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Peay, K.G.; Baraloto, C.; Fine, P.V.A. |
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Strong coupling of plant and fungal community structure across western Amazonian rainforests |
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Journal Article |
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2013 |
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ISME Journal |
Abbreviated Journal |
Isme J. |
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7 |
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9 |
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1852-1861 |
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coexistence; diversity; Janzen-Connell; natural enemies; negative feedback |
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The Amazon basin harbors a diverse ecological community that has a critical role in the maintenance of the biosphere. Although plant and animal communities have received much attention, basic information is lacking for fungal or prokaryotic communities. This is despite the fact that recent ecological studies have suggested a prominent role for interactions with soil fungi in structuring the diversity and abundance of tropical rainforest trees. In this study, we characterize soil fungal communities across three major tropical forest types in the western Amazon basin (terra firme, seasonally flooded and white sand) using 454 pyrosequencing. Using these data, we examine the relationship between fungal diversity and tree species richness, and between fungal community composition and tree species composition, soil environment and spatial proximity. We find that the fungal community in these ecosystems is diverse, with high degrees of spatial variability related to forest type. We also find strong correlations between α- and β-diversity of soil fungi and trees. Both fungal and plant community β-diversity were also correlated with differences in environmental conditions. The correlation between plant and fungal richness was stronger in fungal lineages known for biotrophic strategies (for example, pathogens, mycorrhizas) compared with a lineage known primarily for saprotrophy (yeasts), suggesting that this coupling is, at least in part, due to direct plant-fungal interactions. These data provide a much-needed look at an understudied dimension of the biota in an important ecosystem and supports the hypothesis that fungal communities are involved in the regulation of tropical tree diversity. © 2013 International Society for Microbial Ecology. |
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Department of Integrative Biology, University of California, Berkeley, CA, United States |
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17517362 (Issn) |
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Export Date: 9 September 2013; Source: Scopus; doi: 10.1038/ismej.2013.66; Language of Original Document: English; Correspondence Address: Peay, K.G.; Department of Biology, Stanford University, 371 Serra Mall, Stanford, CA 94305, United States; email: kpeay@stanford.edu; Funding Details: 1045658, NSF, National Science Foundation; Funding Details: DEB-0743800/0743103, NSF, National Science Foundation |
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EcoFoG @ webmaster @ |
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Hamon, P.; Duroy, P.-O.; Dubreuil-Tranchant, C.; Mafra D'Almeida Costa, P.; Duret, C.; Razafinarivo, N.J.; Couturon, E.; Hamon, S.; De Kochko, A.; Poncet, V.; Guyot, R. |
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Two novel Ty1-copia retrotransposons isolated from coffee trees can effectively reveal evolutionary relationships in the Coffea genus (Rubiaceae) |
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Journal Article |
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2011 |
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Molecular Genetics and Genomics |
Abbreviated Journal |
Mol. Genet. Genomics |
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285 |
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6 |
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447-460 |
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Coffea; Evolution; Genetic diversity; LTR-retrotransposons; article; coffee; controlled study; Divo; gene amplification; gene dosage; gene expression; gene insertion; gene locus; gene sequence; genetic identification; genetic polymorphism; genetic variability; molecular cloning; Nana; nonhuman; nucleotide sequence; phylogeny; plant evolution; plant gene; priority journal; Psilanthus; random amplified microsatellite; retroposon; Rubiaceae; species differentiation; tree; Ty1 copia gene; Coffea; Genes, Plant; Genome, Plant; Phylogeny; Retroelements |
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In the study, we developed new markers for phylogenetic relationships and intraspecies differentiation in Coffea. Nana and Divo, two novel Ty1-copia LTR-retrotransposon families, were isolated through C. canephora BAC clone sequencing. Nana- and Divo-based markers were used to test their: (1) ability to resolve recent phylogenetic relationships; (2) efficiency in detecting intra-species differentiation. Sequence-specific amplification polymorphism (SSAP), retrotransposon-microsatellite amplified polymorphism (REMAP) and retrotransposon-based insertion polymorphism (RBIP) approaches were applied to 182 accessions (31 Coffea species and one Psilanthus accession). Nana- and Divo-based markers revealed contrasted transpositional histories. At the BAC clone locus, RBIP results on C. canephora demonstrated that Nana insertion took place prior to C. canephora differentiation, while Divo insertion occurred after differentiation. Combined SSAP and REMAP data showed that Nana could resolve Coffea lineages, while Divo was efficient at a lower taxonomic level. The combined results indicated that the retrotransposon-based markers were useful in highlighting Coffea genetic diversity and the chronological pattern of speciation/differentiation events. Ongoing complete sequencing of the C. canephora genome will soon enable exhaustive identification of LTR-RTN families, as well as more precise in-depth analyses on contributions to genome size variation and Coffea evolution. © 2011 Springer-Verlag. |
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IRD, UMR DIADE, BP 50172, Sainte Clotilde Cedex, La Réunion 97492, France |
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16174615 (Issn) |
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Export Date: 21 October 2011; Source: Scopus; Coden: Mggoa; doi: 10.1007/s00438-011-0617-0; PubMed ID: 21505885; Language of Original Document: English; Correspondence Address: Hamon, P.; IRD, UMR DIADE, BP 64501, Montpellier Cedex 5, France; email: perla.hamon@ird.fr; Molecular Sequence Numbers: GENBANK: DV666936, HM755952, HM755953;; Chemicals/CAS: Retroelements |
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EcoFoG @ webmaster @ |
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344 |
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Tindo, M.; Kenne, M.; Dejean, A. |
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Advantages of multiple foundress colonies in Belonogaster juncea juncea L.: greater survival and increased productivity |
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2008 |
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Ecological Entomology |
Abbreviated Journal |
Ecol. Entomol. |
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33 |
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2 |
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293-297 |
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colony development; evolution of eusociality; fitness; Polistinae; productivity |
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1. The ecological hypothesis predicts that multiple foundress colonies of social wasps may have a better survival rate and produce more brood per capita than single foundress colonies. With the aim of verifying if these characteristics exist in the primitively eusocial wasp species Belonogaster juncea juncea (L.), we monitored 49 foundations, including 13 single and 36 multiple foundress colonies, in Cameroon. 2. Multiple foundress colonies were significantly more successful than single foundress colonies in producing at least one adult. 3. The total productivity of the colonies increased significantly with the number of associated foundresses, but the productivity per capita did not. No single foundress colony reached the sexual phase, while eight (21.6%) multiple foundress colonies did. Males were produced in only five colonies, so that the sex ratio was biased in favour of females. 4. These results suggest that because of the strong ecological constraints on solitary nesting, survival and high colony productivity are two advantages of multiple foundress colonies in B. j. juncea. 5. The decreasing per capita productivity concomitant with an increasing number of females noted in this study illustrates once again Michener's paradox. The coefficient of variance of the per capita productivity significantly decreased with group size, as Wenzel and Pickering suggested in the model they created to explain the paradox. 6. Ecological factors may act in conjunction with other factors, such as genetic relatedness between associated foundresses, to promote joining behaviour in B. j. juncea. |
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[Tindo, Maurice; Kenne, Martin] Univ Douala, Fac Sci, BP Douala, Cameroon, Email: jtindo2000@yahoo.fr |
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BLACKWELL PUBLISHING |
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0307-6946 |
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ISI:000253710000017 |
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EcoFoG @ eric.marcon @ |
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142 |
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Brousseau, L.; Bonal, D.; Cigna, J.; Scotti, I. |
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Highly local environmental variability promotes intrapopulation divergence of quantitative traits: An example from tropical rain forest trees |
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Journal Article |
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2013 |
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Annals of Botany |
Abbreviated Journal |
Ann. Bot. |
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112 |
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6 |
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1169-1179 |
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common garden experiment; E. grandiflora; ecological traits; Eperua falcata; habitat mosaics; intrapopulation divergence; maternal family inheritance |
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Background and AimsIn habitat mosaics, plant populations face environmental heterogeneity over short geographical distances. Such steep environmental gradients can induce ecological divergence. Lowland rainforests of the Guiana Shield are characterized by sharp, short-distance environmental variations related to topography and soil characteristics (from waterlogged bottomlands on hydromorphic soils to well-drained terra firme on ferralitic soils). Continuous plant populations distributed along such gradients are an interesting system to study intrapopulation divergence at highly local scales. This study tested (1) whether conspecific populations growing in different habitats diverge at functional traits, and (2) whether they diverge in the same way as congeneric species having different habitat preferences.MethodsPhenotypic differentiation was studied within continuous populations occupying different habitats for two congeneric, sympatric, and ecologically divergent tree species (Eperua falcata and E. grandiflora, Fabaceae). Over 3000 seeds collected from three habitats were germinated and grown in a common garden experiment, and 23 morphological, biomass, resource allocation and physiological traits were measured.Key ResultsIn both species, seedling populations native of different habitats displayed phenotypic divergence for several traits (including seedling growth, biomass allocation, leaf chemistry, photosynthesis and carbon isotope composition). This may occur through heritable genetic variation or other maternally inherited effects. For a sub-set of traits, the intraspecific divergence associated with environmental variation coincided with interspecific divergence. Conclusions The results indicate that mother trees from different habitats transmit divergent trait values to their progeny, and suggest that local environmental variation selects for different trait optima even at a very local spatial scale. Traits for which differentiation within species follows the same pattern as differentiation between species indicate that the same ecological processes underlie intra- and interspecific variation. © 2013 The Author. Published by Oxford University Press on behalf of the Annals of Botany Company. All rights reserved. |
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Université de Lorraine, UMR 1137 Ecologie et Ecophysiologie Forestières, Vandœuvre-lès-Nancy, France |
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03057364 (Issn) |
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Export Date: 17 October 2013; Source: Scopus; Coden: Anboa; doi: 10.1093/aob/mct176; Language of Original Document: English; Correspondence Address: Scotti, I.; INRA, UMR Ecologie des Forêts de Guyane, Campus Agronomique, BP 709, 97387 Kourou cedex, French Guiana; email: ivan.scotti@ecofog.gf |
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EcoFoG @ webmaster @ |
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505 |
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Schimann, H.; Vleminckx, J.; Baraloto, C.; Engel, J.; Jaouen, G.; Louisanna, E.; Manzi, S.; Sagne, A.; Roy, M. |
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Tree communities and soil properties influence fungal community assembly in neotropical forests |
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Journal Article |
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2020 |
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Biotropica |
Abbreviated Journal |
Biotropica |
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52 |
Issue |
3 |
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444-456 |
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communities; composition; diversity; habitat; lowland neotropical rain forest; macrofungi; soil properties; trees; ectomycorrhiza; fungus; heterogeneity; Neotropical Region; physicochemical property; rainforest; species inventory; species richness; tree; tropical forest; French Guiana; Agaricales; Aphyllophorales; Basidiomycota |
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The influence exerted by tree communities, topography, and soil chemistry on the assembly of macrofungal communities remains poorly understood, especially in highly diverse tropical forests. Here, we used a large dataset that combines inventories of macrofungal Basidiomycetes fruiting bodies, tree species composition, and measurements for 16 soil physicochemical parameters, collected in 34 plots located in four sites of lowland rain forests in French Guiana. Plots were established on three different topographical conditions: hilltop, slope, and seasonally flooded soils. We found hyperdiverse Basidiomycetes communities, mainly comprising members of Agaricales and Polyporales. Phosphorus, clay contents, and base saturation in soils strongly varied across plots and shaped the richness and composition of tree communities. The latter composition explained 23% of the variation in the composition of macrofungal communities, probably through high heterogeneity of the litter chemistry and selective effects of biotic interactions. The high local heterogeneity of habitats influenced the distribution of both macrofungi and trees, as a result of diversed local soil hydromorphic conditions associated with contrasting soil chemistry. This first regional study across habitats of French Guiana forests revealed new niches for macrofungi, such as ectomycorrhizal ones, and illustrates how macrofungi inventories are still paramount to can be to understand the processes at work in the tropics. Abstract in Spanish is available with online material. © 2020 The Association for Tropical Biology and Conservation |
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Laboratoire Évolution et Diversité Biologique, CNRS, UMR 5174 UPS CNRS ENFA IRD, Université Toulouse 3 Paul Sabatier, Toulouse, France |
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Blackwell Publishing Ltd |
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00063606 (Issn) |
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EcoFoG @ webmaster @ |
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968 |
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Shipley, B.; Timothy Paine, C.E.; Baraloto, C. |
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Quantifying the importance of local niche-based and stochastic processes to tropical tree community assembly |
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Journal Article |
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2012 |
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Ecology |
Abbreviated Journal |
Ecology |
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93 |
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4 |
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760-769 |
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Community Assembly by Trait Selection, CATS; Demographic stochasticity; Dispersal limitation; Environmental filtering; French Guiana; Functional traits; Maxent; Neutral assembly; Tropical forests |
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Although niche-based and stochastic processes, including dispersal limitation and demographic stochasticity, can each contribute to community assembly, it is difficult to quantify the relative importance of each process in natural vegetation. Here, we extend Shipley's maxent model (Community Assembly by Trait Selection, CATS) for the prediction of relative abundances to incorporate both trait-based filtering and dispersal limitation from the larger landscape and develop a statistical decomposition of the proportions of the total information content of relative abundances in local communities that are attributable to traitbased filtering, dispersal limitation, and demographic stochasticity. We apply the method to tree communities in a mature, species-rich, tropical forest in French Guiana at 1-, 0.25-and 0.04-ha scales. Trait data consisted of species' means of 17 functional traits measured over both the entire meta-community and separately in each of nine 1-ha plots. Trait means calculated separately for each site always gave better predictions. There was clear evidence of trait-based filtering at all spatial scales. Trait-based filtering was the most important process at the 1-ha scale (34%), whereas demographic stochasticity was the most important at smaller scales (37-53%). Dispersal limitation from the meta-community was less important and approximately constant across scales (∼9%), and there was also an unresolved association between site-specific traits and meta-community relative abundances. Our method allows one to quantify the relative importance of local niche-based and meta-community processes and demographic stochasticity during community assembly across spatial and temporal scales. © 2012 by the Ecological Society of America. |
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INRA, UMR, Écologie des Forêts de Guyane, 97387 Kourou cedex, France |
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00129658 (Issn) |
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Export Date: 6 June 2012; Source: Scopus; Coden: Ecola; doi: 10.1890/11-0944.1; Language of Original Document: English; Correspondence Address: Shipley, B.; Département de Biologie, Université de Sherbrooke, Sherbrooke, QC J1K 2R1, Canada; email: Bill.Shipley@USherbrooke.ca |
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EcoFoG @ webmaster @ |
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401 |
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Paine, C.E.T.; Norden, N.; Chave, J.; Forget, P.-M.; Fortunel, C.; Dexter, K.G.; Baraloto, C. |
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Phylogenetic density dependence and environmental filtering predict seedling mortality in a tropical forest |
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Journal Article |
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2012 |
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Ecology Letters |
Abbreviated Journal |
Ecol. Lett. |
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15 |
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1 |
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34-41 |
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Community assembly; Density dependence; French Guiana; Generalised linear mixed models; Janzen-Connell hypothesis; Seedling recruitment; Species coexistence; Survival |
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Negative density dependence (NDD) and environmental filtering (EF) shape community assembly, but their relative importance is poorly understood. Recent studies have shown that seedling's mortality risk is positively related to the phylogenetic relatedness of neighbours. However, natural enemies, whose depredations often cause NDD, respond to functional traits of hosts rather than phylogenetic relatedness per se. To understand the roles of NDD and EF in community assembly, we assessed the effects on seedling mortality of functional similarity, phylogenetic relatedness and stem density of neighbouring seedlings and adults in a species-rich tropical forest. Mortality risks increased for common species when their functional traits departed substantially from the neighbourhood mean, and for all species when surrounded by close relatives. This indicates that NDD affects community assembly more broadly than does EF, and leads to the tentative conclusion that natural enemies respond to phylogenetically correlated traits. Our results affirm the prominence of NDD in structuring species-rich communities. © 2011 Blackwell Publishing Ltd/CNRS. |
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Department of Biology, University of Florida, Gainesville, FL 32611, United States |
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1461023x (Issn) |
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Export Date: 13 December 2011; Source: Scopus; Coden: Eclef; doi: 10.1111/j.1461-0248.2011.01705.x; Language of Original Document: English; Correspondence Address: Paine, C.E.T.; Institut für Evolutionsbiologie und Umweltwissenschaften, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland; email: timothy.paine@ieu.uzh.ch |
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EcoFoG @ webmaster @ |
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Paine, C.E.T.; Harms, K.E. |
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Quantifying the effects of seed arrival and environmental conditions on tropical seedling community structure |
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2009 |
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Oecologia |
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Oecologia |
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160 |
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1 |
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139-150 |
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Community assembly; Dispersal; Niche differentiation; Seed addition; Variance partitioning |
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Though it is recognized that both stochastic and deterministic processes structure all communities, empirical assessments of their relative importance are rare, particularly within any single community. In this paper, we quantify the dynamic effects of dispersal assembly and niche assembly on the seedling layer in a diverse neotropical rain forest. The two theories make divergent predictions regarding the roles of seed arrival and environmental heterogeneity in generating community structure. Put simply, dispersal assembly posits that the stochasticity inherent to seed arrival structures communities, whereas niche assembly suggests that heterogeneity in post-dispersal environmental conditions is more important. We experimentally sowed 15,132 seeds of eight tree species at varying levels of density and diversity. Every six months we censused the seedlings that germinated and assessed the abiotic and biotic conditions of each plot. We assessed the density, diversity, and species composition of three nested subsets of the seedling layer: seedlings germinated from sown seeds, all seedlings germinated between July 2003 and 2004, and all woody seedlings. We partitioned the variance in density and diversity of each subset of the seedling layer into components representing seed-addition treatments and environmental conditions at 6- to 12-month intervals. Seed additions initially explained more variance in the density and diversity than did environmental heterogeneity for seven of eight sown species, but explained little variance in the density or diversity of the entire seedling layer. Species composition was better explained by seed-addition treatments than by environmental heterogeneity for all three subsets and in all time periods. Nevertheless, the variance in community structure explained by seed-addition treatments declined over the two years following germination, presaging shifts in the relative importance of dispersal assembly and niche assembly. Our study quantifies how dispersal assembly and niche assembly may vary among the components of an ecological community and shift dynamically through time. |
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[Paine, C. E. Timothy; Harms, Kyle E.] Louisiana State Univ, Dept Biol Sci, Baton Rouge, LA 70803 USA, Email: timothy.paine@ecofog.gf |
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SPRINGER |
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0029-8549 |
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ISI:000265100500014 |
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EcoFoG @ eric.marcon @ |
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116 |
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Salas-Lopez, A.; Violle, C.; Mallia, L.; Orivel, J. |
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Land-use change effects on the taxonomic and morphological trait composition of ant communities in French Guiana |
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Journal Article |
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2018 |
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Insect Conservation and Diversity |
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Insect Conserv Divers |
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11 |
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2 |
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162-173 |
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Community assembly; Formicidae; functional diversity; gradient analysis; habitat filtering; land-use intensification; n-dimensional hypervolume approach |
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Abstract Land-use changes frequently lead to major changes in the composition and diversity of organisms. A reduction in the range of strategies enabling organisms to survive in a given environment and changes in the average trait values of species may potentially be associated with variations in species? number and identity. We investigated the variation in ant taxonomic composition and morphological trait diversity along a land-use gradient in French Guiana. We measured 13 core ant morphological traits on all species sampled. We then selected the set of five traits that best captured changes along the land-use gradient. Potential effects of the variation in morphological trait diversity and average values were evaluated by examining morphological traits individually as well as in combination. We found that variation in taxonomic diversity was unrelated to the plot-level morphospace. Conversely, a significant shift in taxonomic composition was accompanied by changes in the average values of community traits along the studied gradient, examined both individually and in combination. We argue that morphological trait values may be related to the success of different species in surviving in a given environment and, therefore, are indicative of the taxonomic turnover in ants along the land-use gradient. Nevertheless, in contradiction with theoretical expectations, the morphospace is only slightly affected by habitat filtering and loosely impacted by taxonomic changes. Examining the sensitivity of the morphospace to abiotic and biotic factors and how it reflects varying ecological pressures for species is thus of the utmost importance. |
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John Wiley & Sons, Ltd (10.1111) |
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1752-458x |
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doi: 10.1111/icad.12248 |
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EcoFoG @ webmaster @ |
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892 |
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Fukami, T.; Nakajima, M.; Fortunel, C.; Fine, P.V.A.; Baraloto, C.; Russo, S.E.; Peay, K.G. |
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Geographical variation in community divergence: insights from tropical forest monodominance by ectomycorrhizal trees |
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2017 |
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American Naturalist |
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American Naturalist |
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190 |
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S105-S122 |
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Community assembly; Mycorrhizae; Plant traits; Plant-soil feedback; Priority effects; Species pools |
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Convergence occurs in both species traits and community structure, but how convergence at the two scales influences each other remains unclear. To address this question, we focus on tropical forest monodominance, in which a single, often ectomycorrhizal (EM) tree species occasionally dominates forest stands within a landscape otherwise characterized by diverse communities of arbuscular mycorrhizal (AM) trees. Such monodominance is a striking potential example of community divergence resulting in alternative stable states. However, it is observed only in some tropical regions. A diverse suite of AM and EM trees locally codominate forest stands elsewhere. We develop a hypothesis to explain this geographical difference using a simulation model of plant community assembly. Simulation results suggest that in a region with a few EM species (e.g., South America), EM trees experience strong selection for convergent traits that match the abiotic conditions of the environment. Consequently, EM species successfully compete against other species to form monodominant stands via positive plant-soil feedbacks. By contrast, in a region with many EM species (e.g., Southeast Asia), species maintain divergent traits because of complex plant-soil feedbacks, with no species having traits that enablemonodominance. An analysis of plant trait data from Borneo and Peruvian Amazon was inconclusive. Overall, this work highlights the utility of geographical comparison in understanding the relationship between trait convergence and community convergence. © 2017 by The University of Chicago. |
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School of Biological Sciences, University of Nebraska, Lincoln, NE, United States |
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