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<front>
<journal-meta>
<journal-id journal-id-type="publisher-id">Front. Ecol. Evol.</journal-id>
<journal-title>Frontiers in Ecology and Evolution</journal-title>
<abbrev-journal-title abbrev-type="pubmed">Front. Ecol. Evol.</abbrev-journal-title>
<issn pub-type="epub">2296-701X</issn>
<publisher>
<publisher-name>Frontiers Media S.A.</publisher-name>
</publisher>
</journal-meta>
<article-meta>
<article-id pub-id-type="doi">10.3389/fevo.2021.742626</article-id>
<article-categories>
<subj-group subj-group-type="heading">
<subject>Ecology and Evolution</subject>
<subj-group>
<subject>Original Research</subject>
</subj-group>
</subj-group>
</article-categories>
<title-group>
<article-title>Distinct Community-Wide Responses to Forecasted Climate Change in Afrotropical Forests</article-title>
</title-group>
<contrib-group>
<contrib contrib-type="author" corresp="yes">
<name><surname>N&#x00FA;&#x00F1;ez</surname> <given-names>Chase L.</given-names></name>
<xref ref-type="aff" rid="aff1"><sup>1</sup></xref>
<xref ref-type="aff" rid="aff2"><sup>2</sup></xref>
<xref ref-type="aff" rid="aff3"><sup>3</sup></xref>
<xref ref-type="aff" rid="aff4"><sup>4</sup></xref>
<xref ref-type="corresp" rid="c001"><sup>&#x002A;</sup></xref>
<uri xlink:href="http://loop.frontiersin.org/people/1410061/overview"/>
</contrib>
<contrib contrib-type="author">
<name><surname>Poulsen</surname> <given-names>John R.</given-names></name>
<xref ref-type="aff" rid="aff3"><sup>3</sup></xref>
<xref ref-type="aff" rid="aff4"><sup>4</sup></xref>
<uri xlink:href="http://loop.frontiersin.org/people/671968/overview"/>
</contrib>
<contrib contrib-type="author">
<name><surname>White</surname> <given-names>Lee J. T.</given-names></name>
<xref ref-type="aff" rid="aff5"><sup>5</sup></xref>
<xref ref-type="aff" rid="aff6"><sup>6</sup></xref>
<xref ref-type="aff" rid="aff7"><sup>7</sup></xref>
</contrib>
<contrib contrib-type="author">
<name><surname>Medjibe</surname> <given-names>Vincent</given-names></name>
<xref ref-type="aff" rid="aff3"><sup>3</sup></xref>
<xref ref-type="aff" rid="aff5"><sup>5</sup></xref>
</contrib>
<contrib contrib-type="author">
<name><surname>Clark</surname> <given-names>James S.</given-names></name>
<xref ref-type="aff" rid="aff3"><sup>3</sup></xref>
<xref ref-type="aff" rid="aff4"><sup>4</sup></xref>
<uri xlink:href="http://loop.frontiersin.org/people/1126008/overview"/>
</contrib>
</contrib-group>
<aff id="aff1"><sup>1</sup><institution>Department for the Ecology of Animal Societies, Max Planck Institute of Animal Behavior</institution>, <addr-line>Baden-W&#x00FC;rttemberg</addr-line>, <country>Germany</country></aff>
<aff id="aff2"><sup>2</sup><institution>Centre for the Advanced Study of Collective Behaviour, University of Konstanz</institution>, <addr-line>Konstanz</addr-line>, <country>Germany</country></aff>
<aff id="aff3"><sup>3</sup><institution>Nicholas School of the Environment, Duke University</institution>, <addr-line>Durham, NC</addr-line>, <country>United States</country></aff>
<aff id="aff4"><sup>4</sup><institution>University Program in Ecology, Duke University</institution>, <addr-line>Durham, NC</addr-line>, <country>United States</country></aff>
<aff id="aff5"><sup>5</sup><institution>Agence Nationale des Parcs Nationaux</institution>, <addr-line>Libreville</addr-line>, <country>Gabon</country></aff>
<aff id="aff6"><sup>6</sup><institution>Institut de Recherche en Ecologie Tropicale</institution>, <addr-line>Libreville</addr-line>, <country>Gabon</country></aff>
<aff id="aff7"><sup>7</sup><institution>African Forest Ecology Group, School of Natural Sciences, University of Stirling</institution>, <addr-line>Stirling</addr-line>, <country>United Kingdom</country></aff>
<author-notes>
<fn fn-type="edited-by"><p>Edited by: Jon Fjelds&#x00E5;, University of Copenhagen, Denmark</p></fn>
<fn fn-type="edited-by"><p>Reviewed by: M&#x00E1;rio Gabriel Santiago Santos, University of Tr&#x00E1;s-os-Montes and Alto Douro, Portugal; Luca Vitale, Institute for Agricultural and Forestry Systems in the Mediterranean, National Research Council of Italy (CNR), Italy</p></fn>
<corresp id="c001">&#x002A;Correspondence: Chase L. N&#x00FA;&#x00F1;ez, <email>cnunez@ab.mpg.de</email></corresp>
<fn fn-type="other" id="fn004"><p>This article was submitted to Population, Community, and Ecosystem Dynamics, a section of the journal Frontiers in Ecology and Evolution</p></fn>
</author-notes>
<pub-date pub-type="epub">
<day>18</day>
<month>01</month>
<year>2022</year>
</pub-date>
<pub-date pub-type="collection">
<year>2021</year>
</pub-date>
<volume>9</volume>
<elocation-id>742626</elocation-id>
<history>
<date date-type="received">
<day>16</day>
<month>07</month>
<year>2021</year>
</date>
<date date-type="accepted">
<day>29</day>
<month>12</month>
<year>2021</year>
</date>
</history>
<permissions>
<copyright-statement>Copyright &#x00A9; 2022 N&#x00FA;&#x00F1;ez, Poulsen, White, Medjibe and Clark.</copyright-statement>
<copyright-year>2022</copyright-year>
<copyright-holder>N&#x00FA;&#x00F1;ez, Poulsen, White, Medjibe and Clark</copyright-holder>
<license xlink:href="http://creativecommons.org/licenses/by/4.0/"><p>This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.</p></license>
</permissions>
<abstract>
<p>More refined knowledge of how tropical forests respond to changes in the abiotic environment is necessary to mitigate climate change, maintain biodiversity, and preserve ecosystem services. To evaluate the unique response of diverse Afrotropical forest communities to disturbances in the abiotic environment, we employ country-wide tree species inventories, remotely sensed climate data, and future climate predictions collected from 104 1-ha plots in the central African country of Gabon. We predict a 3&#x2013;8% decrease in Afrotropical forest species richness by the end of the century, in contrast to the 30&#x2013;50% loss of plant diversity predicted to occur with equivalent warming in the Neotropics. This work reveals that forecasts of community species composition are not generalizable across regions, and more representative studies are needed in understudied diverse biomes. This study serves as an important counterpoint to work done in the Neotropics by providing contrasting predictions for Afrotropical forests with substantially different ecological, evolutionary, and anthropogenic histories.</p>
</abstract>
<kwd-group>
<kwd>afrotropics</kwd>
<kwd>Gabon</kwd>
<kwd>joint attribute modeling</kwd>
<kwd>biodiversity</kwd>
<kwd>community</kwd>
</kwd-group>
<counts>
<fig-count count="5"/>
<table-count count="0"/>
<equation-count count="0"/>
<ref-count count="95"/>
<page-count count="10"/>
<word-count count="7211"/>
</counts>
</article-meta>
</front>
<body>
<sec id="S1" sec-type="intro">
<title>Introduction</title>
<p>The anticipated pace of global warming is predicted to result in large declines of tropical biodiversity (<xref ref-type="bibr" rid="B3">Aubry-Kientz et al., 2019</xref>), leading to biotic attrition of the lowland tropics (<xref ref-type="bibr" rid="B78">Sala et al., 2000</xref>; <xref ref-type="bibr" rid="B87">van Vuuren et al., 2006</xref>; <xref ref-type="bibr" rid="B21">Colwell et al., 2008</xref>; <xref ref-type="bibr" rid="B32">Feeley et al., 2011</xref>; <xref ref-type="bibr" rid="B41">Hooper et al., 2012</xref>; <xref ref-type="bibr" rid="B26">Dexter et al., 2018</xref>, but see <xref ref-type="bibr" rid="B31">Feeley and Silman, 2010</xref>). Effects of climate change may be indirect (<xref ref-type="bibr" rid="B12">Carley et al., 2021</xref>; <xref ref-type="bibr" rid="B15">Clark et al., 2021</xref>; <xref ref-type="bibr" rid="B74">Qiu et al., 2021</xref>), and most acutely felt by long-lived organisms like trees that endure several degrees of warming within a single lifetime, without the benefit of adaptive nimbleness available to shorter lived species (<xref ref-type="bibr" rid="B51">Malhi et al., 2014</xref>; <xref ref-type="bibr" rid="B15">Clark et al., 2021</xref>). Tropical forests contain over 40,000 tree species (<xref ref-type="bibr" rid="B84">Slik et al., 2015</xref>), shelter over half of all animal species (<xref ref-type="bibr" rid="B67">Pimm and Raven, 2000</xref>), and store much of the planet&#x2019;s carbon (<xref ref-type="bibr" rid="B86">Sullivan et al., 2017</xref>; <xref ref-type="bibr" rid="B5">Beirne et al., 2019</xref>; <xref ref-type="bibr" rid="B72">Poulsen et al., 2020</xref>) while covering only 7% of the Earth&#x2019;s surface (<xref ref-type="bibr" rid="B23">Corlett and Primack, 2011</xref>). Despite their outsize value, tropical forests are notably understudied, and most <italic>in situ</italic> species inventory data come from a few intensively studied sites in the Neotropics (<xref ref-type="bibr" rid="B80">Schimel et al., 2015</xref>; but see <xref ref-type="bibr" rid="B6">Blundo et al., 2021</xref>). Neotropical studies demonstrate that community composition and function are degrading in response to climate change (<xref ref-type="bibr" rid="B28">Engelbrecht et al., 2007</xref>; <xref ref-type="bibr" rid="B7">Bongers et al., 2009</xref>; <xref ref-type="bibr" rid="B68">Poorter et al., 2017</xref>; <xref ref-type="bibr" rid="B92">Whitworth et al., 2021</xref>), with early successional species thriving in warmer soil temperatures at the expense of late-successional species that require cooler microhabitats (<xref ref-type="bibr" rid="B21">Colwell et al., 2008</xref>). These processes have contributed to predictions of 30&#x2013;50% loss of plant diversity with a 5&#x00B0;C temperature increase for most South American tropical forests (<xref ref-type="bibr" rid="B21">Colwell et al., 2008</xref>; <xref ref-type="bibr" rid="B31">Feeley and Silman, 2010</xref>).</p>
<p>It is unclear whether the world&#x2019;s other tropical regions will respond similarly to climate change (<xref ref-type="bibr" rid="B52">Malhi and Wright, 2004</xref>; <xref ref-type="bibr" rid="B53">Maslin et al., 2005</xref>; <xref ref-type="bibr" rid="B63">Parmentier et al., 2007</xref>; <xref ref-type="bibr" rid="B50">Malhi et al., 2013</xref>; <xref ref-type="bibr" rid="B54">Mayaux et al., 2013</xref>; <xref ref-type="bibr" rid="B29">Enquist et al., 2017</xref>; <xref ref-type="bibr" rid="B86">Sullivan et al., 2017</xref>). Afrotropical forests are distinct in having comparatively few wet-affiliated species given their climate (<xref ref-type="bibr" rid="B45">Leal, 2009</xref>), and a high proportion of large trees that grow and recolonize rapidly (<xref ref-type="bibr" rid="B30">Fayolle et al., 2012</xref>; <xref ref-type="bibr" rid="B36">Gond et al., 2013</xref>). These differences in community-level traits are hypothesized to have arisen from Africa&#x2019;s unique climatic past (<xref ref-type="bibr" rid="B38">Haffer, 1969</xref>; <xref ref-type="bibr" rid="B49">Maley, 1996</xref>; <xref ref-type="bibr" rid="B53">Maslin et al., 2005</xref>; <xref ref-type="bibr" rid="B60">Oslisly et al., 2013</xref>; <xref ref-type="bibr" rid="B94">Willis et al., 2013</xref>). In direct contrast to the Neotropics (<xref ref-type="bibr" rid="B19">Colinvaux et al., 1996</xref>, <xref ref-type="bibr" rid="B18">2000</xref>, <xref ref-type="bibr" rid="B20">2001</xref>), abnormally cool and dry conditions during the last glacial maximum reduced Afrotropical forests to small fragmented patches (<xref ref-type="bibr" rid="B97">Cohen et al., 2007</xref>). This may have selected for species able to survive extreme aberrations in temperature and precipitation and then quickly disperse from refugia to recolonize the landscape cleared by receding glaciers (<xref ref-type="bibr" rid="B45">Leal, 2009</xref>), potentially making them more resilient to climate change than their Amazonian or Asian counterparts (<xref ref-type="bibr" rid="B39">Hansen and DeFries, 2004</xref>; <xref ref-type="bibr" rid="B35">Gardner et al., 2007</xref>). Indeed, a pair of studies comparing changes in canopy structure found few lingering effects of drought on Afrotropical forest canopy (<xref ref-type="bibr" rid="B2">Asefi-Najafabady and Saatchi, 2013</xref>), but did find lingering canopy effects of drought on southwest Amazonia (<xref ref-type="bibr" rid="B76">Saatchi et al., 2013</xref>).</p>
<p>Neotropical species to climate change are unlikely to be an adequate proxy for Afrotropical forests, yet no landscape-scale predictions of Afrotropical community responses to climate have been made. This work is urgently needed&#x2014;the current climate of Equatorial Africa is already near the lower temperature-precipitation threshold of rainforest viability (<xref ref-type="bibr" rid="B52">Malhi and Wright, 2004</xref>; <xref ref-type="bibr" rid="B62">Pan et al., 2011</xref>), after which a rapid shift in the ecosystem could occur (<xref ref-type="bibr" rid="B94">Willis et al., 2013</xref>). Accurate models of forest change in the Afrotropics are dependent on sampling both historical refugia and areas of expansion. Past reviews of paleoecological studies (<xref ref-type="bibr" rid="B49">Maley, 1996</xref>; <xref ref-type="bibr" rid="B8">Bonnefille, 2007</xref>) have interpreted the high degree of endemism in western Gabon relative to surrounding areas as an indicator that this area was an climatically stable refuge for tropical plants during the last glacial maxima. However, whereas recent genetic studies of some species support this claim (<xref ref-type="bibr" rid="B24">Dainou et al., 2010</xref>), still others indicate that these areas were not refuges for all species (<xref ref-type="bibr" rid="B47">Lowe et al., 2010</xref>, see also temperate examples: <xref ref-type="bibr" rid="B22">Comes and Kadereit, 1998</xref>; <xref ref-type="bibr" rid="B65">Petit et al., 2003</xref>), highlighting a need for systematically random census data in a topographically and abiotically diverse Afrotropical region.</p>
<p>To evaluate how Afrotropical tree species will respond to future climate change, we model tropical forest tree species distributions using a systematic country-wide array of randomly placed tree plots, remotely sensed historic climatic data, and future climate predictions for the densely forested central African country of Gabon. This first-of-its-kind study serves as an important counterpoint to work done in the Neotropics by providing contrasting novel predictions for Afrotropical forests with substantially different ecological, evolutionary, and anthropogenic histories. We hypothesize that the disturbance-rich past of Afrotropical communities will result in two divergent responses to forecasted climate change: (1) Afrotropical community forecasts will demonstrate lower levels of species loss than the 30&#x2013;50% loss predicted for the Neotropics; and (2) early-successional species will increase in number at the expense of declining abundance of late-successional species.</p>
</sec>
<sec id="S2" sec-type="materials|methods">
<title>Materials and Methods</title>
<sec id="S2.SS1">
<title>Tree Inventory Data</title>
<p>In this study, we employ tree census data from Gabon&#x2019;s National Resource Inventory&#x2014;a national network of tree plots for estimating forest biomass and carbon stocks (<xref ref-type="fig" rid="F1">Figure 1</xref>; <xref ref-type="bibr" rid="B13">Carlson et al., 2017</xref>; <xref ref-type="bibr" rid="B70">Poulsen et al., 2017a</xref>,<xref ref-type="bibr" rid="B72">2020</xref>; <xref ref-type="bibr" rid="B5">Beirne et al., 2019</xref>; <xref ref-type="bibr" rid="B88">Wade et al., 2019</xref>). Gabon is the second most forested country in the world, with a forest cover of 87%, a deforestation rate near zero (<xref ref-type="bibr" rid="B79">Sannier et al., 2014</xref>), and one of the highest densities of carbon in Central Africa (<xref ref-type="bibr" rid="B77">Saatchi et al., 2011</xref>). Between 2012 and 2013, trained technicians established 104 1-ha forest plots based on a stratified random sampling design that consisted of dividing the country into 100 50 &#x00D7; 50 km cells and randomly locating a sample site within each of the cells (<xref ref-type="bibr" rid="B72">Poulsen et al., 2020</xref>). This design ensured an unbiased sampling of Gabon&#x2019;s forest (40.4% old-growth, 28.8% logged, 30.8% secondary) and edaphic types (69.2% terra firma, 22.1% seasonally flooded forest, 8.6% swamp). Every tree with a diameter-at-breast height (DBH) &#x2265; 10 cm was mapped, measured and identified to species by trained field teams following standard protocols for plot establishment and measurement (<xref ref-type="bibr" rid="B66">Phillips and Baker, 2002</xref>). A total of 621 species from 296 genera were cataloged. We analyzed data for all species that occurred on at least 30 of the 104 plots, resulting in 34,460 stems representing 76 of the most widely occurring species. The five most common taxa (31% of all stems) were <italic>Santiria trimera, Dichostemma glaucescens, Plagiostyles Africana, Aucoumea klaineana</italic>, and <italic>Diospyros</italic> spp. The five least common taxa included in the model (1% of all stems) were <italic>Duboscia macrocarpa, Ongokea gore, Zanthoxyllum heitzii, Klainedoxa</italic> sp., and <italic>Erythrophleum ivorense</italic>. Each species was assigned, if possible, into an &#x201C;early-successional&#x201D; or &#x201C;late-successional&#x201D; class based on growth form, available trait data, and habitat class (<xref ref-type="bibr" rid="B91">Whitmore, 1989</xref>; <xref ref-type="bibr" rid="B75">Raich and Khoon, 1990</xref>; <xref ref-type="bibr" rid="B33">Finegan, 1996</xref>; <xref ref-type="bibr" rid="B25">Davies and Semui, 2006</xref>; <xref ref-type="bibr" rid="B14">Chazdon et al., 2010</xref>; <xref ref-type="bibr" rid="B96">Chazdon, 2014</xref>).</p>
<fig id="F1" position="float">
<label>FIGURE 1</label>
<caption><p>Map of all 104, 1-ha inventory plots located in Gabon. Plots were located by a systematic-random design to capture the full breadth of Gabon&#x2019;s forest types and environmental conditions. Shapes indicate one of four possible forest-types of each plot: Savanna Forest (triangles), Congolian Forest (squares), Aucoumea Forest (diamonds), or Coastal Forest (circles).</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fevo-09-742626-g001.tif"/>
</fig>
</sec>
<sec id="S2.SS2">
<title>Climate Data</title>
<p>Long term average historical precipitation and temperature data for each plot were derived from the NASA TerraClimate product (<xref ref-type="bibr" rid="B1">Abatzoglou et al., 2018</xref>) for 1985&#x2013;2017, accessed using Google Earth Engine (<xref ref-type="bibr" rid="B37">Gorelick et al., 2017</xref>). We derived projected precipitation and temperature data for each plot using the NASA Earth Exchange Global Daily Downscaled Projections (NEX-GDDP) database at a resolution of 0.25 degrees (&#x223C;25 km &#x00D7; 25 km). This dataset provides downscaled projections for two of the most used Representative Concentration Pathways (RCP 4.5 and RCP 8.5) from the 21 General Circulation Models that were produced and distributed under the Coupled Model Intercomparison Project Phase 5 (CMIP5). All models of temperature agree that Gabon will continue to warm through the end of the century; thus, within each RCP scenario, we took the ensemble mean prediction of all 21 CMIP5 GCMs to forecast of forest response (<xref ref-type="fig" rid="F2">Figures 2A,B</xref>). Models of precipitation disagree as to whether precipitation will increase or decrease, producing an ensemble mean that shows no substantive change by 2099 (<xref ref-type="fig" rid="F2">Figure 2C</xref>). This is due in large part to a lack of rain gauges in Central Africa (<xref ref-type="bibr" rid="B90">Washington et al., 2013</xref>), and also from the northward shift of the inter-tropical convergence zone resulting from ocean-driven atmospheric circulation shifts (<xref ref-type="bibr" rid="B43">James et al., 2013</xref>). To acknowledge the uncertainty in whether the dry or wet models are more plausible, here we forecast community change given both a wet and a dry scenario. The wet scenario takes the mean prediction of the five models predicting the greatest increase in precipitation, while the dry scenario uses the mean prediction from the five models predicting the greatest decreases in precipitation (<xref ref-type="supplementary-material" rid="FS1">Supplementary Table 3</xref>). Although representing the extreme scenarios, this forecasted climate space is well represented by historical climate space (<xref ref-type="supplementary-material" rid="FS1">Supplementary Figure 1</xref>).</p>
<fig id="F2" position="float">
<label>FIGURE 2</label>
<caption><p>A comparison of average predicted maximum temperature <bold>(A)</bold>, minimum temperature <bold>(B)</bold>, and precipitation <bold>(C)</bold> in Gabon from the highest temperature increase models (orange), lowest five models (purple), and all model ensembles (gray) for RCP 4.5 (solid lines) and RCP 8.5 (dashed lines).</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fevo-09-742626-g002.tif"/>
</fig>
</sec>
<sec id="S2.SS3">
<title>Community Composition Analysis</title>
<p>We use a generative Generalized Joint Attribute Model (GJAM) that predicts species abundance at the scale and context used to fit the model jointly, i.e., on the community scale (<xref ref-type="bibr" rid="B16">Clark et al., 2017</xref>). GJAM estimates can therefore be interpreted on the scale of the observations, accounting for sample effort. Full model specifications are available from <xref ref-type="bibr" rid="B16">Clark et al. (2017)</xref>. Parameters in the model include matrices of coefficients B relating X to Y and the residual species covariance matrix &#x03A3;. In effect, &#x03A3; represents the covariance between species beyond what is explained by environmental covariates. This variation can come from interactions between species, unmeasured environmental variables, and other sources of error. The likelihood is: [Y<sub>1</sub>, &#x2026;, Y<sub>S</sub>&#x007C;X, B, &#x03A3;], where subscripts refer to species 1 through S. Model fitting is done on the observation scale, and is based on the posterior distribution, [B, &#x03A3;&#x007C;X, Y]&#x221D;[Y1, &#x2026;, YS&#x007C;B, &#x03A3;][B, &#x03A3;]. The right-hand side of the equation is the likelihood and the prior distribution, [B, &#x03A3;], which is non-informative. Traditional species distributions models cannot generate the covariance structure in <italic>Y</italic> or the proper uncertainty for B because they are not fitted jointly, i.e., because [<italic>Y</italic><sub>1</sub>, &#x2026;, <italic>Y</italic><sub><italic>S</italic></sub>&#x007C;B, &#x03A3;, <italic>X</italic>] is not equal to likelihood of independent SDMs, [<italic>Y</italic><sub>1</sub>&#x007C;B, &#x03A3;, <italic>X</italic>] &#x00D7; &#x2026; &#x00D7; [<italic>Y</italic><sub><italic>S</italic></sub>&#x007C;B, &#x03A3;, <italic>X</italic>]. SDMs predict each species independently, which ignores their interactions. Joint modeling is frustrated by the different scales of measurement for many species and dominance of zeros in most data sets. GJAM allows for continuous and discrete data, including zeros, observed on different scales and with different levels of sample effort.</p>
</sec>
<sec id="S2.SS4">
<title>Forecasting Species Composition</title>
<p>The predictive distributions combine the posterior parameter estimates calibrated from long-term climate data with a prediction grid of forecasted covariate values (precipitation and temperature). <italic>X</italic>&#x002A; is a vector of environmental covariates that generate a response vector of species <italic>Y</italic>&#x002A;= <italic>Y</italic><sub>1</sub>, &#x2026;, <italic>Y</italic><sub><italic>S</italic></sub>, and (<italic>X</italic>&#x002A;, <italic>Y</italic>&#x002A;) is a pair of vector observations used to fit the model. The predictive distribution [<italic>Y</italic>&#x002A;&#x007C;<italic>X</italic>&#x002A;] = &#x222B;[<italic>Y</italic>&#x002A;&#x007C;<italic>B</italic>, &#x03A3;, <italic>X</italic>&#x002A;][<italic>B</italic>, &#x03A3; &#x007C;<italic>X</italic>, <italic>Y</italic>] <italic>d</italic> (<italic>B</italic>, &#x03A3;) is obtained by Monte Carlo integration. The two factors in the integrand are the likelihood and posterior distribution. The two factors in the integrand are the likelihood and posterior distribution. If the prediction is based on an uncertain scenario for climate <italic>X</italic>&#x002A;, that uncertainty enters the prediction as [<italic>Y</italic>&#x002A;] = &#x222B;[<italic>Y</italic>&#x002A;&#x007C;<italic>X</italic>&#x002A;][<italic>X</italic>&#x002A;]d<italic>X</italic>&#x002A;. In this analysis, [<italic>X</italic>&#x002A;] is a prior distribution that is uniform over the full range of values that have been observed.</p>
<p>To quantify how changes in climate will affect total species counts regardless of forest type, we first run the model using forest type (Congolian, savanna, coastal, Acoumea) as a random effect. We then use forest type as a factor to make predictions about species counts within forest types. Covariates used to fit the model were limited to those for which there are predictions available from the NASA NEX GDDP GCM&#x2019;s for years 2020&#x2013;2099 and having variance inflation factors less than 3. Model estimates were taken from 100,000 iterations, discarding the first 1000 iteration as pre-convergence. We visually inspected trace plots to confirm convergence and adequate mixing (<xref ref-type="supplementary-material" rid="FS1">Supplementary Figure 3</xref>) and validated model fit by comparing predicted and observed discrete species abundances (<xref ref-type="supplementary-material" rid="FS1">Supplementary Figure 2</xref>).</p>
</sec>
</sec>
<sec id="S3" sec-type="results">
<title>Results</title>
<p>Of the 76 most abundant species analyzed, species richness in Gabon&#x2019;s forests is projected to decrease by 3&#x2013;8% by the end of the century, although there is variation among precipitation models and RCP scenarios (<xref ref-type="fig" rid="F3">Figures 3</xref>, <xref ref-type="fig" rid="F4">4</xref> and <xref ref-type="supplementary-material" rid="FS1">Supplementary Table 1</xref>). The dry model predicts a loss of 2.58 focal species per plot &#x00B1; SE 5.36 in the low emissions scenario (RCP 4.5, <xref ref-type="fig" rid="F4">Figure 4A</xref>), and &#x2212;5.85 &#x00B1; 5.12 species in the high emissions scenario (RCP 8.5, <xref ref-type="fig" rid="F4">Figure 4C</xref>). The wet model predicts fewer species losses (RCP 4.5: &#x2212;3.17 &#x00B1; 5.37; RCP 8.5: &#x2212;5.96 &#x00B1; 5.11, <xref ref-type="fig" rid="F3">Figures 3A,C</xref>). Species losses were consistent across forest types (<xref ref-type="fig" rid="F3">Figures 3B,D</xref>, <xref ref-type="fig" rid="F4">4B,D</xref> and <xref ref-type="supplementary-material" rid="FS1">Supplementary Table 2</xref>) with greatest losses in the RCP 8.5 scenario (<xref ref-type="fig" rid="F3">Figures 3D</xref>, <xref ref-type="fig" rid="F4">4D</xref>) compared to RCP 4.5 (<xref ref-type="fig" rid="F3">Figures 3B</xref>, <xref ref-type="fig" rid="F4">4B</xref>). Of the 76 species we analyzed approximately one third are predicted to increase in abundance and two-thirds of species likely to decrease in abundance. The most likely species to increase in abundance include <italic>Diospyros</italic> spp., <italic>Aucoumea klaineana</italic>, and <italic>Staudia gabonensis</italic>. By contrast, <italic>Santira trimera</italic>, <italic>Plagiostyles africana</italic>, and <italic>Dichostemma glaucescens</italic> are predicted to decrease in abundance (<xref ref-type="fig" rid="F5">Figure 5</xref>). Net change in predicted species abundance was similar between wet and dry models and among RCP scenarios (<xref ref-type="fig" rid="F5">Figure 5</xref> and <xref ref-type="supplementary-material" rid="FS1">Supplementary Table 4</xref>).</p>
<fig id="F3" position="float">
<label>FIGURE 3</label>
<caption><p>Declines in estimated plot-level species richness and the estimated net tree species loss for each forest type by the end of the century for RCP 4.5 <bold>(A,B)</bold> and RCP 8.5 <bold>(C,D)</bold> for the wet model.</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fevo-09-742626-g003.tif"/>
</fig>
<fig id="F4" position="float">
<label>FIGURE 4</label>
<caption><p>Declines in estimated plot-level species richness and the estimated net tree species loss for each for each forest type by the end of the century for RCP 4.5 <bold>(A,B)</bold> and RCP 8.5 <bold>(C,D)</bold> for the Dry model.</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fevo-09-742626-g004.tif"/>
</fig>
<fig id="F5" position="float">
<label>FIGURE 5</label>
<caption><p>Predicted change in abundance for each tree species (y-axis) by the end of the century for RCP 4.5 and RCP 8.5 in both the &#x201C;wet&#x201D; and &#x201C;dry&#x201D; model ensembles (x-axis). Box colors correspond to estimated changes in species abundance. &#x201C;&#x002A;&#x201D; symbol in box denotes species-model predictions that do not overlap with 0.</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fevo-09-742626-g005.tif"/>
</fig>
</sec>
<sec id="S4" sec-type="discussion">
<title>Discussion</title>
<p>We demonstrate a 3&#x2013;8% decrease in Afrotropical forest species richness by the end of the century for the most abundant tree species. This prediction is substantially less severe than 30&#x2013;50% predicted for the Neotropics (<xref ref-type="bibr" rid="B21">Colwell et al., 2008</xref>; <xref ref-type="bibr" rid="B31">Feeley and Silman, 2010</xref>), and lends support to the argument that the unique evolutionary past of Afrotropical forest communities (<xref ref-type="bibr" rid="B52">Malhi and Wright, 2004</xref>; <xref ref-type="bibr" rid="B53">Maslin et al., 2005</xref>; <xref ref-type="bibr" rid="B63">Parmentier et al., 2007</xref>; <xref ref-type="bibr" rid="B50">Malhi et al., 2013</xref>; <xref ref-type="bibr" rid="B54">Mayaux et al., 2013</xref>; <xref ref-type="bibr" rid="B29">Enquist et al., 2017</xref>; <xref ref-type="bibr" rid="B86">Sullivan et al., 2017</xref>) could have made them more resilient to climate change than their Amazonian or Asian counterparts (<xref ref-type="bibr" rid="B39">Hansen and DeFries, 2004</xref>; <xref ref-type="bibr" rid="B35">Gardner et al., 2007</xref>). It also indicates that predictions of tree species responses to climate change are not generalizable across continents. Surprisingly, we find that losses do not differ appreciably among forest types, indicating that no habitats will be immune from species changes. The equivalent responses may also be a result of the subjective distinction between our four forest types&#x2014;communities are complex assemblages of species that may not always readily lend themselves to clear classification.</p>
<p>We find that species-specific changes in abundance varied considerably, with approximately a third of all species likely increasing in abundance and two-thirds of species likely decreasing in abundance. Our hypothesis that disturbance-related species would increase at the expense of climax species was not well supported. Of the ten species most likely to <italic>increase in abundance</italic>, only two are considered early successional. Of the ten species most likely to <italic>decrease in abundance</italic>, five were early successional. It is interesting that the species increasing are not just those that are fast growing, low wood density species associated with disturbance. For example, two of the species most likely to increase are <italic>Acoumea klaineana</italic> (a light-loving, low wood density species), and <italic>Diospyros</italic> spp., the genus that incudes ebony (high wood density, slow growing). Among the species expected to decrease in abundance is <italic>Santira trimera</italic>, one of the most widespread species throughout West and Central African rainforests, often in moist secondary forests or along rivers. Also predicted to decrease is <italic>Dichostemma glaucescens</italic>, a small slender tree prone to climbing other trees. These species-specific responses suggest that rather than functional groups responding similarly, tropical species respond individualistically to tropical climate change. This pattern agrees with past research (<xref ref-type="bibr" rid="B9">Bush, 2002</xref>; <xref ref-type="bibr" rid="B10">Bush et al., 2004</xref>) and may arise from unique relationships to unmeasured abiotic variables that contribute to its response to disturbance (<xref ref-type="bibr" rid="B56">Nu&#x00F1;ez et al., 2019a</xref>). A comparison of the forecasts produced by both dry and wet models yields surprising little difference in predicted species richness. Although the total water available to trees are the product of both precipitation and temperature, these results suggest that species will respond more strongly to increases in temperature, not precipitation as it is in the Neotropics. For this reason, the increasing radiative forcing associated with RCP 8.5 resulted in greater species loss than the more conservative RCP 4.5 scenario. Temperature specific responses are consistent with the theory that a unique ecological history in the Afrotropics (<xref ref-type="bibr" rid="B52">Malhi and Wright, 2004</xref>; <xref ref-type="bibr" rid="B53">Maslin et al., 2005</xref>; <xref ref-type="bibr" rid="B63">Parmentier et al., 2007</xref>; <xref ref-type="bibr" rid="B50">Malhi et al., 2013</xref>; <xref ref-type="bibr" rid="B54">Mayaux et al., 2013</xref>; <xref ref-type="bibr" rid="B29">Enquist et al., 2017</xref>; <xref ref-type="bibr" rid="B86">Sullivan et al., 2017</xref>) cultivated tree communities with few wet-affiliated species (<xref ref-type="bibr" rid="B45">Leal, 2009</xref>).</p>
<p>Several considerations are necessary to situate this study in the literature. First and foremost, this analysis considered only the 76 most common species across plots. Rare species (occurring on fewer than 30/104 plots) have few observations and provide insufficient information on their relationship with environmental predictors to make accurate predictions, perpetuating the &#x201C;rare species modeling paradox&#x201D; (<xref ref-type="bibr" rid="B46">Lomba et al., 2010</xref>). This could mean that we are ultimately underestimating losses of total species richness because it is precisely these rare species that are most vulnerable to climate change (<xref ref-type="bibr" rid="B59">Ohlem&#x00FC;ller et al., 2008</xref>; <xref ref-type="bibr" rid="B61">Pacifici et al., 2015</xref>). However, limiting analyses to species with adequate data is a common component of many analyses, including those predicting 30&#x2013;50% loss in the Neotropics (<xref ref-type="bibr" rid="B95">Wisz et al., 2008</xref>; <xref ref-type="bibr" rid="B31">Feeley and Silman, 2010</xref>).</p>
<p>The model predicts at the scale of the data, i.e., the community level, allowing a comparison of a species likelihood of presence in a plot with full uncertainty. However, the model does not explicitly consider mechanistic changes in recruitment, carbon enrichment, seedling survival, or changes in dispersal. As such, the model does not account for plasticity that may allow for species to occur in plots outside their current climate space. Although such mechanistic understanding is needed, the type and resolution of data currently available make this impossible. These results do not consider other types of disturbance that are likely to affect biodiversity, but are less clearly measurable, like the loss of medium and large animals from hunting (<xref ref-type="bibr" rid="B44">Koerner et al., 2017</xref>; <xref ref-type="bibr" rid="B71">Poulsen et al., 2017b</xref>,<xref ref-type="bibr" rid="B73">2018</xref>, <xref ref-type="bibr" rid="B69">2021</xref>; <xref ref-type="bibr" rid="B5">Beirne et al., 2019</xref>; <xref ref-type="bibr" rid="B58">Nu&#x00F1;ez et al., 2019c</xref>). Finally, although the geographic scope of this analysis is uncommonly expansive, covering the entire country of Gabon (267,667 km<sup>2</sup>), it may not be directly comparable to the diverse terrain contained in the 2,250 km<sup>2</sup> assessed in the Neotropics (<xref ref-type="bibr" rid="B31">Feeley and Silman, 2010</xref>; <xref ref-type="bibr" rid="B48">Maicher et al., 2021</xref>). Care must also be taken when generalizing our results&#x2014;although the impacts predicted here appear to be modest relative to the new world Tropics, elsewhere in sub-Saharan Africa has already seen devastating effects of climate change (<xref ref-type="bibr" rid="B93">Willis and Bhagwat, 2009</xref>; <xref ref-type="bibr" rid="B94">Willis et al., 2013</xref>; <xref ref-type="bibr" rid="B82">Serdeczny et al., 2017</xref>).</p>
<p>This study demonstrates that community forecasts are not generalizable across regions, and more studies are needed in understudied biomes like the Afrotropics. Nascent data sets (<xref ref-type="bibr" rid="B29">Enquist et al., 2017</xref>; <xref ref-type="bibr" rid="B34">Fyllas et al., 2017</xref>), increased availability of high quality remote sensing (<xref ref-type="bibr" rid="B64">Patterson and Healey, 2015</xref>; <xref ref-type="bibr" rid="B85">Stavros et al., 2017</xref>; <xref ref-type="bibr" rid="B83">Silva et al., 2018</xref>), and new statistical techniques capable of synthesizing multiple types of data (<xref ref-type="bibr" rid="B16">Clark et al., 2017</xref>) will help in further resolving the responses of the world&#x2019;s ecosystems. This study serves as an important counterpoint to work done in the Neotropics by providing contrasting predictions for Afrotropical forests with substantially different ecological, evolutionary, and anthropogenic histories. Even though we are predicting a comparatively small reduction in species richness, the effects reported here will have ramifications for whole food webs (<xref ref-type="bibr" rid="B27">Dirzo et al., 2014</xref>; <xref ref-type="bibr" rid="B17">Clark et al., 2019</xref>), and potentially threaten the ecosystem services on which humans depend (<xref ref-type="bibr" rid="B55">McCann, 2000</xref>; <xref ref-type="bibr" rid="B42">Hooper et al., 2005</xref>; <xref ref-type="bibr" rid="B4">Balvanera et al., 2006</xref>; <xref ref-type="bibr" rid="B11">Cardinale et al., 2012</xref>; <xref ref-type="bibr" rid="B81">Schweiger et al., 2018</xref>). The differences exposed by this work should serve as motivation for future research using fine scale data to compare the differing responses of tropical biomes to global change.</p>
</sec>
<sec id="S5" sec-type="data-availability">
<title>Data Availability Statement</title>
<p>The data analyzed in this study is subject to the following licenses/restrictions: The data are subject to third party restrictions. The data that support the findings of this study are available from Le Minist&#x00E8;re des Eaux, de la Forest, de la Mer, de l&#x2019;Environnement. Restrictions apply to the availability of these data, which were used under license for this study. Data are available from the corresponding author with the permission of Le Minist&#x00E8;re des Eaux, de la Forest, de la Mer, de l&#x2019;Environnement. Requests to access these datasets should be directed to JP, <email>john.poulsen@duke.edu</email>.</p>
</sec>
<sec id="S6">
<title>Author Contributions</title>
<p>CN conducted the analysis and wrote the manuscript. CN, JP, VM, and LW designed the experiment and edited the manuscript. All authors contributed to the article and approved the submitted version.</p>
</sec>
<sec id="conf1" sec-type="COI-statement">
<title>Conflict of Interest</title>
<p>The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.</p>
</sec>
<sec id="pudiscl1" sec-type="disclaimer">
<title>Publisher&#x2019;s Note</title>
<p>All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article, or claim that may be made by its manufacturer, is not guaranteed or endorsed by the publisher.</p>
</sec>
</body>
<back>
<sec id="S7" sec-type="funding-information">
<title>Funding</title>
<p>CN was supported by National Science Foundation Fellowship (GRF-1106401) and a Neil Williams Presidential Fellowship.</p>
</sec>
<ack>
<p>We thank the Gabon National Climate Change Council who authorized the establishment of the National Resource Inventory, as well as the Ministry of Forests for their support in the training of project technicians. We also thank the Gabon Parks Agency (ANPN) for implementing the NRI, and OLAM-Gabon, US Government SilvaCarbon Program, FAO and the Gabonese Government for financially supporting this work. We thank Dr. Alie Ashbury, Kim and Dave Littman, and referees for their constructive comments that improved the manuscript. An earlier version of this work was made available as pre-print (<xref ref-type="bibr" rid="B57">Nu&#x00F1;ez et al., 2019b</xref>).</p>
</ack>
<sec id="S9" sec-type="supplementary-material">
<title>Supplementary Material</title>
<p>The Supplementary Material for this article can be found online at: <ext-link ext-link-type="uri" xlink:href="https://www.frontiersin.org/articles/10.3389/fevo.2021.742626/full#supplementary-material">https://www.frontiersin.org/articles/10.3389/fevo.2021.742626/full#supplementary-material</ext-link></p>
<supplementary-material xlink:href="Data_Sheet_1.docx" id="FS1" mimetype="application/vnd.openxmlformats-officedocument.wordprocessingml.document" xmlns:xlink="http://www.w3.org/1999/xlink"/>
</sec>
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