southern Amazon basin to northern Argentina.
During the austral autumn (MAM) the maximum precipitation moves back to the
north. This seasonal pattern is considered by some to be monsoonal
<xref ref-type="bibr" rid="bib1.bibx62 bib1.bibx43" id="paren.19"/>, although it does not exhibit the
reversal in low-level winds seen in other monsoon systems. The South American
monsoon generally has an onset in October, but the exact timing is variable,
and geographically dependent, with an extension of the rainy area in the
north-west of Amazonia down to southern Amazonia <xref ref-type="bibr" rid="bib1.bibx68" id="paren.20"/>.
Generally there is an increase in precipitation from the north-west to the
south-east from central<?pagebreak page5323?> America to the SE Amazon area, with the largest
changes in the central Amazon area. Changes in the surface fluxes, with
increases in surface radiation and sensible and latent heat flux, are
considered to be initiators of the monsoon <xref ref-type="bibr" rid="bib1.bibx68" id="paren.21"/>. As the
monsoon progresses, surface (sea level) pressure is expected to reduce over
the South Atlantic, while the subtropical high in the South Atlantic is
displaced eastwards and weakens <xref ref-type="bibr" rid="bib1.bibx43" id="paren.22"/>. Increased
convection moves down from the
north-west to central Amazonia and Brazil, while the circulation pattern at
850 hPa changes from northerlies to north-westerlies
<xref ref-type="bibr" rid="bib1.bibx46" id="paren.23"/> in the south-west part of Amazonia, and in
eastern Brazil from easterlies
to north-easterlies following the displacement of the South Atlantic high. Close to the mouth of the Amazon the large-scale northerly
anomalies and the reduction of the
zonal component of the trade winds are expected as part of the transition to
the monsoon <xref ref-type="bibr" rid="bib1.bibx42" id="paren.24"/>.</p>
      <p id="d1e369">The South American Biomass Burning Analysis (SAMBBA) project was designed to
use ground-based and aircraft observations of South American biomass burning
aerosols to investigate their impact on climate. It involved a consortium of
international institutions, led by the UK Met Office and the National
Institute for Space Research (INPE) Brazil, in partnership with the
University of São Paulo and seven universities in the UK (Exeter University,
Leeds University, Manchester University, University of Reading, University of
East Anglia, University of York, King's College London). The observational
flights were conducted in September 2012 over the Amazonian region and were
coordinated with ground measurements <xref ref-type="bibr" rid="bib1.bibx4 bib1.bibx10 bib1.bibx41" id="paren.25"/>. The flights were designed to measure aerosol properties,
the atmospheric chemistry, and the clouds, meteorology and radiation budget
over Amazonia. The modelling presented here is part of the complementary
effort to use the flight campaign observation results to refine BBA
properties in global models and to ascertain the effects of these aerosols on
regional climate.</p>
      <p id="d1e375">In this article we test the sensitivity of the (regional) South American
climate to realistic high- and low-BBA-emission scenarios using aerosol
properties constrained by aircraft campaign measurements. The main biomass
burning months are August and September, so the results discussed in this
paper focus on the changes in climate in September where the effects of the
BBA on the regional climate are likely to be greatest, with a particular
emphasis on cloud changes, the semi-direct effect and changes in atmospheric
stability which impact cloud changes. Finally, we also briefly examine the
influence of changing emissions of BBA on the South American monsoon onset.
Section 2 describes the methodology and model set-up, Sect. 3 describes the
results for the September biomass burning season, Sect. 4 focuses on the
impact on the monsoon, and Sect. 5 discusses the results and their
significance.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F1"><caption><p id="d1e380">Map of South America with features referred to in the text marked.</p></caption>
        <?xmltex \igopts{width=199.169291pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f01.png"/>

      </fig>

</sec>
<sec id="Ch1.S2">
  <title>Methods</title>
<sec id="Ch1.S2.SS1">
  <title>Model set-up</title>
      <p id="d1e400">Global climate model simulations were performed with the Met Office Unified
Model HadGEM3 GA3 <xref ref-type="bibr" rid="bib1.bibx23" id="paren.26"/> at the resolution of N96 (1.25<inline-formula><mml:math id="M15" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> by 1.875<inline-formula><mml:math id="M16" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>) with 85 vertical levels. Simulations were run for
30 years, using annually repeating prescribed sea surface temperatures in
order to minimize short-timescale variability and improve the statistical
analysis. A spin-up period of 1 year was used. Sea surface temperatures and
sea ice were prescribed using data from HadISST <xref ref-type="bibr" rid="bib1.bibx49" id="paren.27"/>
using monthly means over 1997–2011. Greenhouse and other trace gases are
fixed at levels representative of 2000, identical to
<xref ref-type="bibr" rid="bib1.bibx54" id="text.28"/>. Ozone is a seasonally varying two-dimensional
latitude–height field from <xref ref-type="bibr" rid="bib1.bibx47" id="text.29"/>. The cloud scheme used was
the PC2 scheme <xref ref-type="bibr" rid="bib1.bibx64 bib1.bibx65" id="paren.30"/>. Monthly emission
periodic climatologies for non-BBA are used, including the 2-D sulfur cycle,
black carbon and organic carbon from fossil fuel burning, from the CMIP5
dataset <xref ref-type="bibr" rid="bib1.bibx37" id="paren.31"/> with monthly means representing 2000–2010.
Biogenic secondary organic aerosols are represented by an AOD climatology.
The atmosphere was free-running.</p>
      <p id="d1e440">Aerosols were simulated by the Coupled Large-scale Aerosol Scheme for
Simulations in Climate Models (CLASSIC), a mass-based (“bulk”) aerosol
scheme representing sulfate, fossil-fuel soot (black carbon),
fossil-fuel organic<?pagebreak page5324?> carbon, biomass burning aerosol, sea salt and
mineral dust aerosol species, where the physical and optical
properties of each are specified and are externally mixed. A full
description is given in the appendix of <xref ref-type="bibr" rid="bib1.bibx8" id="text.32"/>, and
<xref ref-type="bibr" rid="bib1.bibx27" id="text.33"/> provide a detailed description of the BBA
scheme.</p>
      <p id="d1e449">The BBA scheme was originally introduced for HadGEM1
<xref ref-type="bibr" rid="bib1.bibx14" id="paren.34"/> and soon revised for HadGEM2
<xref ref-type="bibr" rid="bib1.bibx30 bib1.bibx7" id="paren.35"/> to use updated BBA properties
based on the SAFARI-2000 aircraft field observations from southern Africa
<xref ref-type="bibr" rid="bib1.bibx22 bib1.bibx1" id="paren.36"/>. In order to take advantage of
these observations of ambient BBA available at the time, BBA was represented
as a separate aerosol species, rather than as separate BC (black carbon) and
OC (organic carbon) components. Mass is
emitted into a fresh mode, and subsequently converted into an aged mode with
an <inline-formula><mml:math id="M17" display="inline"><mml:mi>e</mml:mi></mml:math></inline-formula>-folding timescale of 6 h represented by an increase in mass by a
factor of 1.62 <xref ref-type="bibr" rid="bib1.bibx1" id="paren.37"/>. The fresh and aged BBA modes are
represented separately in CLASSIC, with different optical, hygroscopic and
CCN properties for each (see Sect. <xref ref-type="sec" rid="Ch1.S2.SS3"/>). The fresh and aged
modes correspond to different OC <inline-formula><mml:math id="M18" display="inline"><mml:mo>:</mml:mo></mml:math></inline-formula> BC ratios, which is justified by the
fact that BC and OC are internally mixed in BBA particles. The increase in
BBA mass with ageing represents an increase in the mass of OC in BBA as the
aerosol ages chemically and physically from condensation of VOCs within a
plume. Although many GCMs now represent BBA as separate components comprising
BC and OC, it is still advantageous to represent BBA as a single species with
fresh and aged modes, since both aircraft and remote sensing observations
characterize the ambient BBA rather than the BC and OC components. Therefore
although climate models which separate BC and OC may appear more
sophisticated, we lack the observational constraint to support and validate
their complexity, particularly in BBA source regions. In this capacity, the
BBA aerosol model properties and results can still be adjusted and/or
validated using the more recent SAMBBA field campaign results, which for the
most part also represent the ambient BBA rather than their BC and OC components.</p>
      <p id="d1e481">Since the 6 h <inline-formula><mml:math id="M19" display="inline"><mml:mi>e</mml:mi></mml:math></inline-formula>-folding timescale is relatively short on a climate
simulation timescale, most BBA in our simulations resides in the aged mode.
Fresh BBA is not considered hydrophilic in CLASSIC. However, aged BBA exerts
an indirect effect on clouds, acting as a cloud condensation nuclei (CCN),
and is converted to smoke in cloud water by nucleation scavenging (analogous
to sulfate aerosol in the model). Cloud droplet number concentration (CDNC)
is calculated from the number concentration of CCN in the accumulation mode
of BBA according to <xref ref-type="bibr" rid="bib1.bibx28 bib1.bibx29" id="text.38"/>
using a relationship based on multiple aircraft
observations and assuming externally mixed aerosols. CDNC is used to
calculate cloud droplet effective radius for the radiation scheme and for the
autoconversion rate of cloud water to rainwater in the large-scale
precipitation scheme <xref ref-type="bibr" rid="bib1.bibx8" id="paren.39"/>. BBA is removed by wet and
dry deposition. In the simulations here, we adjust the optical and
hygroscopic growth properties based on observations (see
Sect. <xref ref-type="sec" rid="Ch1.S2.SS3"/>) as we find BBA in the CLASSIC scheme demonstrates
too much hygroscopic growth and not enough absorption (see
<xref ref-type="bibr" rid="bib1.bibx27" id="altparen.40"/>, for more details).</p>
</sec>
<sec id="Ch1.S2.SS2">
  <title>BBA emission experiments</title>
      <p id="d1e508">This paper compares the results of two 30-year climate simulations with high-
and low-BBA emissions. Fresh BBA emissions are injected into the atmosphere
as surface emissions (in the lowest model level), as well as at high levels
(equally in mass across model level 3 to 20 – roughly equivalent to
altitudes up to 3 km) in order to represent burning plumes reaching higher
altitudes. No plume rise routines are incorporated and burning plumes are not
explicitly represented in the model. Recent work found that simple plume
height parametrizations are sufficient in representing BBA emission heights
for global climate modelling <xref ref-type="bibr" rid="bib1.bibx61" id="paren.41"/>, and the vertical
parameterization of emissions is also justified by the fact that CLASSIC is
able to adequately represent the vertical profile of BBA in terms of shape
and total column AOD compared to observations <xref ref-type="bibr" rid="bib1.bibx27" id="paren.42"/>.</p>
      <p id="d1e517">Monthly emission datasets are taken from Global Fire Emission Dataset (GFED)
version 3.1 <xref ref-type="bibr" rid="bib1.bibx60" id="paren.43"/> for BC and OC. The emissions are
summed to provide total BBA emissions in terms of carbon mass,
allowing CLASSIC to incorporate oxygen mass and therefore calculate
BBA mass. Emissions from GFED3.1 are provided in terms of vegetation
sector: forest and deforestation fires provide high-level emissions,
while savannah, woodland and peat provide surface emissions. This
method does not allow for any spatial variation in BBA properties
(such as optical properties) due to spatial variations in vegetation
and/or burning type. However, additional simulations were run with
varied BBA absorption properties, and results indicate that these
changes were small, so we consider this impact to be minimal.</p>
      <?pagebreak page5325?><p id="d1e523">In all experiments the BBA emissions are scaled up by a factor of 2, in order
to produce agreement between modelled and observed AODs, a measure that has
been necessary in previous modelling studies using GFED3.1 <xref ref-type="bibr" rid="bib1.bibx50 bib1.bibx27" id="paren.44"><named-content content-type="post">and
references therein</named-content></xref>. Applying a
global biomass burning emission scaling factor is an important assumption,
but is not new to this study. <xref ref-type="bibr" rid="bib1.bibx51" id="text.45"/> (their Table 2)
show that multiple modelling studies have used scaling factors of up to
a value of 6 in the past; attempting good agreement between modelled and
observed BBA AODs and particulate matter concentrations is an ongoing
problem. <xref ref-type="bibr" rid="bib1.bibx27" id="text.46"/> also discuss the issue, noting that many
studies have had to apply emission scaling factors greater than 1 in order
to gain agreement between modelled and observed AODs and/or particulate
matter measurements for BBA regions, such as
<xref ref-type="bibr" rid="bib1.bibx31" id="text.47"/>,
<xref ref-type="bibr" rid="bib1.bibx44" id="text.48"/>,
<xref ref-type="bibr" rid="bib1.bibx45" id="text.49"/>,
<xref ref-type="bibr" rid="bib1.bibx57" id="text.50"/>,
<xref ref-type="bibr" rid="bib1.bibx5" id="text.51"/>,
<xref ref-type="bibr" rid="bib1.bibx33" id="text.52"/> and
<xref ref-type="bibr" rid="bib1.bibx51" id="text.53"/>.
<xref ref-type="bibr" rid="bib1.bibx27" id="text.54"/> use a scaling factor of 1.6 for CLASSIC
specifically, and here we increase this to 2, which is required to be higher
as a consequence of decreasing the <inline-formula><mml:math id="M20" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH) curve to be consistent with the
SAMBBA aircraft observations (see Sect. <xref ref-type="sec" rid="Ch1.S2.SS3"/>).
<xref ref-type="bibr" rid="bib1.bibx51" id="text.55"/> find that of many model aerosol properties,
hygroscopic growth factors were the most important in determining the required
emission scaling factor. Thus we might expect to need to increase modelled
hygroscopic growth in order to match models and observations of BBA; yet we
find the reverse: the SAMBBA observations suggest that CLASSIC is already too
hygroscopic (<xref ref-type="bibr" rid="bib1.bibx27" id="altparen.56"/> and this work,
Sect. <xref ref-type="sec" rid="Ch1.S2.SS3"/>). It should also be noted that there are
significant differences between different emission inventories, as well as
between subsequent versions of the same emission dataset
<xref ref-type="bibr" rid="bib1.bibx60 bib1.bibx51" id="paren.57"/>, which may contribute to
additional adjustments required in GCM emission schemes. We encourage further
work in this area – both by future field work and modelling studies as well
as for emission inventories – in order to reduce these important
uncertainties.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F2" specific-use="star"><caption><p id="d1e585">BBA September fire
emissions for the low (<bold>a, c</bold>, 2000) and high (<bold>b, d</bold>, 2010)
emission experiments as applied in CLASSIC, from the GFED3.1 dataset. Panels
<bold>(a)</bold> and <bold>(b)</bold> show high-level BBA emissions, <bold>(c)</bold> and
<bold>(d)</bold> show surface emissions. Note the different scales between upper
and lower panels.</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f02.pdf"/>

        </fig>

      <p id="d1e614">In order to test the sensitivity of climate to the BBA loading within the
South American region (60<inline-formula><mml:math id="M21" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S to 15<inline-formula><mml:math id="M22" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N and <inline-formula><mml:math id="M23" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>85 to
<inline-formula><mml:math id="M24" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>30<inline-formula><mml:math id="M25" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W) we define two experiments to correspond to high and low
emission cases, based on realistic variations of emissions observed for the
South American region. During 1997 to 2011, the time period covered by
GFED3.1 data, the highest emission year for the South American region was
2010, while the lowest emission year was 2000. Therefore high- and low-BBA-emission experiments are defined using South American BBA emissions from 2010
and 2000 respectively. Total annual emissions for the high and low emissions
experiments for the South American regions are 0.51 and 2.32 Tg respectively
(including both high-level and surface emissions). The geographical
distribution of emissions for September 2000 and September 2010, the month of
largest emissions, are shown in Fig. <xref ref-type="fig" rid="Ch1.F2"/>. Outside of South
America, BBA emissions are set to the 1997–2011 GFED3.1 mean, with monthly
variations, and do not vary between experiments, in order to place the focus
of the experiment solely on the impact of changing South American emissions.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F3"><caption><p id="d1e663">The <inline-formula><mml:math id="M26" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH) scattering curves used in the CLASSIC aerosol scheme for
BBA. Red and black lines show the standard hygroscopic scattering behaviour
for fresh and aged BBA, and the green dashed line shows values applied in
this work, taken from <xref ref-type="bibr" rid="bib1.bibx36" id="text.58"/> for Porto Velho, Brazil.</p></caption>
          <?xmltex \igopts{width=199.169291pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f03.pdf"/>

        </fig>

      <?xmltex \floatpos{t}?><fig id="Ch1.F4" specific-use="star"><caption><p id="d1e684">Optical properties used in the standard CLASSIC configuration for
BBA at visible wavelengths (black: fresh BBA; red: aged BBA) and the new
representations applied in this work for fresh and aged BBA (green dashed
line). <bold>(a)</bold> Mass scattering coefficient; <bold>(b)</bold> mass absorption
coefficient; <bold>(c)</bold> mass extinction coefficient; <bold>(d)</bold> single
scattering albedo. AERONET SSA at 550 nm is also shown (purple) with
horizontal lines indicating long-term maximum, mean and minimum (see text for
details).</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f04.pdf"/>

        </fig>

</sec>
<sec id="Ch1.S2.SS3">
  <title>Hygroscopic growth and optical properties in the modified CLASSIC scheme</title>
      <p id="d1e711">This section describes how the hygroscopic growth and optical properties for
BBA are altered from the standard CLASSIC values in order to be more in line
with observations, including those from the recent SAMBBA intensive aircraft
observations made during September 2012 <xref ref-type="bibr" rid="bib1.bibx27 bib1.bibx12" id="paren.59"/>.</p>
      <p id="d1e717">Figure <xref ref-type="fig" rid="Ch1.F3"/> shows the hygroscopic scattering growth curve (<inline-formula><mml:math id="M27" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH))
of BBA in CLASSIC, and Fig. <xref ref-type="fig" rid="Ch1.F4"/> shows the dependence of
scattering, absorption, extinction and SSA on relative humidity. Optical
properties in CLASSIC are derived from aircraft measurements made during
SAFARI-2000 of southern African BBA <xref ref-type="bibr" rid="bib1.bibx1" id="paren.60"/> and scattering
hygroscopic growth is taken from <xref ref-type="bibr" rid="bib1.bibx40" id="text.61"/> (MH2003), also for
southern African BBA. CLASSIC allows for the separate representation of
optical properties and hygroscopic growth of the fresh and aged BBA modes.
The <inline-formula><mml:math id="M28" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH) values at 80 % RH are 1.5 and 2.2 for fresh and aged BBA
respectively (see Fig. <xref ref-type="fig" rid="Ch1.F4"/>), demonstrating a very strong
scattering increase at high humidities. Absorption in the model is not
sensitive to RH (Fig. <xref ref-type="fig" rid="Ch1.F4"/>b), which is borne out by more recent
measurements (e.g. <xref ref-type="bibr" rid="bib1.bibx9" id="altparen.62"/>). Since extinction is the sum of
scattering and absorption, extinction in CLASSIC is also strongly sensitive
to RH, as is the single scattering albedo (SSA) (Fig. <xref ref-type="fig" rid="Ch1.F4"/>c and
d).</p>
      <p id="d1e754">However, CLASSIC is not consistent with other measurements. For example,
<xref ref-type="bibr" rid="bib1.bibx36" id="text.63"/> (KH98) performed aircraft measurements in
the Amazon region around Brazilia, Cuiabá, Porto Velho and Marabá, and found
much lower <inline-formula><mml:math id="M29" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH) values for BBA in the range of 1.05 to 1.29 at 80 % RH for
regional haze from four different regions of Amazonia. <xref ref-type="bibr" rid="bib1.bibx27" id="text.64"/>
find that CLASSIC overestimates BBA hygroscopic growth, and therefore aerosol
scattering, AOD and SSA in moist conditions. In this work, we apply the <inline-formula><mml:math id="M30" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH)
curve of KH98 from Porto Velho, which was closest to the location of the
SAMBBA observations, and represents the lower bound of the KH98 <inline-formula><mml:math id="M31" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH) curves
(1.05 at 80 % RH), as a weakly hygroscopic case that gives a more reasonable
representation (as indicated by the green dashed line in Fig. <xref ref-type="fig" rid="Ch1.F3"/>)
than the existing CLASSIC properties. Since this <inline-formula><mml:math id="M32" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH) selection represents
the lower bounds of <inline-formula><mml:math id="M33" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH) from KH98, the AODs from the model should be viewed
as a lower limit, and could still be reasonably increased by selecting <inline-formula><mml:math id="M34" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH)
values of up to 1.29 at 80 % RH.</p>
      <p id="d1e808">It is not clear why the <inline-formula><mml:math id="M35" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH) curves of MH2003 for southern Africa and KH98
for Amazonia are so different, since both were observed with an airborne
humidified nephelometer, and MH2003 do not comment on the differences.
However, <xref ref-type="bibr" rid="bib1.bibx27" id="text.65"/> hypothesize that the “regional air”
classified in MH2003 may have contained a substantial amount of hygroscopic
industrial sulfate aerosol, which could have behaved differently.
<xref ref-type="bibr" rid="bib1.bibx13" id="text.66"/> show some evidence that if combustion of peat swamps is
involved, gas-to-particle conversion can produce high sulfate contributions
in the BBA. We anticipate new state-of-the-art observations from the recent
CLARIFY project observations within the southern African BBA plume to expand
on this issue.</p>
      <p id="d1e825">Figure <xref ref-type="fig" rid="Ch1.F4"/> shows the new optical properties applied in this
work. Scattering values are defined as identical to the original
CLASSIC aged values at 0 % RH, but increase as a function of RH
according to KH98 for the more realistic Porto Velho BBA
observations. The RH dependence and absolute values of absorption are
kept identical to the original CLASSIC data. Since extinction is the
sum of absorption and scattering,<?pagebreak page5326?> extinction at 0 % RH is identical to
the original CLASSIC data, but is much lower at high levels of moisture
due to the lower <inline-formula><mml:math id="M36" display="inline"><mml:mi>f</mml:mi></mml:math></inline-formula>(RH) scattering dependency.</p>
      <p id="d1e837">Additionally, although Fig. <xref ref-type="fig" rid="Ch1.F4"/> shows a clear difference in
optical properties in original CLASSIC between the fresh and aged BBA modes,
the recent aircraft observations from SAMBBA did not reveal any differences
between fresh and aged BBA, except possibly for very fresh BBA close to the
source, under 1 h from emission (William Morgan, personal communication,
2015). Therefore in these experiments, since<?pagebreak page5327?> fresh BBA represents aerosol
within 6 h of emission, we set the optical properties of fresh and aged BBA
to be identical based on the new curves in Fig. <xref ref-type="fig" rid="Ch1.F4"/>.</p>
      <p id="d1e844">As a result, the new SSA (Fig. <xref ref-type="fig" rid="Ch1.F4"/>d, green dashed line) is
close to the standard CLASSIC SSA values for aged BBA at low RH, and close to
the standard CLASSIC SSA values for fresh BBA at high RH. The new values are
also in agreement with long-term inversion data from the AERosol Robotic
NETwork (AERONET) stations (purple box) in the BB region, for six sites (L1.5
data from Ji_Parana SE, Rio_Branco, Alta_Floresta, Abracos_Hill, Balbina,
Manaus_EMBRAPA) which have more than 1 year of data in the BB season
(August–October). Horizontal lines shown in Fig. <xref ref-type="fig" rid="Ch1.F4"/> represent
maximum, mean and minimum SSA at 550 nm (linearly interpolated between 440
and 675 nm) across the 6 sites. The range of RH covered by the AERONET box
represents typical values encountered during the SAMBBA aircraft research
flights.</p>
      <p id="d1e851">A wide range of SSA values for BBA is indicated from different observations,
as discussed by <xref ref-type="bibr" rid="bib1.bibx27" id="text.67"/>. For example, SAMBBA aircraft
observations show that cerrado burning in the eastern regions produces more
BC and less organic aerosol, and therefore a more absorbing BBA at 550 nm
(SSA <inline-formula><mml:math id="M37" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 0.79), while forest burning in the west produces less absorbing
BBA (SSA <inline-formula><mml:math id="M38" display="inline"><mml:mo>=</mml:mo></mml:math></inline-formula> 0.88 <inline-formula><mml:math id="M39" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.05) <xref ref-type="bibr" rid="bib1.bibx27 bib1.bibx24" id="paren.68"/>. The range of AERONET retrievals shown in
Fig. <xref ref-type="fig" rid="Ch1.F4"/> is 0.89–0.94 (mean 0.92). Satellite-based retrievals
of BBA indicate even higher SSA values (William Morgan, personal
communication, 2015). Therefore since the various observations of SSA vary
greatly, an intermediate value of SSA of 0.92 at 60 % RH seems reasonable
for these experiments, as shown by the dashed line in
Fig. <xref ref-type="fig" rid="Ch1.F4"/>d. Further experiments were run with varied absorption
but are not presented here. Optical properties in all of the six spectral
bands covering the visible wavelengths were adjusted using the same
procedure.</p>
</sec>
</sec>
<sec id="Ch1.S3">
  <title>Impact of biomass burning emissions in September</title>
<sec id="Ch1.S3.SS1">
  <title>Introduction</title>
      <p id="d1e898">September has the highest biomass burning emissions which can directly
influence surface fluxes whilst in situ, so we look first at September
monthly-mean fields. For quantitative results we define a “biomass burning
box” (BB box) (5–15<inline-formula><mml:math id="M40" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, 40–70<inline-formula><mml:math id="M41" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W), selected on the basis
that this is the main area where AOD is affected by biomass burning aerosol.
The statistical significance for all plots is determined by a Student's
<inline-formula><mml:math id="M42" display="inline"><mml:mi>t</mml:mi></mml:math></inline-formula>-test using the 30-year time series to identify where differences are due to
the changes in the emissions, and not just inter-annual variability. We will
examine the effects of the aerosol emissions on the AOD, and the consequences of the AOD changes on the clouds, the longwave
(LW) and shortwave (SW) radiation and the surface fluxes, as well as the surface
temperature, pressure, circulation and precipitation. The results are shown
in Table <xref ref-type="table" rid="Ch1.T1"/>, which gives the mean effect within the BB box on
several variables for the high emissions case, low emissions case, and the
difference (see Fig. <xref ref-type="fig" rid="Ch1.F5"/>a for the extent of the BB box).</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T1" specific-use="star"><caption><p id="d1e933">Table of September mean values for the high and low
experiments and the differences between them. The percentage changes in the table are calculated as (high <inline-formula><mml:math id="M43" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula> low) <inline-formula><mml:math id="M44" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> high. The means are
calculated over the biomass burning box (latitude 5–25<inline-formula><mml:math id="M45" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S,
longitude 40–70<inline-formula><mml:math id="M46" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W), which is outlined in Fig. <xref ref-type="fig" rid="Ch1.F5"/>a.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="right"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:thead>
       <oasis:row>
         <oasis:entry colname="col1">Field</oasis:entry>
         <oasis:entry colname="col2">High</oasis:entry>
         <oasis:entry colname="col3">Low</oasis:entry>
         <oasis:entry colname="col4">Difference</oasis:entry>
         <oasis:entry colname="col5">% change</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2"/>
         <oasis:entry colname="col3"/>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5">((H <inline-formula><mml:math id="M47" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>L ) <inline-formula><mml:math id="M48" display="inline"><mml:mo>/</mml:mo></mml:math></inline-formula> H)</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">AOD</oasis:entry>
         <oasis:entry colname="col2">0.67</oasis:entry>
         <oasis:entry colname="col3">0.19</oasis:entry>
         <oasis:entry colname="col4">0.48 <inline-formula><mml:math id="M49" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.01</oasis:entry>
         <oasis:entry colname="col5">71.6</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Cloud fraction</oasis:entry>
         <oasis:entry colname="col2">0.53</oasis:entry>
         <oasis:entry colname="col3">0.55</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M50" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.02 <inline-formula><mml:math id="M51" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.01</oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M52" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>3.8</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">SW down surface (clear sky) (W m<inline-formula><mml:math id="M53" 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>)</oasis:entry>
         <oasis:entry colname="col2">284.42</oasis:entry>
         <oasis:entry colname="col3">298.19</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M54" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>13.77 <inline-formula><mml:math id="M55" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.39</oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M56" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>4.8</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">SW Down Surface (all sky) (W m<inline-formula><mml:math id="M57" 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>)</oasis:entry>
         <oasis:entry colname="col2">241.24</oasis:entry>
         <oasis:entry colname="col3">248.61</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M58" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>7.37 <inline-formula><mml:math id="M59" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 2.29</oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M60" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>3.1</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">SW net surface (clear sky) (W m<inline-formula><mml:math id="M61" 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>)</oasis:entry>
         <oasis:entry colname="col2">237.15</oasis:entry>
         <oasis:entry colname="col3">248.63</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M62" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>11.48 <inline-formula><mml:math id="M63" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.32</oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M64" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>4.8</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">SW net surface (all sky) (W m<inline-formula><mml:math id="M65" 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>)</oasis:entry>
         <oasis:entry colname="col2">201.10</oasis:entry>
         <oasis:entry colname="col3">206.56</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M66" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>5.46 <inline-formula><mml:math id="M67" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 1.93</oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M68" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>2.7</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">SW up TOA (clear sky) (W m<inline-formula><mml:math id="M69" 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>)</oasis:entry>
         <oasis:entry colname="col2">75.32</oasis:entry>
         <oasis:entry colname="col3">72.00</oasis:entry>
         <oasis:entry colname="col4">3.32 <inline-formula><mml:math id="M70" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.09</oasis:entry>
         <oasis:entry colname="col5">4.4</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">SW up TOA (all sky) (W m<inline-formula><mml:math id="M71" 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>)</oasis:entry>
         <oasis:entry colname="col2">110.80</oasis:entry>
         <oasis:entry colname="col3">112.16</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M72" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>1.36 <inline-formula><mml:math id="M73" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 1.67</oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M74" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>1.2</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">SW net TOA (clear sky) (W m<inline-formula><mml:math id="M75" 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>)</oasis:entry>
         <oasis:entry colname="col2">327.55</oasis:entry>
         <oasis:entry colname="col3">330.87</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M76" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>3.33 <inline-formula><mml:math id="M77" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.89</oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M78" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>1.0</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">SW net TOA (all sky) (W m<inline-formula><mml:math id="M79" 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>)</oasis:entry>
         <oasis:entry colname="col2">292.07</oasis:entry>
         <oasis:entry colname="col3">290.72</oasis:entry>
         <oasis:entry colname="col4">1.35 <inline-formula><mml:math id="M80" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 1.8</oasis:entry>
         <oasis:entry colname="col5">0.5</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">LW up TOA (clear sky) (W m<inline-formula><mml:math id="M81" 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>)</oasis:entry>
         <oasis:entry colname="col2">287.07</oasis:entry>
         <oasis:entry colname="col3">286.54</oasis:entry>
         <oasis:entry colname="col4">0.53 <inline-formula><mml:math id="M82" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.93</oasis:entry>
         <oasis:entry colname="col5">0.2</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">LW up TOA (all sky) (W m<inline-formula><mml:math id="M83" 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>)</oasis:entry>
         <oasis:entry colname="col2">264.31</oasis:entry>
         <oasis:entry colname="col3">261.24</oasis:entry>
         <oasis:entry colname="col4">3.07 <inline-formula><mml:math id="M84" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 1.55</oasis:entry>
         <oasis:entry colname="col5">1.1</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Sensible heat flux (W m<inline-formula><mml:math id="M85" 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>)</oasis:entry>
         <oasis:entry colname="col2">58.30</oasis:entry>
         <oasis:entry colname="col3">62.59</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M86" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>4.29 <inline-formula><mml:math id="M87" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.99</oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M88" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>7.4</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Latent heat flux (W m<inline-formula><mml:math id="M89" 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>)</oasis:entry>
         <oasis:entry colname="col2">58.86</oasis:entry>
         <oasis:entry colname="col3">60.64</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M90" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>1.78 <inline-formula><mml:math id="M91" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 1.12</oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M92" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>3.0</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Surface temperature (<inline-formula><mml:math id="M93" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>)</oasis:entry>
         <oasis:entry colname="col2">297.59</oasis:entry>
         <oasis:entry colname="col3">297.73</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M94" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.14 <inline-formula><mml:math id="M95" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.24</oasis:entry>
         <oasis:entry colname="col5">0.0</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Precipitation (mm day<inline-formula><mml:math id="M96" 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>)</oasis:entry>
         <oasis:entry colname="col2">1.79</oasis:entry>
         <oasis:entry colname="col3">2.05</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M97" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.26 <inline-formula><mml:math id="M98" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.1</oasis:entry>
         <oasis:entry colname="col5"><inline-formula><mml:math id="M99" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>14.5</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Surface pressure (hPa)</oasis:entry>
         <oasis:entry colname="col2">944.55</oasis:entry>
         <oasis:entry colname="col3">944.69</oasis:entry>
         <oasis:entry colname="col4"><inline-formula><mml:math id="M100" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>0.14 <inline-formula><mml:math id="M101" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.2</oasis:entry>
         <oasis:entry colname="col5">0.0</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

      <?xmltex \floatpos{t}?><fig id="Ch1.F5" specific-use="star"><caption><p id="d1e1764"><bold>(a)</bold> The September mean biomass burning AOD at 0.44 <inline-formula><mml:math id="M102" display="inline"><mml:mrow><mml:mi mathvariant="normal">µ</mml:mi><mml:mi mathvariant="normal">m</mml:mi></mml:mrow></mml:math></inline-formula> for the high
emissions experiment. The outlined box contains the area used to
calculate mean values in Table <xref ref-type="table" rid="Ch1.T1"/>. <bold>(b)</bold> The September mean biomass burning AOD at 0.44 <inline-formula><mml:math id="M103" display="inline"><mml:mrow><mml:mi mathvariant="normal">µ</mml:mi><mml:mi mathvariant="normal">m</mml:mi></mml:mrow></mml:math></inline-formula> for the low
emissions experiment. <bold>(c)</bold> Plot of the difference in the September AOD between
the high and low
emissions experiment. Stippling
represents 95 % confidence limit.</p></caption>
          <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f05.png"/>

        </fig>

</sec>
<sec id="Ch1.S3.SS2">
  <title>AOD and clouds</title>
      <p id="d1e1809">Figure <xref ref-type="fig" rid="Ch1.F5"/>a and b show the biomass burning AOD
at 0.44 <inline-formula><mml:math id="M104" display="inline"><mml:mrow><mml:mi mathvariant="normal">µ</mml:mi><mml:mi mathvariant="normal">m</mml:mi></mml:mrow></mml:math></inline-formula> over the 30-year
HadGEM3-GA3 run for the high and low emissions case respectively. The high
emissions case has a maximum BB AOD of approximately 1.6 across the central
biomass burning area, and values of up to 0.3 extend to the north and south.
The mean value for the outlined box is 0.68 <inline-formula><mml:math id="M105" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.01. In the low
emissions case the highest values are 0.6, with lower values of 0.1 over most
of the biomass burning area; the mean in the box is 0.19 <inline-formula><mml:math id="M106" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.005 (see
Table <xref ref-type="table" rid="Ch1.T1"/>). In both cases African biomass burning results in a
small transported BB AOD across the South Atlantic, which extends to the
coast of South America. In the two model runs, the biomass emissions from
Africa (and the rest of the world) are identical and are based on
climatological means. The differences (high <inline-formula><mml:math id="M107" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula> low) in BB AOD between the two runs
(Fig. <xref ref-type="fig" rid="Ch1.F5"/>c) are greatest over the BB region, as expected; the BB
AOD transported from Africa shows no difference between the two runs,
confirming that this is not the result of South American BBA. The mean BB AOD
difference in the BB box area is 0.48, a reduction of 71.6 % from the
high case to the low case. As discussed in the previous section, the
difference in emissions is 78 %, suggesting that the majority of the
emissions change is translated to a BB AOD<?pagebreak page5328?> change. The direct relationship
between particulate emission from fire and observed AOD in South America is
noted by <xref ref-type="bibr" rid="bib1.bibx50" id="text.69"/>.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F6" specific-use="star"><caption><p id="d1e1855"><bold>(a)</bold> The September mean cloud fraction for the high
emissions experiment. <bold>(b)</bold> The September mean cloud fraction for the low
emissions experiment. <bold>(c)</bold> Plot of the September difference in the cloud fraction between
the high and low
emissions experiment. Stippling
represents 95 % confidence limit.</p></caption>
          <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f06.png"/>

        </fig>

      <?xmltex \floatpos{t}?><fig id="Ch1.F7" specific-use="star"><caption><p id="d1e1874">September mean vertical profile of cloud fraction for high
emissions, low emissions, H <inline-formula><mml:math id="M108" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula> L compared with the vertical profile of
the aerosol burden mass mixing ratio (MMR) in kilograms per kilogram (kg kg<inline-formula><mml:math id="M109" 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>)
(both quantities averaged over BB box area outlined in area plots).</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f07.png"/>

        </fig>

      <p id="d1e1903">In Fig. <xref ref-type="fig" rid="Ch1.F6"/>a and b the total September average cloud fraction
for the high and low emissions experiments are plotted, showing the
distribution of cloud cover. In both cases the highest cloud fractions are
over the far north-west part of the continent, down into the Amazon basin. Along
the east coast and into the Brazilian Highlands (centred on 15<inline-formula><mml:math id="M110" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S,
45<inline-formula><mml:math id="M111" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W) there is less cloud cover, although it increases again towards
the Plate estuary (35<inline-formula><mml:math id="M112" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, 58<inline-formula><mml:math id="M113" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W). There is also little cloud
over the Andes, but a substantial fraction over the eastern edge of the Andes
mountain range, and high cloud over the Caribbean area (12<inline-formula><mml:math id="M114" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N,
47<inline-formula><mml:math id="M115" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W). In Fig. <xref ref-type="fig" rid="Ch1.F6"/>c the change in cloud fraction
between the high and low emissions case is plotted – the stippled areas
denote a confidence level of 95 %. The cloud fraction is reduced by 0.05 in
much of the biomass burning area (3.8 % averaged over the BB box), although
there is a substantial effect to the north-east of the main AOD difference
(Fig. <xref ref-type="fig" rid="Ch1.F5"/>). The reduction in cloud would be consistent with
semi-direct effects found in other modelling studies, whereby increased
atmospheric heating can reduce convective activity and burn off the clouds
within the aerosol layer <xref ref-type="bibr" rid="bib1.bibx32" id="paren.70"/>. Outside of the area<?pagebreak page5330?> with
high AOD differences higher
emissions appear to result in a slight increase in cloud fraction
in the area to the east of the Andes and just north of the River Plate valley
(34<inline-formula><mml:math id="M116" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, 55<inline-formula><mml:math id="M117" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W); however, the changes in these areas are not
statistically significant at the 95 % confidence level.</p>
      <p id="d1e1989">The profile of cloud fraction with height (averaged over the area outlined in
Fig. <xref ref-type="fig" rid="Ch1.F6"/>a) is shown in Fig. <xref ref-type="fig" rid="Ch1.F7"/> for the high
and low emissions cases. The biomass burning burden profiles are shown for
comparison. Cloud layers are evident at about 1 and 4.2 km, and the presumed
outflow from deep convective clouds at 9–14 km. Despite September being the
dry season these clouds were frequently observed from the aircraft during the
SAMBBA aircraft campaign <xref ref-type="bibr" rid="bib1.bibx41" id="paren.71"/>.</p>
      <p id="d1e1999">In general the low emissions case has more cloud at all levels, with the most
marked differences in the high cloud amount at 9–14 km, and the mid-level
cloud at 3–6 km. Cloud changes below 2 km are small, in part because cloud
cover at these heights is minimal. <xref ref-type="bibr" rid="bib1.bibx34" id="text.72"/> suggest a
reduction in boundary-level clouds can occur where aerosols stabilize the
boundary layer and cool the surface, since the supply of water from the
forest canopy is reduced. Where the aerosol and cloud are at the same height,
i.e. below around 4 km, we would expect the reduction via the semi-direct
effect to be strongest as the heating of the atmosphere due to the presence
of absorbing aerosol promotes cloud evaporation <xref ref-type="bibr" rid="bib1.bibx32" id="paren.73"/>.
However, we see a similar magnitude of cloud reduction for the medium-level
(3–5 km) and the high clouds at 9–14 km, where the aerosol burden is much
lower. A likely mechanism for this reduction in medium and high cloud cover
would be the stabilizing of the atmosphere, due to the aerosols in the lower
levels heating the atmosphere but cooling the ground, stabilizing the
boundary layer, reducing its height and thus reducing the amount of deep
convection occurring in the high emissions case <xref ref-type="bibr" rid="bib1.bibx35" id="paren.74"/>. In
Fig. <xref ref-type="fig" rid="Ch1.F8"/>a the stable boundary layer diagnostic (which is defined to
be set to 1 where the surface buoyancy flux is <inline-formula><mml:math id="M118" display="inline"><mml:mi mathvariant="italic">&lt;</mml:mi></mml:math></inline-formula> 0.0, at each time
step and each grid point; the average indicates the fraction of time in this
state) shows that the high emissions case has a more stable boundary layer,
especially in the areas where we see the most cloud reduction. This tends to
support the explanation that cloud reduction is related to the boundary layer
changes. The boundary layer height varies between 1 and 1.8 km in the BB
box, and in Fig. <xref ref-type="fig" rid="Ch1.F8"/>b the boundary layer height differences show a
reduction for the higher BBA case, due to the reduction in SW radiation
reaching the surface, and the reduction in sensible heat flux
<xref ref-type="bibr" rid="bib1.bibx69 bib1.bibx2" id="paren.75"/>.
The deep convection model diagnostic (defined to be set to 1.0 if deep
convection occurs during a model timestep, 0 if not, similar to the boundary
layer stability diagnostic mentioned above), shown in Fig. <xref ref-type="fig" rid="Ch1.F8"/>c, also
shows the statistically significant reduction in deep convection for the
higher emissions case, across most of the main area of BBA, and also the area
to the west side of the Amazon Basin. There is a dipole change in the
Caribbean, where the area along the north-east coast of South America shows a
statistically significant reduction, and just to the north there is a
(statistically significant) increase for the high emissions case. Although
this is not entirely congruent with the area of highest AOD difference, it is
clear that there is a significant<?pagebreak page5331?> influence of BBA on the deep convection as
represented by this diagnostic, suggesting that the reduction in cloud
fraction may be due predominantly to this mechanism. This change in deep
convection between simulations is likely to be contributing to the high- and
mid-level cloud changes, as in the model some of the mid-level cloud is
likely due to detrainment of deep convective cloud around the freezing level.</p>
      <p id="d1e2028">Where evaporation is reduced and moisture availability for cloud formation
is curtailed, this would also act to inhibit cloud formation
<xref ref-type="bibr" rid="bib1.bibx35" id="paren.76"/>; the relative humidity (not shown) in the high
emissions case is higher at the surface (<inline-formula><mml:math id="M119" display="inline"><mml:mi mathvariant="italic">&lt;</mml:mi></mml:math></inline-formula> 1 km) by around
10 %, but lower throughout the rest of the profile, with the largest
difference (<inline-formula><mml:math id="M120" display="inline"><mml:mo lspace="0mm">-</mml:mo></mml:math></inline-formula>7.5 %) occurring at around 5 km. With a more stable
boundary layer in the high emissions case there is less turbulent transport
of moisture from the surface layer. This would suggest a drier atmosphere at
height is also contributing to reduced cloud formation in the high emissions
case.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F8" specific-use="star"><caption><p id="d1e2050"><bold>(a)</bold> Plot of the September difference in the boundary layer
stability diagnostic between
the high and low
emissions experiment. <bold>(b)</bold> Plot of the September difference in
the boundary layer height between the high and low
emissions experiment (m). <bold>(c)</bold> Plot of the September difference in
the deep convection diagnostic between
the high and low
emissions experiment. Stippling
represents 95 % confidence limit.</p></caption>
          <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f08.png"/>

        </fig>

      <?xmltex \floatpos{t}?><fig id="Ch1.F9"><caption><p id="d1e2070">Vertical profile of September
mean differences of droplet
effective radius (microns) (averaged over the BB box
5–25<inline-formula><mml:math id="M121" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, 40–70<inline-formula><mml:math id="M122" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W)</p></caption>
          <?xmltex \igopts{width=199.169291pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f09.png"/>

        </fig>

      <p id="d1e2097">Considering the indirect effect, in Fig. <xref ref-type="fig" rid="Ch1.F9"/> we see a
reduction in the effective radius of the liquid water drops where increasing
the aerosol amount reduces the effective radius, as suggested by, for
example,
<xref ref-type="bibr" rid="bib1.bibx63 bib1.bibx59 bib1.bibx25 bib1.bibx52" id="text.77"/>. The
vertically integrated droplet concentration also increases for the higher
emissions case, which is consistent with predictions that the increase in
nucleation centres (aerosol particles) will increase the number of droplets.
<xref ref-type="bibr" rid="bib1.bibx56" id="text.78"/> and <xref ref-type="bibr" rid="bib1.bibx66" id="text.79"/> suggest that there is a
competition between the microphysical effects and radiative effects, where
high AOD results in reduced cloud where the radiative effects are dominant,
which is consistent with our results.</p>
</sec>
<sec id="Ch1.S3.SS3">
  <title>Effects on radiation</title>

      <?xmltex \floatpos{t}?><fig id="Ch1.F10" specific-use="star"><caption><p id="d1e2119">The September mean difference between high and low emissions cases for <bold>(a)</bold> the
clear-sky downwelling SW radiation at the surface, <bold>(b)</bold> the
all-sky downwelling SW radiation at the surface, <bold>(c)</bold> the clear-sky upwelling SW radiation at
TOA and <bold>(d)</bold> the all-sky upwelling SW radiation at TOA. Stippling
represents 95 % confidence limit.</p></caption>
          <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f10.png"/>

        </fig>

      <p id="d1e2140">In Fig. <xref ref-type="fig" rid="Ch1.F10"/>a and b we see the difference between the high and
low emissions case in the downward SW radiation at the surface, which largely
follows the areal extent of the difference in the AOD. The results for the
clear-sky (i.e. excluding all clouds) SW reaching the surface (in the BB box)
from our models show the mean reduction in the September mean downwelling
flux is <inline-formula><mml:math id="M123" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>13.77 <inline-formula><mml:math id="M124" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.39 W m<inline-formula><mml:math id="M125" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> (a reduction of 4.8 %) for the
high emissions case compared to the low emissions case. The all-sky
differences include the effect of clouds and indeed changes in the cloud
fraction reduce the area mean change to <inline-formula><mml:math id="M126" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>7.44 <inline-formula><mml:math id="M127" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 2.29 W m<inline-formula><mml:math id="M128" 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>,
indicating that scattering by the clouds above the aerosol reduces the
difference we see due to the aerosol changes alone. The competing effects of
the reduction in SW radiation at the surface due to the BBA and the increase
due to reducing cloud cover control the resulting impact on the SW radiation
at the surface, and in most of the BB box area the BBA has the stronger
effect. There is also a
statistically significant (at the 95 % confidence level) surface
reduction in SW to the north of the Plate Estuary (34<inline-formula><mml:math id="M129" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S,
55<inline-formula><mml:math id="M130" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W),
which we interpret as the effect of the increase in cloud in this
area, as the BB AOD difference is very small here, while the
cloud fraction increases (see Fig. <xref ref-type="fig" rid="Ch1.F6"/>a), resulting in
the reduction of SW radiation at the surface here.</p>
      <p id="d1e2218">The top-of-the-atmosphere (TOA) upwelling SW radiation differences are shown in
Fig. <xref ref-type="fig" rid="Ch1.F10"/>c and d, where the clear-sky differences show an
increase for the high emissions case in the same area as the BB AOD
differences between the two experiments. This illustrates the direct
radiative effect, which is stronger with higher emissions. The all-sky case
is much less clear-cut, as the influence of the clouds results in a
predominantly negative difference. This suggests that the effect of the
reduced cloud cover, and thus reduced scattering by clouds in the high
emissions case, dominates over the increased scattering from the increased
BBA (as seen in the clear-sky case). This changes the sign of the SW
radiative effect at the TOA, causing a net reduction in outgoing SW in the
region. These changes are not statistically significant, however.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F11" specific-use="star"><caption><p id="d1e2226">September mean differences: <bold>(a)</bold> The difference between high and low emissions case for the
clear-sky outgoing LW radiation at TOA. <bold>(b)</bold> The difference between high and low emissions case for the
all-sky outgoing LW radiation at TOA (note the colour scales for
clear sky and all sky are different). <bold>(c)</bold> The difference between
high and low emissions case for the column integrated water
vapour. </p></caption>
          <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f11.png"/>

        </fig>

      <p id="d1e2244">The difference in outgoing longwave radiation at the TOA is shown in Fig. <xref ref-type="fig" rid="Ch1.F11"/>, where the clear-sky
difference shows a generally positive change, such that the increase in
aerosol results in an overall increase in the outgoing LW radiation over much
of the biomass burning area. However, since the aerosol properties prescribed
in the model relate to relatively small aerosol size the BBA has little
effect on LW radiation directly. As the only significant changes are seen in
areas outside the main biomass burning areas, it is much more likely that
these LW changes are related to secondary effects, for example water vapour
changes. Shown in Fig. <xref ref-type="fig" rid="Ch1.F11"/>c, the LW radiation changes are
consistent with decreased column water vapour in the high emissions
experiment, which leads to increased outgoing LW radiation at the TOA. The
aerosol properties prescribed in the model relate to relatively small aerosol
size, and therefore the effect of BBA on LW radiation is negligible. In the
all-sky case (Fig. <xref ref-type="fig" rid="Ch1.F11"/>b), the differences are significant in the
main biomass burning area, but can be directly related to the changes in
cloud fraction between the high and low emissions case; where the clouds are
reduced, we see a greater LW upwelling at the TOA, as the effective emitting
temperature is now lower in the atmosphere and warmer.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F12" specific-use="star"><caption><p id="d1e2255">September mean SW heating rates (averaged over the BB box
5–25<inline-formula><mml:math id="M131" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, 40–70<inline-formula><mml:math id="M132" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W) for high and low emissions: <bold>(a)</bold> clear
sky,
<bold>(b)</bold>  all-sky and <bold>(c)</bold> all-sky–clear-sky differences, showing heating
rate changes due to cloud only.</p></caption>
          <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f12.png"/>

        </fig>

      <p id="d1e2291">The clear-sky SW heating rate is shown in Fig. <xref ref-type="fig" rid="Ch1.F12"/>a for the high
and low emissions results. The largest difference between the high and low
emissions case is below 5 km, coincident with the majority of the absorbing
aerosol, resulting in an increased heating rate of the atmosphere for the
high emissions compared to the low emissions case. As the BBA is absorbing
(with an SSA <inline-formula><mml:math id="M133" display="inline"><mml:mi mathvariant="italic">&lt;</mml:mi></mml:math></inline-formula> 1.0) it absorbs some fraction of the SW, and an
increase in BBA results in an increase in the heating rate. The maximum
heating rate also appears to be at a slightly lower altitude for the high
emissions case. Above 5 km there is a much smaller difference, with a very
slight negative difference at 9 to 15 km (i.e. the high emissions have a
slightly lower heating rate at this altitude).</p>
      <?pagebreak page5332?><p id="d1e2303">The all-sky heating (Fig. <xref ref-type="fig" rid="Ch1.F12"/>b) rate shows broadly similar
characteristics, but we see a dip in the heating rate in both cases at 500 m
height, which is more marked in the high emissions case, and subsequently
there is a less linear profile in both high and low emissions cases. The
presence of clouds provides absorption and scattering of SW radiation above
the main BBA layer resulting in an increase in the heating rate at levels
containing clouds, relative to the clear-sky case. The SW heating rate is
reduced below the cloud, as less SW radiation reaches these altitudes and
thus the heating rates here are reduced. The effect of the clouds is stronger
in the low emissions case, as there is more cloud here, but the differences
due to cloud cover compared to the clear sky are not large. The differences
between the all-sky and clear-sky heating rates (Fig. <xref ref-type="fig" rid="Ch1.F12"/>c)
illustrate the heating rate changes due to cloud only; beneath 4 km, clouds
cause a cooling but differences between the two experiments are minimal.
Above 4 km the clouds warm the atmosphere, with the extra cloud cover in the
low emissions case producing a larger cloud heating rate than for the high
emissions (reduced cloud) case.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F13" specific-use="star"><caption><p id="d1e2313">September mean LW heating rates (averaged over the BB box
5–25<inline-formula><mml:math id="M134" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, 40–70<inline-formula><mml:math id="M135" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W) for high and low emissions for <bold>(a)</bold> clear
sky,
<bold>(b)</bold> all sky and <bold>(c)</bold> all-sky–clear-sky differences.</p></caption>
          <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f13.png"/>

        </fig>

      <p id="d1e2349">In Fig. <xref ref-type="fig" rid="Ch1.F13"/>a the clear-sky LW heating rates show cooling up to
15 km (tropopause), with the largest cooling of <inline-formula><mml:math id="M136" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula>2.5 K day<inline-formula><mml:math id="M137" 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
4–5 km (note the difference in scales from the SW plots). The low emission
experiments show less cooling than the high emission experiment below 6 km,
which then reverses from 6 to 14 km. In the all-sky plot
(Fig. <xref ref-type="fig" rid="Ch1.F13"/>b) we see below 4 km that a reduction in cloud leads to
more LW cooling of the lower atmosphere. Above 4 km, the reduced cloud leads
to a slight warming of the atmosphere due to the upward longwave emissions
from below. Higher BBA emissions reduce the cloud cover resulting in a
reduction in the absorption of radiation, and thus less LW re-emission from
the clouds. There may also be an increase in LW emission due to the increased
temperatures in the BBA layer (0–4 km). The all-sky–clear-sky difference
plot (Fig. <xref ref-type="fig" rid="Ch1.F13"/>c) shows the impact of the cloud changes alone on
the<?pagebreak page5333?> heating rates, demonstrating
the effect of higher emissions reducing the cloud cover, reduced heating
between the cloud layers (e.g. near the surface and at 3 km) and increased
cooling within the cloud layers (1 and 4 km), but there is very little
change at higher altitudes. Within the BBA layer
we can see the semi-direct effect of the cloud burn-off, but the higher cloud
(12 km and above) appears to be responding to stability changes.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F14" specific-use="star"><caption><p id="d1e2379"><bold>(a)</bold> September mean differences (high <inline-formula><mml:math id="M138" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula> low) for  <bold>(a)</bold> sensible
heat flux  <bold>(b)</bold> latent heat flux. Stippling represents the 95 % confidence interval.</p></caption>
          <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f14.png"/>

        </fig>

      <p id="d1e2403">The effects of the BBA on the sensible heat flux are shown in
Fig. <xref ref-type="fig" rid="Ch1.F14"/>a, where the higher emissions result in a reduced
sensible heat flux, due to the reduction in SW radiation cooling the surface
(cf. Fig. <xref ref-type="fig" rid="Ch1.F10"/>b). There are also significant differences around
the Plate Estuary, which may be due to an increase in cloud cover in this
area for the high emissions case which reduces the SW radiation reaching the
surface, and thus also reduces the sensible heat flux. The spatial agreement
with the main differences in BB AOD (see Fig. <xref ref-type="fig" rid="Ch1.F5"/>) is
generally good, suggesting this is largely an effect of the increased BB AOD
in this case. The latent heat flux differences show statistically significant
reductions for the high emissions case in the area to the north of, and in
the centre of, the main BB area. However, these changes are not strongly
co-located with the BB AOD changes and are possibly related to reductions in
available moisture due to reduced precipitation and circulation changes
affecting the latent heat flux, which are investigated in the next section.
These results are consistent with those of <xref ref-type="bibr" rid="bib1.bibx67" id="text.80"/>.</p>
</sec>
<?pagebreak page5334?><sec id="Ch1.S3.SS4">
  <title>Meteorology</title>

      <?xmltex \floatpos{t}?><fig id="Ch1.F15" specific-use="star"><caption><p id="d1e2423">September mean differences (high <inline-formula><mml:math id="M139" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula> low) for <bold>(a)</bold> surface
temperature,
<bold>(b)</bold>
total precipitation (stippling represents the
95 % confidence interval) and <bold>(c)</bold> moisture flux differences at
850 mb;
coloured contours are the magnitude of the moisture flux.</p></caption>
          <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f15.png"/>

        </fig>

      <p id="d1e2448">There is a mean change (in the BB box) in the surface temperature between the
high and low emissions runs of 0.14 <inline-formula><mml:math id="M140" display="inline"><mml:mo>±</mml:mo></mml:math></inline-formula> 0.23 <inline-formula><mml:math id="M141" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C, with a
statistically significant maximum decrease of approximately 0.8 <inline-formula><mml:math id="M142" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C in
the north part of the BB box. There is a maximum increase of approximately
0.5 <inline-formula><mml:math id="M143" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C around the southern part of the Brazilian highlands; however,
this increase is not statistically significant (25<inline-formula><mml:math id="M144" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, 50<inline-formula><mml:math id="M145" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W), as shown in Fig. <xref ref-type="fig" rid="Ch1.F15"/>a. The spatial pattern here reflects
the BB AOD differences in part, where the absorption and scattering of SW by
the aerosol reduces the surface temperature. There are increases in surface
temperature where the clouds are reduced near the southern Brazilian
Highlands; here the cloud reduction allows more of the SW radiation through,
and the extinction due to the BBA is somewhat lower than in the north of the
box. The competing effects of the direct effect reducing the SW radiation
reaching the surface and the reduction in cloud cover increasing the SW
radiation at the surface are clear, controlling the mixed geographical
response of the surface temperature overall.</p>
      <p id="d1e2506">The differences in total precipitation are shown in Fig. <xref ref-type="fig" rid="Ch1.F15"/>b, where the overall effect in much of the northern
part of the continent is a reduction in the total precipitation, particularly
marked in the western Amazon basin and the Caribbean. Further south we see an
increase in the area just north of the River Plate (30<inline-formula><mml:math id="M146" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, 55<inline-formula><mml:math id="M147" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W), which corresponds to the area of increase in cloud fraction
seen in Fig. <xref ref-type="fig" rid="Ch1.F6"/>;<?pagebreak page5335?> however, this increase is not statistically
significant at the 95 % confidence level. The decreased aerosol in the low
emissions case leads to a 14.5 % increase in precipitation in the BB box
with mean precipitation increasing from 1.78 mm day<inline-formula><mml:math id="M148" 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> (high emissions) to 2.05 mm day<inline-formula><mml:math id="M149" 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> (low emissions).</p>
      <p id="d1e2556">The decrease in precipitation seen in the high emissions experiment is
consistent with the reduced cloud and latent heat flux, and the more stable
boundary layer seen in this experiment. The resulting reduction in
precipitation could result in a reduction in soil moisture content, partly
explaining the reduction in latent heat flux shown in Fig. <xref ref-type="fig" rid="Ch1.F14"/>b. <xref ref-type="bibr" rid="bib1.bibx20" id="text.81"/> analysed rainfall
data in the Amazon and suggest that the influence of biomass burning on
precipitation is dependent in part on the degree of atmospheric instability.
In a more stable atmosphere, BBA tends to decrease the precipitation; they
also note that increasing cloud droplet number, and decreasing droplet size,
would act to reduce precipitation in the absence of strong convection. In
Fig. <xref ref-type="fig" rid="Ch1.F15"/>c the moisture<?pagebreak page5336?> flux at 850 mb shows the increase in
moisture transported by the low-level jet east of the Andes, which together
with the increased flux from the South Atlantic combines to produce the increase
in precipitation seen at 30<inline-formula><mml:math id="M150" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, 50<inline-formula><mml:math id="M151" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> W.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F16" specific-use="star"><caption><p id="d1e2587">September mean wind circulation at 850 hPa for <bold>(a)</bold>  high
emissions case (coloured contours are mean September pressure in
hPa), <bold>(b)</bold> low emissions case, and <bold>(c)</bold> differences in pressure and wind circulation
for high <inline-formula><mml:math id="M152" display="inline"><mml:mo>-</mml:mo></mml:math></inline-formula> low runs. Coloured contours in <bold>(a)</bold> and <bold>(b)</bold> are surface pressure
and in <bold>(c)</bold> surface pressure differences in hPa.</p></caption>
          <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f16.png"/>

        </fig>

      <p id="d1e2622">The surface pressure and 850 hPa circulation for high and low emissions are
shown in Fig. <xref ref-type="fig" rid="Ch1.F16"/>a and b. The ERA-Interim mean September
surface pressure and circulation (averaged over a similar timescale) are
shown in the Supplement (Fig. S1 and Fig. S2 in the Supplement) for
comparison and show that in general both surface pressure and the circulation
are well represented by the model, although the wind flow seems to be
somewhat more zonal between 0 and 10<inline-formula><mml:math id="M153" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S in the ERA-Interim plot. The
model results for surface pressure are broadly similar for both the high and
low emissions experiments, with a high-pressure area in the central Amazon
basin, and low pressure to the north and west. We also see high pressure
along the eastern side of the Andes, down towards the River Plate estuary,
and a high-pressure system in the south-east Atlantic, which shows some
difference in position between the high and low emissions case. The surface
pressure differences (Fig. <xref ref-type="fig" rid="Ch1.F16"/>c) show a slight increase in
the Amazon basin area, but a larger decrease down in the southern part of
Brazil and around the Plate Estuary. We also see a difference in the South
Atlantic, which is related to the position of the South Atlantic high
shifting between the high and low emissions case. The pressure differences
are of the order of 1 hPa, with significant changes at
the 95 % confidence level in the Caribbean area and in southern
Argentina.</p>
      <p id="d1e2638">The change in pressure patterns corresponds to the change in winds at
850 hPa. (Fig. <xref ref-type="fig" rid="Ch1.F16"/>a and b). The general circulation is
easterly across the Amazon basin, south-easterly in the Caribbean, and
tending to north-easterly to the south of the Amazon mouth. In the southern
part of Brazil we see a northerly direction, turning westerly at the southern
tip of the continent. Although the overall circulation patterns are similar
for the two experiments, we do see differences between the high and low
emissions case in Fig. <xref ref-type="fig" rid="Ch1.F16"/>c, the largest effect being a
strengthening of the low-level jet that runs along the eastern side of the
Andes, from around 10 to 30<inline-formula><mml:math id="M154" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S, down to the Plate Estuary. Analysing
the zonal and meridional components suggests that the most significant change
is in the zonal component, possibly suggesting a change in direction as well
as in strength. There is also a change in the circulation due to the shift in
the South Atlantic high-pressure system, where the easterlies are weaker in the
low emissions case, and have a more southward component in the high emissions
case. In the Caribbean area the prevailing easterlies and south-easterlies
are weaker in the high emissions case.</p>
</sec>
</sec>
<sec id="Ch1.S4">
  <title>Impacts on the monsoon</title>
      <p id="d1e2661"><xref ref-type="bibr" rid="bib1.bibx18" id="text.82"/> suggest that local thermodynamical processes may be
important for onset of the monsoon, whilst the strength of the low-level jet
to the east of the Andes is an important source of moisture for the
subtropical convection that brings rainfall to the south of the region in the
wet season (e.g. <xref ref-type="bibr" rid="bib1.bibx39" id="altparen.83"/>). As these features appear
sensitive to the aerosol emissions during September (see
Sect. <xref ref-type="sec" rid="Ch1.S3.SS4"/>) we now consider whether there is any discernible
difference in the transition to monsoon regime between high and low aerosol
simulations. We do this in only a broad sense, since the temporal resolution
of our output is not sufficient to identify a specific monsoon onset date,
and in any case, the definition of onset is a matter of some debate in the
literature <xref ref-type="bibr" rid="bib1.bibx39" id="paren.84"/>. The transition to the wet season
between September and November is broadly similar in the model as shown in
previous studies <xref ref-type="bibr" rid="bib1.bibx46 bib1.bibx39 bib1.bibx42 bib1.bibx43" id="paren.85"/> and is comprised of the following</p>
      <p id="d1e2677"><list list-type="bullet">
          <list-item>

      <p id="d1e2682">a shift to northerly and north-easterly  wind across the Amazon basin,</p>
          </list-item>
          <list-item>

      <p id="d1e2688">strengthening of the northerly low-level jet to the east of the Andes,</p>
          </list-item>
          <list-item>

      <p id="d1e2694">eastward movement  and weakening of the high-pressure system,</p>
          </list-item>
          <list-item>

      <p id="d1e2700">a shift to cross-equatorial rather than zonal flow to the north of the region,</p>
          </list-item>
          <list-item>

      <p id="d1e2706">increased rainfall over the Amazonian basin that extends southwards
and eastwards moving through October and November.</p>
          </list-item>
        </list>These changes are shown in Fig. S5, where the high
emissions case is used to show the mean November meteorology,
exemplifying the changes described above.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F17" specific-use="star"><caption><p id="d1e2714">Plot showing the differences in meteorological variables for
October and November: <bold>(a)</bold> differences in mean circulation for
October;
<bold>(b)</bold>  differences in mean surface pressure for October; <bold>(c)</bold> differences in
mean precipitation for October; <bold>(d)</bold> differences in mean circulation
for November; <bold>(e)</bold> differences in mean surface pressure for November; <bold>(f)</bold> differences in mean precipitation for November.
(Note the difference in projection and area from previous plots.) </p></caption>
        <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://acp.copernicus.org/articles/18/5321/2018/acp-18-5321-2018-f17.jpg"/>

      </fig>

      <p id="d1e2742">Significant differences are seen in October surface pressure between high and
low emissions simulations across the South Atlantic and South Pacific,
reflecting slightly different positions of the high pressure in each case,
and on the east of the Andes where pressure is lower in the higher emissions
case, but this does not extend into November (Fig. <xref ref-type="fig" rid="Ch1.F17"/>b
and e). We do, however, find a significant decrease in November precipitation
(Fig. <xref ref-type="fig" rid="Ch1.F17"/>f) across the Amazon basin area in the higher
emissions simulations, which is consistent with enhanced transport of moisture
from the Amazonian basin by the strengthened jet (Fig. <xref ref-type="fig" rid="Ch1.F16"/>c)
on the east of the Andes in the high emissions case.
The <xref ref-type="bibr" rid="bib1.bibx17" id="text.86"/> examination of biomass burning in regional climate
models suggested that aerosols might oppose the transition to monsoon state,
with strong absorption stabilizing the troposphere in the southern Amazonian
region. Whilst the results in our model suggest that the strengthening of the
jet east of the Andes may also have an effect, further simulations with
higher temporal resolution of output would be needed to establish the
mechanism by which aerosol emissions appear to affect the monsoon rainfall.</p>
</sec>
<?pagebreak page5337?><sec id="Ch1.S5" sec-type="conclusions">
  <title>Discussion and conclusions</title>
      <p id="d1e2761">The aim of the work described here
was to investigate the impact of biomass burning emissions on the regional
climate in South America using the Met Office Unified Model HadGEM3 GA3 model.
We examine this through two 30-year climate runs with BBA emissions taken
from the GFED v3.1 dataset, representing low and high emission years. We
adjust ambient BBA optical and hygroscopic properties based on the literature
and on recent airborne in situ measurements from the SAMBBA project. We
employ a global BBA emission scaling factor of 2 in order to generate AODs
comparable to observations. Reconciling surface particulate matter
concentrations and AODs for BBA between models and observations is a
continuing problem for climate models and the scientific community, largely
impacted by the hygroscopic activity of BBA and choice of emission dataset
and version, and we urge further research in this area in order to reduce
modelling and observational uncertainties.</p>
      <p id="d1e2764">We have found clear semi-direct effects of the biomass burning aerosol in
September, with the results indicating a significant burning off and an
additional effect on cloud cover from reduced deep convection, as the
aerosols stabilize the boundary layer and suppress surface fluxes. Changes in
the cloud microphysical properties (i.e. effective radius of the droplets)
are evidence for the first indirect effect occurring as a result of increased
BBA. The changes in the SW radiation for higher BB emissions are as expected
from the direct effect, with a reduction in downwelling SW radiation at the
surface and an increase in outgoing SW radiation at the TOA in the clear-sky
case. The all-sky (cloud effects included) case shows less of a reduction at
the surface, due to the decrease in cloud cover, which indicates that the BBA
dominates the surface radiation SW flux while simultaneously decreasing cloud
cover. The effect on the outgoing SW radiation at the TOA is more mixed. The
LW radiation changes are controlled mainly by cloud changes, although WV
changes induced by the BBA also contribute. Atmospheric heating is increased
in the presence of more aerosol, and surface fluxes respond to the reduction
in the surface SW radiation with both the sensible and latent heat fluxes
being reduced. The reduced SW radiation also lowers the surface temperature,
where a combination of the aerosol and the aerosol–cloud interactions causes
reductions in surface temperature in areas of higher BB AOD, and an increase
in areas where the cloud cover is sufficiently reduced to counterbalance the
cooling effects of the BB AOD. There is a potential feedback from the
reduction in SW radiation at the surface and heating by the aerosol at higher
altitudes causing cloud burn-off and increased boundary layer stability; the increased
stability reduces cloud generation and leads to a further reduction in the
cloud cover. This process will break down if the increase in SW radiation
reaching the surface due to loss of cloud cover dominates over the BBA
effects, allowing the boundary layer to once again destabilize <xref ref-type="bibr" rid="bib1.bibx35" id="paren.87"/>.
The mean September precipitation in parts of the BB area is significantly
reduced (up to 15 %) in the BB box, with some reduction also occurring in
parts of the Amazon basin, most markedly towards the western edge. There is
also an effect on the surface pressure and changes to the low-level (850 mb)
circulation, in particular the low-level jet east of the Andes and the South
Atlantic high-pressure system.</p>
      <p id="d1e2770">The impact on the monsoon is less clear-cut; however, we see distinct
differences in November between the high<?pagebreak page5338?> and low
emissions experiments. The changes in the surface pressure and circulation,
in particular the low-level jet which brings moisture down from the Amazon,
and the shift in position of the South Atlantic high-pressure system affect
monsoon development <xref ref-type="bibr" rid="bib1.bibx46" id="paren.88"/>. There is significant
reduction in precipitation along the eastern side of the Andes and around the
Plate Estuary area. These changes in the precipitation due to the BBA suggest
that there is a continuation of the effect of the BBA on precipitation
through to November, and thus on the monsoon. We note that in order to see
any possible effects on the timing of monsoon onset a finer temporal
resolution in the model output would be required. A further caveat is that
the model is not a fully coupled atmosphere–ocean model, so the atmospheric
changes do not influence the sea surface temperature so that effects of
sea surface temperature changes, in particular on the monsoon development
<xref ref-type="bibr" rid="bib1.bibx42 bib1.bibx38" id="paren.89"/>, are not being modelled in
these experiments.</p>
      <p id="d1e2779">The experiments described use emission inputs for two different years in
order to gauge how the climate effects differ between years with high and low
emissions instead of comparing a BBA-free atmosphere with a high-BB-aerosol
case. Our approach does tend to lessen the signal to noise in the<?pagebreak page5339?> results
compared to a biomass burning vs. no biomass burning comparison, but allows
us to demonstrate that significant climate differences can result from the
realistic annual variations seen in the BBA emissions in South America, which
can be reasonably related to changes in deforestation, due to the strong
positive relationship demonstrated between deforestation rates and BBA
emissions <xref ref-type="bibr" rid="bib1.bibx50" id="paren.90"/>.</p>
</sec>

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

      <p id="d1e2789">The FAAM aircraft data from the SAMBBA campaigns are
publicly available from the Centre for Environmental Data Analysis:
<uri>http://catalogue.ceda.ac.uk/?q=SAMBBA</uri>. The AERONET data are publicly
available from NASA Goddard Space Flight Center and can be downloaded from
<uri>http://aeronet.gsfc.nasa.gov/</uri>. Output from the HadGEM3 model runs can
be obtained on request from the authors.</p>
  </notes><app-group>
        <supplementary-material position="anchor"><p id="d1e2798">The supplement related to this article is available online at: <inline-supplementary-material xlink:href="https://doi.org/10.5194/acp-18-5321-2018-supplement" xlink:title="pdf">https://doi.org/10.5194/acp-18-5321-2018-supplement</inline-supplementary-material>.</p></supplementary-material>
        </app-group><notes notes-type="authorcontribution">

      <p id="d1e2807">CLR set up and performed the model runs for which BTJ provided
emissions files. GDT analysed the model
run results. GDT prepared the paper, CLR wrote the model
set-up sections and all authors contributed
to scientific discussions and helped in writing the paper.</p>
  </notes><notes notes-type="competinginterests">

      <p id="d1e2813">The authors declare that they have no conflict of
interest.</p>
  </notes><notes notes-type="sistatement">

      <p id="d1e2819">This article is part of the special issue “South AMerican
Biomass Burning Analysis (SAMBBA)”. It is not associated with a conference.</p>
  </notes><ack><title>Acknowledgements</title><p id="d1e2825">This work was funded by the Natural Environment Research Council (NERC)
through the South American Biomass Burning Analysis (SAMBBA) project under
NERC grant number NE/J008435/1. This work used the ARCHER UK National
Supercomputing Service to perform the model experiments. The Facility for
Airborne Atmospheric Measurement (FAAM) BAe-146 Atmospheric Research Aircraft
is jointly funded by the Met Office and Natural Environment Research Council
and operated by DirectFlight Ltd. We would like to thank the dedicated
efforts of FAAM, DirectFlight, INPE, the University of São Paulo, and the
Brazilian Ministry of Science and Technology in making the SAMBBA measurement
campaign possible.<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?> Edited by: Hugh
Coe<?xmltex \hack{\newline}?>
Reviewed by: two anonymous referees</p></ack><ref-list>
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    <!--<article-title-html>The effect of South American biomass burning aerosol emissions on the regional climate</article-title-html>
<abstract-html><p>The impact of biomass burning aerosol (BBA) on the regional climate in South
America is assessed using 30-year simulations with a global atmosphere-only
configuration of the Met Office Unified Model. We compare two simulations of
high and low emissions of biomass burning aerosol based on realistic
interannual variability. The aerosol scheme in the model has hygroscopic
growth and optical properties for BBA informed by recent observations,
including those from the recent South American Biomass Burning Analysis
(SAMBBA) intensive aircraft observations made during September 2012. We find
that the difference in the September (peak biomass emissions month) BBA
optical depth between a simulation with high emissions and a simulation with
low emissions corresponds well to the difference in the BBA emissions between
the two simulations, with a 71.6&thinsp;% reduction from high to low emissions
for both the BBA emissions and the BB AOD in the region with maximum
emissions (defined by a box of extent 5–25°&thinsp;S, 40–70°&thinsp;W,
used for calculating mean values given below). The cloud cover at all
altitudes in the region of greatest BBA difference is reduced as a result of
the semi-direct effect, by heating of the atmosphere by the BBA and changes
in the atmospheric stability and surface fluxes. Within the BBA layer the
cloud is reduced by burn-off, while the higher cloud changes appear to be
responding to stability changes. The boundary layer is reduced in height and
stabilized by increased BBA, resulting in reduced deep convection and reduced
cloud cover at heights of 9–14&thinsp;km, above the layer of BBA. Despite the
decrease in cloud fraction, September downwelling clear-sky and all-sky
shortwave radiation at the surface is reduced for higher emissions by
13.77&thinsp;±&thinsp;0.39&thinsp;W&thinsp;m<sup>−2</sup> (clear-sky) and
7.37&thinsp;±&thinsp;2.29&thinsp;W&thinsp;m<sup>−2</sup> (all-sky), whilst the upwelling shortwave
radiation at the top of atmosphere is increased in clear sky by
3.32&thinsp;±&thinsp;0.09 W&thinsp;m<sup>−2</sup>, but decreased by −1.36±1.67&thinsp;W&thinsp;m<sup>−2</sup>
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aerosol layer by 18&thinsp;% in the high emissions case. The mean surface
temperature is reduced by 0.14&thinsp;±&thinsp;0.24&thinsp;°C and mean
precipitation is reduced by 14.5&thinsp;% in the peak biomass region due to both
changes in cloud cover and cloud microphysical properties. If the increase in
BBA occurs in a particularly dry year, the resulting reduction in
precipitation may exacerbate the drought. The position of the South Atlantic
high pressure is slightly altered by the presence of increased BBA, and the
strength of the southward low-level jet to the east of the Andes is
increased. There is some evidence that some impacts of increased BBA persist
through the transition into the monsoon, particularly in precipitation, but
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