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Author Barantal, S.; Roy, J.; Fromin, N.; Schimann, H.; Hattenschwiler, S. openurl 
  Title Long-term presence of tree species but not chemical diversity affect litter mixture effects on decomposition in a neotropical rainforest Type Journal Article
  Year 2011 Publication Oecologia Abbreviated Journal Oecologia  
  Volume 167 Issue 1 Pages 241-252  
  Keywords Amazonian rainforest; Chemical diversity; Decomposition; Functional diversity indices; Litter traits  
  Abstract Plant litter diversity effects on decomposition rates are frequently reported, but with a strong bias towards temperate ecosystems. Altered decomposition and nutrient recycling with changing litter diversity may be particularly important in tree species-rich tropical rainforests on nutrient-poor soils. Using 28 different mixtures of leaf litter from 16 Amazonian rainforest tree species, we tested the hypothesis that litter mixture effects on decomposition increase with increasing functional litter diversity. Litter mixtures and all single litter species were exposed in the field for 9 months using custom-made microcosms with soil fauna access. In order to test the hypothesis that the long-term presence of tree species contributing to the litter mixtures increases mixture effects on decomposition, microcosms were installed in a plantation at sites including the respective tree species composition and in a nearby natural forest where these tree species are absent. We found that mixture decomposition deviated from predictions based on single species, with predominantly synergistic effects. Functional litter diversity, defined as either richness, evenness, or divergence based on a wide range of chemical traits, did not explain the observed litter mixture effects. However, synergistic effects in litter mixtures increased with the long-term presence of tree species contributing to these mixtures as the home field advantage hypothesis assumes. Our data suggest that complementarity effects on mixed litter decomposition may emerge through long-term interactions between aboveground and belowground biota.  
  Address [Barantal, S; Roy, J; Fromin, N; Hattenschwiler, S] CEFE CNRS, UMR 5175, F-34293 Montpellier 5, France, Email: sandra.barantal@cefe.cnrs.fr  
  Corporate Author Thesis  
  Publisher Springer Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume Series Issue Edition  
  ISSN 0029-8549 ISBN Medium  
  Area Expedition Conference  
  Notes WOS:000293914000024 Approved no  
  Call Number (up) EcoFoG @ webmaster @ Serial 336  
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Author Wagner, F.; Herault, B.; Stahl, C.; Bonal, D.; Rossi, V. openurl 
  Title Modeling water availability for trees in tropical forests Type Journal Article
  Year 2011 Publication Agricultural and Forest Meteorology Abbreviated Journal Agric. For. Meteorol.  
  Volume 151 Issue 9 Pages 1202-1213  
  Keywords Water balance model; Amazonian rainforest; Time domain reflectometer; Bayesian inference; Tree drought stress  
  Abstract Modeling soil water availability for tropical trees is a prerequisite to predicting the future impact of climate change on tropical forests. In this paper we develop a discrete-time deterministic water balance model adapted to tropical rainforest climates, and we validate it on a large dataset that includes micrometeorological and soil parameters along a topographic gradient in a lowland forest of French Guiana. The model computes daily water fluxes (rainfall interception, drainage, tree transpiration and soil plus understorey evapotranspiration) and soil water content using three input variables: daily precipitation, potential evapotranspiration and solar radiation. A novel statistical approach is employed that uses Time Domain Reflectometer (TDR) soil moisture data to estimate water content at permanent wilting point and at field capacity, and root distribution. Inaccuracy of the TDR probes and other sources of uncertainty are taken into account by model calibration through a Bayesian framework. Model daily output includes relative extractable water, REW, i.e. the daily available water standardized by potential available water. The model succeeds in capturing temporal variations in REW regardless of topographic context. The low Root Mean Square Error of Predictions suggests that the model captures the most important drivers of soil water dynamics, i.e. water refilling and root water extraction. Our model thus provides a useful tool to explore the response of tropical forests to climate scenarios of changing rainfall regime and intensity. (C) 2011 Elsevier B.V. All rights reserved.  
  Address [Wagner, F; Herault, B] Univ Antilles Guyane, UMR Ecol Forets Guyane, F-97387 Kourou, France, Email: fabien.wagner@ecofog.gf  
  Corporate Author Thesis  
  Publisher Elsevier Science Bv Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume Series Issue Edition  
  ISSN 0168-1923 ISBN Medium  
  Area Expedition Conference  
  Notes WOS:000294032000005 Approved no  
  Call Number (up) EcoFoG @ webmaster @ Serial 337  
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Author Barabe, D.; Lacroix, C.; Gibernau, M. openurl 
  Title Floral development of Urospatha: merosity and phylogeny in the Lasioideae (Araceae) Type Journal Article
  Year 2011 Publication Plant Systematics and Evolution Abbreviated Journal Plant Syst. Evol.  
  Volume 296 Issue 1-2 Pages 41-50  
  Keywords Inflorescence; Homeosis; Angiosperms; Systematic; Morphogenetic constraints  
  Abstract In this paper we study merosity in the genus Urospatha within the framework of a resolved phylogeny of the Araceae. We analyse how a transition from dimerous or tetramerous merosity to pentamerous or hexamerous merosity can occur developmentally in the Lasioideae. In Urospatha, initiation of floral primordia along the inflorescence is acropetal, while development of flowers is basipetal. This indicates the presence of two distinct phases in the development of the Urospatha inflorescence. The first phase corresponds to initiation of flowers and establishment of the phyllotactic pattern, and the second phase to differentiation of floral organs. Urospatha is characterized by the presence of trimerous, tetramerous, pentamerous and rarely hexamerous flowers. In all types of flowers, the stamens are closely associated and opposite to the tepals. Pentamerous flowers are formed by addition of a sector comprising a stamen and tepal. Likewise, in the case of hexamerous flowers, two sectors are added. In the Lasioideae, the increase in the number of tepals and stamens is linked with two developmental processes that have appeared independently in the subfamily: (1) addition of one or two stamen-petal sectors (Anaphyllopsis and Urospatha), and (2) independent increase in the number of tepals and stamens on whorls, more or less organized and inserted in alternate position (Dracontium). Tetramerous whorls as they occur in basal Lasioideae would be homologous to two dimerous whorls from an evolutionary point of view.  
  Address [Barabe, D; Gibernau, M] CNRS UMR Ecol Forets Guyane 8172, F-97387 Kourou, France, Email: denis.barabe@umontreal.ca  
  Corporate Author Thesis  
  Publisher Springer Wien Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume Series Issue Edition  
  ISSN 0378-2697 ISBN Medium  
  Area Expedition Conference  
  Notes WOS:000294201300004 Approved no  
  Call Number (up) EcoFoG @ webmaster @ Serial 338  
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Author Rey, O.; Loiseau, A.; Facon, B.; Foucaud, J.; Orivel, J.; Cornuet, J.M.; Robert, S.; Dobigny, G.; Delabie, J.H.C.; Mariano, C.D.F.; Estoup, A. openurl 
  Title Meiotic Recombination Dramatically Decreased in Thelytokous Queens of the Little Fire Ant and Their Sexually Produced Workers Type Journal Article
  Year 2011 Publication Molecular Biology and Evolution Abbreviated Journal Mol. Biol. Evol.  
  Volume 28 Issue 9 Pages 2591-2601  
  Keywords parthenogenesis; thelytoky; recombination; inbreeding; biological invasion; Wasmannia auropunctata  
  Abstract The little fire ant, Wasmannia auropunctata, displays a peculiar breeding system polymorphism. Classical haplo-diploid sexual reproduction between reproductive individuals occurs in some populations, whereas, in others, queens and males reproduce clonally. Workers are produced sexually and are sterile in both clonal and sexual populations. The evolutionary fate of the clonal lineages depends strongly on the underlying mechanisms allowing reproductive individuals to transmit their genomes to subsequent generations. We used several queen-offspring data sets to estimate the rate of transition from heterozygosity to homozygosity associated with recombination events at 33 microsatellite loci in thelytokous parthenogenetic queen lineages and compared these rates with theoretical expectations under various parthenogenesis mechanisms. We then used sexually produced worker families to define linkage groups for these 33 loci and to compare meiotic recombination rates in sexual and parthenogenetic queens. Our results demonstrate that queens from clonal populations reproduce by automictic parthenogenesis with central fusion. These same parthenogenetic queens produce normally segregating meiotic oocytes for workers, which display much lower rates of recombination (by a factor of 45) than workers produced by sexual queens. These low recombination rates also concern the parthenogenetic production of queen offspring, as indicated by the very low rates of transition from heterozygosity to homozygosity observed (from 0% to 2.8%). We suggest that the combination of automixis with central fusion and a major decrease in recombination rates allows clonal queens to benefit from thelytoky while avoiding the potential inbreeding depression resulting from the loss of heterozygosity during automixis. In sterile workers, the strong decrease of recombination rates may also facilitate the conservation over time of some coadapted allelic interactions within chromosomes that might confer an adaptive advantage in habitats disturbed by human activity, where clonal populations of W. auropunctata are mostly found.  
  Address [Rey, O; Loiseau, A; Facon, B; Foucaud, J; Cornuet, JM; Robert, S; Dobigny, G] INRA, UMR Ctr Biol Gest Populat INRA IRD CIRAD Montpe, Montferrier Sur Lez, France, Email: olivier.rey@supagro.inra.fr  
  Corporate Author Thesis  
  Publisher Oxford Univ Press Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume Series Issue Edition  
  ISSN 0737-4038 ISBN Medium  
  Area Expedition Conference  
  Notes WOS:000294552700019 Approved no  
  Call Number (up) EcoFoG @ webmaster @ Serial 339  
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Author Niamke, F.B.; Amusant, N.; Charpentier, J.P.; Chaix, G.; Baissac, Y.; Boutahar, N.; Adima, A.A.; Kati-Coulibaly, S.; Jay-Allemand, C. openurl 
  Title Relationships between biochemical attributes (non-structural carbohydrates and phenolics) and natural durability against fungi in dry teak wood (Tectona grandis L. f.) Type Journal Article
  Year 2011 Publication Annals of Forest Science Abbreviated Journal Ann. For. Sci.  
  Volume 68 Issue 1 Pages 201-211  
  Keywords Tectona grandis; Teak heartwood; Phenolic compound; Non-structural carbohydrate; Natural durability  
  Abstract Introduction Non-structural carbohydrates and phenolic compounds are implicated in the natural durability of wood. In order to find the chemical traits of natural durability in teak wood, the radial distribution of phenolics compounds and non-structural carbohydrates were studied in trees ranked by contrasting natural durability class against Antrodia sp. Methods Non-structural carbohydrates were analyzed by spectrophotometry after enzymatic assays and phenolics compounds using HPLC. Results High concentrations of starch, sucrose, glucose, and fructose were found in the sapwood, whereas only trace amounts were found in the heartwood. In the sapwood, low concentrations of H1 (a hydroxycinnamic acid derivative) were specifically detected. Tectoquinone was also detected in the sapwood but its content increased dramatically in the heartwood. 2-(Hydroxymethyl) anthraquinone and P1, an unidentified compound, were only detected in the heartwood and at high concentrations (>3 mg equivalent 5-methoxyflavone g(-1) dry weight. Lower concentrations of 1,4-naphthoquinone, anthraquinone-2-carboxylic acid, and lapachol were also only detected in the heartwood. H1 and tectoquinone present in the sapwood could be considered as phenolic precursors of the synthesis of heartwood toxic phenolics in the heartwood. Conclusion Correlations between natural durability and chemical composition of heartwood (quinone derivatives, P1, and non-structural carbohydrates) suggest that P1, 2-(hydroxymethyl) anthraquinone and tectoquinone could be natural durability traits. Heartwood extractives,  
  Address [Niamke, FB; Baissac, Y; Jay-Allemand, C] Univ Montpellier 2, F-34095 Montpellier 05, France, Email: Christian.jay-allemand@univ-montp2.fr  
  Corporate Author Thesis  
  Publisher Springer France Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume Series Issue Edition  
  ISSN 1286-4560 ISBN Medium  
  Area Expedition Conference  
  Notes WOS:000290447600021 Approved no  
  Call Number (up) EcoFoG @ webmaster @ Serial 340  
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Author Odonne, G.; Berger, F.; Stien, D.; Grenand, P.; Bourdy, G. url  openurl
  Title Treatment of leishmaniasis in the Oyapock basin (French Guiana): A K.A.P. survey and analysis of the evolution of phytotherapy knowledge amongst Wayãpi Indians Type Journal Article
  Year 2011 Publication Journal of Ethnopharmacology Abbreviated Journal J. Ethnopharmacol.  
  Volume 137 Issue 3 Pages 1228-1239  
  Keywords Camopi River; French Guiana; Intercultural exchanges; K.A.P.; Knowledge attitude and practices; Knowledge evolution; Leishmaniasis; Oyapock River; Quantitative ethnopharmacology; Teko; Traditional remedies; Wayãpi  
  Abstract Ethnopharmacological relevance: Cutaneous leishmaniasis is a neglected disease with a high incidence in French Guiana, mainly in the middle and upper Oyapock basin, where Amerindian and some Brazilian people live. The main goals of this work were (i) to assess the knowledge about leishmaniasis in the different populations of the middle and upper Oyapock basin, (ii) to study the therapeutic strategies adopted by people affected by leishmaniasis and (iii) to document the use of phytotherapeutic remedies for leishmaniasis. Knowledge, attitudes and practices (K.A.P.) related to this disease and its treatments have been studied according to cultural group and geographical settlement. Within the Wayãpi group, the evolution of the knowledge of phytoremedies over the last 20 years has been characterised by literature-based comparisons. Materials and methods: A total of 144 questionnaires were administered in all the villages of the upper Oyapock and Camopi basins. Correspondence analyses were used for multivariate analysis. Plant species were identified at the Cayenne Herbarium (CAY). Results: The biomedical concept of leishmaniasis correlates well with the Teko and Wayãpi concepts of kalasapa and kalasapau. Although the vector of this disease was not correctly identified, the most commonly cited aetiology (74.5%) was vector-borne, and related epidemiological schemes correlate well with the one encountered in French Guiana. Theoretically and practically, health centres were the most commonly used resource for diagnostic in instances of leishmaniasis infection (65.9%), independently of the patient's cultural group, along with the use of pharmaceutical drugs (85.3%). Pharmaceuticals were commonly utilised despite the frequent (51.5%) use of phytotherapeutic remedies, alone or in combination with drugs. The most cited medicinal plant species for the treatment of leishmaniasis included Eleutherine bulbosa (Mill.) Urb. (Iridaceae, cited 14 times), Euterpe oleracea Mart. (Arecaceae, 9), Cecropia obtusa Trecul (Cecropiaceae, 8), Jatropha curcas L. (Euphorbiaceae, 7), Ceiba pentandra (L.) Gaertn. (Bombacaceae, 6) and Carica papaya L. (Caricaceae, 6). Multiple correspondence analyses demonstrated that the species used in leishmaniasis remedies are more prone to vary by the user's place of residence than by their cultural origin, which indicates that exchange of knowledge about leishmaniasis remedies has occurred across different cultural groups. Literature-based comparisons between the remedies for leishmaniasis used by the Wayãpi during the 1980s showed a striking evolution, both in terms of diversity of species and number of plants used. The large number of species shared with other Guianese groups argues for intercultural exchange and may explain the majority (57.1%) of the newly used species highlighted in our study. Conclusions: Leishmaniasis is a well-known disease in the studied area. Phytotherapeutic treatments are still in use, although they are not the main source of remedies, and should undergo pharmacological studies to evaluate their potential therapeutic value. © 2011 Elsevier Ireland Ltd. All rights reserved.  
  Address IRD, UMR152, F-31062 Toulouse Cedex 9, France  
  Corporate Author Thesis  
  Publisher Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume Series Issue Edition  
  ISSN 03788741 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Export Date: 8 November 2011; Source: Scopus; Article in Press; Coden: Joetd; doi: 10.1016/j.jep.2011.07.044; Language of Original Document: English; Correspondence Address: Odonne, G.; CNRS-UMR Ecofog, Université des Antilles et de la Guyane, 97337 Cayenne Cedex, Franceemail: guillaume.odonne@gmail.com Approved no  
  Call Number (up) EcoFoG @ webmaster @ Serial 368  
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Author Cereghino, R.; Leroy, C.; Carrias, J.F.; Pelozuelo, L.; Segura, C.; Bosc, C.; Dejean, A.; Corbara, B. openurl 
  Title Ant-plant mutualisms promote functional diversity in phytotelm communities Type Journal Article
  Year 2011 Publication Functional Ecology Abbreviated Journal Funct. Ecol.  
  Volume 25 Issue 5 Pages 954-963  
  Keywords ant gardens; biodiversity; bromeliads; community functions; forest; French Guiana; invertebrates; phytotelmata; two-species mutualism  
  Abstract 1. Our understanding of the contribution of interspecific interactions to functional diversity in nature lags behind our knowledge of spatial and temporal patterns. Although two-species mutualisms are found in all types of ecosystems, the study of their ecological influences on other community members has mostly been limited to third species, while their influence on entire communities remains largely unexplored. 2. We hypothesized that mutualistic interactions between two respective ant species and an epiphyte mediate the biological traits composition of entire invertebrate communities that use the same host plant, thereby affecting food webs and functional diversity at the community level. 3. Aechmea mertensii (Bromeliaceae) is both a phytotelm ('plant-held water') and an ant-garden epiphyte. We sampled 111 bromeliads (111 aquatic invertebrate communities) associated with either the ant Pachycondyla goeldii or Camponotus femoratus. The relationships between ants, bromeliads and invertebrate abundance data were examined using a redundancy analysis. Biological traits information for invertebrates was structured using a fuzzy-coding technique, and a co-inertia analysis between traits and abundance data was used to interpret functional differences in bromeliad ecosystems. 4. The vegetative traits of A. mertensii depended on seed dispersion by C. femoratus and P. goeldii along a gradient of local conditions. The ant partner selected sets of invertebrates with traits that were best adapted to the bromeliads' morphology, and so the composition of the biological traits of invertebrate phytotelm communities depends on the identity of the ant partner. Biological traits suggest a bottom-up control of community structure in C. femoratus-associated phytotelmata and a greater structuring role for predatory invertebrates in P. goeldii-associated plants. 5. This study presents new information showing that two-species mutualisms affect the functional diversity of a much wider range of organisms. Most biological systems form complex networks where nodes (e. g. species) are more or less closely linked to each other, either directly or indirectly, through intermediate nodes. Our observations provide community-level information about biological interactions and functional diversity, and perspectives for further observations intended to examine whether large-scale changes in interacting species/community structure over broad geographical and anthropogenic gradients affect ecosystem functions.  
  Address [Cereghino, R; Pelozuelo, L; Segura, C; Bosc, C] Univ Toulouse, EcoLab, Lab Ecol Fonct & Environm, UMR 5245, F-31062 Toulouse, France, Email: cereghin@cict.fr  
  Corporate Author Thesis  
  Publisher Wiley-Blackwell Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume Series Issue Edition  
  ISSN 0269-8463 ISBN Medium  
  Area Expedition Conference  
  Notes WOS:000295132100003 Approved no  
  Call Number (up) EcoFoG @ webmaster @ Serial 341  
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Author Herault, B.; Bachelot, B.; Poorter, L.; Rossi, V.; Bongers, F.; Chave, J.; Paine, C.E.T.; Wagner, F.; Baraloto, C. url  openurl
  Title Functional traits shape ontogenetic growth trajectories of rain forest tree species Type Journal Article
  Year 2011 Publication Journal of Ecology Abbreviated Journal J. Ecol.  
  Volume 99 Issue 6 Pages 1431-1440  
  Keywords Bayesian modelling; Functional traits; Growth modelling; Leaf economics; Leaf-height-seed strategy; Plant development and life-history traits; Plant strategy; Stem economics; Tropical rain forest  
  Abstract 1.Functional traits are posited to explain interspecific differences in performance, but these relationships are difficult to describe for long-lived organisms such as trees, which exhibit strong ontogenetic changes in demographic rates. Here, we use a size-dependent model of tree growth to test the extent to which of 17 functional traits related to leaf and stem economics, adult stature and seed size predict the ontogenetic trajectory of tree growth. 2.We used a Bayesian modelling framework to parameterize and contrast three size-dependent diameter growth models using 16years of census data from 5524 individuals of 50 rain forest tree species: a size-dependent model, a size-dependent model with species-specific parameters and a size-dependent model based on functional traits. 3.Most species showed clear hump-shaped ontogenetic growth trajectories and, across species, maximum growth rate varied nearly tenfold, from 0.58 to 5.51mmyear-1. Most species attained their maximum growth at 60% of their maximum size, whereas the magnitude of ontogenetic changes in growth rate varied widely among species. 4.The Trait-Model provided the best compromise between explained variance and model parsimony and needed considerably fewer parameters than the model with species terms. 5.Stem economics and adult stature largely explained interspecific differences in growth strategy. Maximum absolute diameter growth rates increased with increasing adult stature and leaf δ13C and decreased with increasing wood density. Species with light wood had the greatest potential to modulate their growth, resulting in hump-shaped ontogenetic growth curves. Seed size and leaf economics, generally thought to be of paramount importance for plant performance, had no significant relationships with the growth parameters. 6.Synthesis. Our modelling approach offers a promising way to link demographic parameters to their functional determinants and hence to predict growth trajectories in species-rich communities with little parameter inflation, bridging the gap between functional ecology and population demography. © 2011 The Authors. Journal of Ecology © 2011 British Ecological Society.  
  Address Department of Biology, University of Florida, Gainesville, FL 32611, United States  
  Corporate Author Thesis  
  Publisher Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume Series Issue Edition  
  ISSN 00220477 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Export Date: 21 October 2011; Source: Scopus; Coden: Jecoa; doi: 10.1111/j.1365-2745.2011.01883.x; Language of Original Document: English; Correspondence Address: Hérault, B.; Université des Antilles et de la Guyane, UMR Ecologie des Forêts de Guyane, 97387 Kourou Cedex, France; email: bruno.herault@ecofog.gf Approved no  
  Call Number (up) EcoFoG @ webmaster @ Serial 342  
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Author Hibert, F.; Sabatier, D.; Andrivot, J.; Scotti-Saintagne, C.; Gonzalez, S.; Prévost, M.-F.; Grenand, P.; Chave, J.; Caron, H.; Richard-Hansen, C. pdf  url
openurl 
  Title Botany, genetics and ethnobotany: A crossed investigation on the elusive tapir's diet in French guiana Type Journal Article
  Year 2011 Publication PLoS One Abbreviated Journal PLoS ONE  
  Volume 6 Issue 10 Pages e25850  
  Keywords  
  Abstract While the populations of large herbivores are being depleted in many tropical rainforests, the importance of their trophic role in the ecological functioning and biodiversity of these ecosystems is still not well evaluated. This is due to the outstanding plant diversity that they feed upon and the inherent difficulties involved in observing their elusive behaviour. Classically, the diet of elusive tropical herbivores is studied through the observation of browsing signs and macroscopic analysis of faeces or stomach contents. In this study, we illustrate that the original coupling of classic methods with genetic and ethnobotanical approaches yields information both about the diet diversity, the foraging modalities and the potential impact on vegetation of the largest terrestrial mammal of Amazonia, the lowland tapir. The study was conducted in the Guianan shield, where the ecology of tapirs has been less investigated. We identified 92 new species, 51 new genera and 13 new families of plants eaten by tapirs. We discuss the relative contribution of our different approaches, notably the contribution of genetic barcoding, used for the first time to investigate the diet of a large tropical mammal, and how local traditional ecological knowledge is accredited and valuable for research on the ecology of elusive animals. © 2011 Hibert et al.  
  Address INRA, Université de Bordeaux, UMR1202 BIOGECO, Cestas, France  
  Corporate Author Thesis  
  Publisher Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume Series Issue Edition  
  ISSN 19326203 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Export Date: 21 October 2011; Source: Scopus; Art. No.: e25850; doi: 10.1371/journal.pone.0025850; Language of Original Document: English; Correspondence Address: Hibert, F.; Direction Etudes et Recherches Guyane, Office National de la Chasse et de la Faune Sauvage, Kourou, French Guiana, France; email: fabricenz@gmail.com Approved no  
  Call Number (up) EcoFoG @ webmaster @ Serial 343  
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Author 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. url  openurl
  Title Two novel Ty1-copia retrotransposons isolated from coffee trees can effectively reveal evolutionary relationships in the Coffea genus (Rubiaceae) Type Journal Article
  Year 2011 Publication Molecular Genetics and Genomics Abbreviated Journal Mol. Genet. Genomics  
  Volume 285 Issue 6 Pages 447-460  
  Keywords 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  
  Abstract 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.  
  Address IRD, UMR DIADE, BP 50172, Sainte Clotilde Cedex, La Réunion 97492, France  
  Corporate Author Thesis  
  Publisher Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume Series Issue Edition  
  ISSN 16174615 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes 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 Approved no  
  Call Number (up) EcoFoG @ webmaster @ Serial 344  
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