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Author Honorio Coronado, E.N.; Blanc-Jolivet, C.; Mader, M.; García-Dávila, C.R.; Gomero, D.A.; del Castillo Torres, D.; Llampazo, G.F.; Pizango, G.H.; Sebbenn, A.M.; Meyer-Sand, B.R.V.; Paredes-Villanueva, K.; Tysklind, N.; Troispoux, V.; Massot, M.; Carvalho, C.; de Lima, H.C.; Cardoso, D.; Degen, B. doi  openurl
  Title SNP markers as a successful molecular tool for assessing species identity and geographic origin of trees in the economically important South American legume genus Dipteryx Type Journal Article
  Year 2020 Publication Journal of Heredity Abbreviated Journal J. Hered.  
  Volume 111 Issue 4 Pages 346-356  
  Keywords Cumaru; Genetic assignment; Leguminosae; Timber verification; article; chloroplast; genetic association; genetic marker; geographic origin; indel mutation; nonhuman; single nucleotide polymorphism; species identification; structure analysis; tonka bean; Dipteryx; Fabaceae  
  Abstract Dipteryx timber has been heavily exploited in South America since 2000s due to the increasing international demand for hardwood. Developing tools for the genetic identification of Dipteryx species and their geographical origin can help to promote legal trading of timber. A collection of 800 individual trees, belonging to 6 different Dipteryx species, was genotyped based on 171 molecular markers. After the exclusion of markers out of Hardy-Weinberg equilibrium or with no polymorphism or low amplification, 83 nuclear, 29 chloroplast, 13 mitochondrial single nucleotide polymorphisms (SNPs), and 2 chloroplast and 5 mitochondrial INDELS remained. Six genetic groups were identified using Bayesian Structure analyses of the nuclear SNPs, which corresponded to the different Dipteryx species collected in the field. Seventeen highly informative markers were identified as suitable for species identification and obtained self-assignment success rates to species level of 78-96%. An additional set of 15 molecular markers was selected to determine the different genetic clusters found in Dipteryx odorata and Dipteryx ferrea, obtaining self-assignment success rates of 91-100%. The success to assign samples to the correct country of origin using all or only the informative markers improved when using the nearest neighbor approach (69-92%) compared to the Bayesian approach (33-80%). While nuclear and chloroplast SNPs were more suitable for differentiating the different Dipteryx species, mitochondrial SNPs were ideal for determining the genetic clusters of D. odorata and D. ferrea. These 32 selected SNPs will be invaluable genetic tools for the accurate identification of species and country of origin of Dipteryx timber. © The American Genetic Association 2020. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com  
  Address Instituto de Biologia, Universidade Federal da Bahia, Rua Barão de Jeremoabo, s.n., Ondina, Salvador, BA, 40170-115, Brazil  
  Corporate Author Thesis  
  Publisher Oxford University Press Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume (down) Series Issue Edition  
  ISSN 00221503 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Approved no  
  Call Number EcoFoG @ webmaster @ Serial 965  
Permanent link to this record
 

 
Author Schimann, H.; Vleminckx, J.; Baraloto, C.; Engel, J.; Jaouen, G.; Louisanna, E.; Manzi, S.; Sagne, A.; Roy, M. doi  openurl
  Title Tree communities and soil properties influence fungal community assembly in neotropical forests Type Journal Article
  Year 2020 Publication Biotropica Abbreviated Journal Biotropica  
  Volume 52 Issue 3 Pages 444-456  
  Keywords 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  
  Abstract 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  
  Address Laboratoire Évolution et Diversité Biologique, CNRS, UMR 5174 UPS CNRS ENFA IRD, Université Toulouse 3 Paul Sabatier, Toulouse, France  
  Corporate Author Thesis  
  Publisher Blackwell Publishing Ltd Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume (down) Series Issue Edition  
  ISSN 00063606 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Approved no  
  Call Number EcoFoG @ webmaster @ Serial 968  
Permanent link to this record
 

 
Author Laybros, A.; Aubry-Kientz, M.; Féret, J.-B.; Bedeau, C.; Brunaux, O.; Derroire, G.; Vincent, G. doi  openurl
  Title Quantitative airborne inventories in dense tropical forest using imaging spectroscopy Type Journal Article
  Year 2020 Publication Remote Sensing Abbreviated Journal Remote Sens.  
  Volume 12 Issue 10 Pages 1577  
  Keywords Hyperspectral; LiDAR; Species diversity; Tropical forest; Cost effectiveness; Discriminant analysis; Infrared devices; Infrared radiation; Logistic regression; Remote sensing; Tropics; Classification accuracy; Classification performance; Linear discriminant analysis; Operational applications; Regularized discriminant analysis; Remote sensing technology; Short wave infrared bands; Visible and near infrared; Forestry  
  Abstract Tropical forests have exceptional floristic diversity, but their characterization remains incomplete, in part due to the resource intensity of in-situ assessments. Remote sensing technologies can provide valuable, cost-effective, large-scale insights. This study investigates the combined use of airborne LiDAR and imaging spectroscopy to map tree species at landscape scale in French Guiana. Binary classifiers were developed for each of 20 species using linear discriminant analysis (LDA), regularized discriminant analysis (RDA) and logistic regression (LR). Complementing visible and near infrared (VNIR) spectral bands with short wave infrared (SWIR) bands improved the mean average classification accuracy of the target species from 56.1% to 79.6%. Increasing the number of non-focal species decreased the success rate of target species identification. Classification performance was not significantly affected by impurity rates (confusion between assigned classes) in the non-focal class (up to 5% of bias), provided that an adequate criterion was used for adjusting threshold probability assignment. A limited number of crowns (30 crowns) in each species class was sufficient to retrieve correct labels effectively. Overall canopy area of target species was strongly correlated to their basal area over 118 ha at 1.5 ha resolution, indicating that operational application of the method is a realistic prospect (R2 = 0.75 for six major commercial tree species). © 2020 by the authors.  
  Address Cirad, UMR EcoFoG (AgroParistech, CNRS, INRAE, Université des Antilles, Université de la Guyane), Kourou, French Guiana, 97379, France  
  Corporate Author Thesis  
  Publisher Mdpi Ag Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume (down) Series Issue Edition  
  ISSN 20724292 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Approved no  
  Call Number EcoFoG @ webmaster @ Serial 969  
Permanent link to this record
 

 
Author Vleminckx, J.; Bauman, D.; Demanet, M.; Hardy, O.J.; Doucet, J.-L.; Drouet, T. doi  openurl
  Title Past human disturbances and soil fertility both influence the distribution of light-demanding tree species in a Central African tropical forest Type Journal Article
  Year 2020 Publication Journal of Vegetation Science Abbreviated Journal J. Veg. Sci.  
  Volume 31 Issue 3 Pages 440-453  
  Keywords light-demanding species; moist tropical forests; past human disturbances; shade-bearer species; soil charcoal abundance; soil properties; tree community assemblages; wood-specific gravity; anthropogenic effect; forest canopy; forest ecosystem; shifting cultivation; soil fertility; soil property; tree; tropical forest; Cameroon  
  Abstract Questions: In vast areas of Central African forests, the upper canopy is presently dominated by light-demanding tree species. Here, we confront three hypotheses to explain this dominance: (a) these species have expanded their distribution because of widespread past slash-and-burn activities, as suggested by important charcoal amounts recorded in the soils of the region; (b) their abundance is rather explained by soil properties, as this guild establishes preferentially on favourable physico-chemical conditions for rapid growth; (c) soil properties have been substantially influenced by past human disturbances and those two effects cannot be disentangled. Location: Pallisco-CIFM logging concession, southeastern Cameroon (300,000 ha). Methods: We quantified soil charcoal abundance and measured ten soil variables at the basis of 60 target trees that belonged to a list of three long-living pioneer light-demanding (LLP) and four shade-bearer (SB) species. We identified all stems with a diameter at breast height (DBH) ≥ 20 cm within a distance of 15 m around each target tree. Species were characterised by their wood-specific gravity (WSG), which reflected their light requirement. Multiple regression models were used to quantify and test the relative effects of charcoal abundance and soil variables on the mean WSG of the 60 tree communities, as well as the abundance of three guilds: LLP, SB, and non-pioneer light demanders (NPLD). Results: The mean WSG was the only response variable significantly explained by soil variables and charcoal abundance combined. It was significantly negatively associated with soil calcium and Mg content and with charcoal abundance, with soil and charcoal influencing the mean WSG independently. Conclusion: Our study provides evidence that past human disturbances and soil fertility have independently promoted the establishment of light-demanding species in western Central African forests, thereby shedding light on tree community assembly rules in these ecosystems which remain considerably understudied compared to the tropical forests of other continents. © 2020 International Association for Vegetation Science  
  Address Forest is life, TERRA Teaching and Research Centre, Université de Liège – Gembloux Agro-Bio Tech, Gembloux, Belgium  
  Corporate Author Thesis  
  Publisher Wiley-Blackwell Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume (down) Series Issue Edition  
  ISSN 11009233 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Approved no  
  Call Number EcoFoG @ webmaster @ Serial 970  
Permanent link to this record
 

 
Author Van Langenhove, L.; Depaepe, T.; Vicca, S.; van den Berge, J.; Stahl, C.; Courtois, E.; Weedon, J.; Urbina, I.; Grau, O.; Asensio, D.; Peñuelas, J.; Boeckx, P.; Richter, A.; Van Der Straeten, D.; Janssens, I.A. doi  openurl
  Title Regulation of nitrogen fixation from free-living organisms in soil and leaf litter of two tropical forests of the Guiana shield Type Journal Article
  Year 2020 Publication Plant and Soil Abbreviated Journal Plant Soil  
  Volume 450 Issue 1-2 Pages 93-110  
  Keywords Free-living nitrogen fixation; French Guiana; Molybdenum; Nutrients; Phosphorus; Tropical forest; acetylene; leaf litter; molybdenum; nitrogen fixation; nutrient cycling; phosphorus; rainforest; reduction; soil biota; soil carbon; soil nitrogen; soil water; topographic effect; tropical forest; French Guiana  
  Abstract Background and aims: Biological fixation of atmospheric nitrogen (N2) is the main pathway for introducing N into unmanaged ecosystems. While recent estimates suggest that free-living N fixation (FLNF) accounts for the majority of N fixed in mature tropical forests, the controls governing this process are not completely understood. The aim of this study was to quantify FLNF rates and determine its drivers in two tropical pristine forests of French Guiana. Methods: We used the acetylene reduction assay to measure FLNF rates at two sites, in two seasons and along three topographical positions, and used regression analyses to identify which edaphic explanatory variables, including carbon (C), nitrogen (N), phosphorus (P) and molybdenum (Mo) content, pH, water and available N and P, explained most of the variation in FLNF rates. Results: Overall, FLNF rates were lower than measured in tropical systems elsewhere. In soils seasonal variability was small and FLNF rates differed among topographies at only one site. Water, P and pH explained 24% of the variation. In leaf litter, FLNF rates differed seasonally, without site or topographical differences. Water, C, N and P explained 46% of the observed variation. We found no regulatory role of Mo at our sites. Conclusions: Rates of FLNF were low in primary rainforest on poor soils on the Guiana shield. Water was the most important rate-regulating factor and FLNF increased with increasing P, but decreased with increasing N. Our results support the general assumption that N fixation in tropical lowland forests is limited by P availability. © 2019, The Author(s).  
  Address Department of Microbiology and Ecosystem Science, University of Vienna, Althanstr. 14, Vienna, 1090, Austria  
  Corporate Author Thesis  
  Publisher Springer Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume (down) Series Issue Edition  
  ISSN 0032079x (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Approved no  
  Call Number EcoFoG @ webmaster @ Serial 971  
Permanent link to this record
 

 
Author Aili, S.R.; Touchard, A.; Hayward, R.; Robinson, S.D.; Pineda, S.S.; Lalagüe, H.; Mrinalini; Vetter, I.; Undheim, E.A.B.; Kini, R.M.; Escoubas, P.; Padula, M.P.; Myers, G.S.A.; Nicholson, G.M. doi  openurl
  Title An integrated proteomic and transcriptomic analysis reveals the venom complexity of the bullet ant Paraponera clavata Type Journal Article
  Year 2020 Publication Toxins Abbreviated Journal Toxins  
  Volume 12 Issue 5 Pages  
  Keywords DRG neurons; Hyaluronidase; Neurotoxins; Paraponeritoxin; Phospholipases; Rp-Hplc; alpha latrotoxin; ant venom; arginine kinase; cathepsin; contig; defensin 2; hyaluronidase; icarapin; metalloproteinase; neurotoxin; novel toxin like protein; phospholipase; phospholipase A2; poneratoxin; proteome; serine proteinase; transcriptome; unclassified drug; amino acid sequence; ant; Article; liquid chromatography-mass spectrometry; neurotoxicity; nonhuman; Paraponera clavata; protein expression; proteomics; sequence database; tandem mass spectrometry; transcriptomics; venom gland  
  Abstract A critical hurdle in ant venom proteomic investigations is the lack of databases to comprehensively and specifically identify the sequence and function of venom proteins and peptides. To resolve this, we used venom gland transcriptomics to generate a sequence database that was used to assign the tandem mass spectrometry (MS) fragmentation spectra of venom peptides and proteins to specific transcripts. This was performed alongside a shotgun liquid chromatography-mass spectrometry (LC-MS/MS) analysis of the venom to confirm that these assigned transcripts were expressed as proteins. Through the combined transcriptomic and proteomic investigation of Paraponera clavata venom, we identified four times the number of proteins previously identified using 2D-PAGE alone. In addition to this, by mining the transcriptomic data, we identified several novel peptide sequences for future pharmacological investigations, some of which conform with inhibitor cysteine knot motifs. These types of peptides have the potential to be developed into pharmaceutical or bioinsecticide peptides. © 2020 by the authors. Licensee MDPI, Basel, Switzerland.  
  Address Faculty of Science, University of Nice, Nice, 06000, France  
  Corporate Author Thesis  
  Publisher Mdpi Ag Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume (down) Series Issue Edition  
  ISSN 20726651 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Approved no  
  Call Number EcoFoG @ webmaster @ Serial 972  
Permanent link to this record
 

 
Author Nixon, S.; Agwa, A.; Robinson, S.; Walker, A.; Touchard, A.; Schroeder, C.; Vetter, I.; Kotze, A.C.; Herzig, V.; King, G.F. doi  openurl
  Title Discovery and characterisation of novel peptides from Amazonian stinging ant venoms with antiparasitic activity Type Journal Article
  Year 2020 Publication Toxicon Abbreviated Journal Toxicon  
  Volume 177 Issue 1 Pages S60  
  Keywords  
  Abstract  
  Address The Institute for Molecular Bioscience, The University of Queensland, Australia; CSIRO Agriculture and Food, Australia; CNRS, UMR Ecologie des forêts de Guyane, France  
  Corporate Author Thesis  
  Publisher NLM (Medline) Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume (down) Series Issue Edition  
  ISSN 18793150 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Approved no  
  Call Number EcoFoG @ webmaster @ Serial 973  
Permanent link to this record
 

 
Author Birer, C.; Moreau, C.S.; Tysklind, N.; Zinger, L.; Duplais, C. doi  openurl
  Title Disentangling the assembly mechanisms of ant cuticular bacterial communities of two Amazonian ant species sharing a common arboreal nest Type Journal Article
  Year 2020 Publication Molecular Ecology Abbreviated Journal Mol. Ecol.  
  Volume 29 Issue 7 Pages 1372-1385  
  Keywords ant gardens; bacterial communities; cuticular microbiome; insect cuticle; metabarcoding  
  Abstract Bacteria living on the cuticle of ants are generally studied for their protective role against pathogens, especially in the clade of fungus-growing ants. However, little is known regarding the diversity of cuticular bacteria in other ant host species, as well as the mechanisms leading to the composition of these communities. Here, we used 16S rRNA gene amplicon sequencing to study the influence of host species, species interactions and the pool of bacteria from the environment on the assembly of cuticular bacterial communities on two phylogenetically distant Amazonian ant species that frequently nest together inside the roots system of epiphytic plants, Camponotus femoratus and Crematogaster levior. Our results show that (a) the vast majority of the bacterial community on the cuticle is shared with the nest, suggesting that most bacteria on the cuticle are acquired through environmental acquisition, (b) 5.2% and 2.0% of operational taxonomic units (OTUs) are respectively specific to Ca. femoratus and Cr. levior, probably representing their respective core cuticular bacterial community, and (c) 3.6% of OTUs are shared between the two ant species. Additionally, mass spectrometry metabolomics analysis of metabolites on the cuticle of ants, which excludes the detection of cuticular hydrocarbons produced by the host, were conducted to evaluate correlations among bacterial OTUs and m/z ion mass. Although some positive and negative correlations are found, the cuticular chemical composition was weakly species-specific, suggesting that cuticular bacterial communities are prominently environmentally acquired. Overall, our results suggest the environment is the dominant source of bacteria found on the cuticle of ants. © 2020 John Wiley & Sons Ltd  
  Address Institut de Biologie de l’Ecole Normale Supérieure (IBENS), Ecole Normale Supérieure, CNRS, INSERM, PSL Université Paris, Paris, France  
  Corporate Author Thesis  
  Publisher Blackwell Publishing Ltd Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume (down) Series Issue Edition  
  ISSN 09621083 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Approved no  
  Call Number EcoFoG @ webmaster @ Serial 975  
Permanent link to this record
 

 
Author Lang, G.; Marcon, E.; Puech, F. doi  openurl
  Title Distance-based measures of spatial concentration: introducing a relative density function Type Journal Article
  Year 2020 Publication Annals of Regional Science Abbreviated Journal Ann. Reg. Sci.  
  Volume 64 Issue 2 Pages 243-265  
  Keywords Agglomeration; Aggregation; Economic geography; Point patterns; Spatial concentration; accuracy assessment; econometrics; economic activity; economic geography; industrial agglomeration; industrial location; location decision; spatial analysis; spatial distribution  
  Abstract For more than a decade, distance-based methods have been widely employed and constantly improved in spatial economics. These methods are a very useful tool for accurately evaluating the spatial distribution of economic activity. We introduce a new distance-based statistical measure for evaluating the spatial concentration of industries. The m function is the first relative density function to be proposed in economics. This tool supplements the typology of distance-based methods recently drawn up by Marcon and Puech (J Econ Geogr 3(4):409–428, 2003). By considering several simulated and real examples, we show the advantages and the limits of the m function for detecting spatial structures in economics. © 2019, Springer-Verlag GmbH Germany, part of Springer Nature.  
  Address RITM, Univ. Paris-Sud, Université Paris-Saclay and CREST, Sceaux, France  
  Corporate Author Thesis  
  Publisher Springer Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume (down) Series Issue Edition  
  ISSN 05701864 (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Approved no  
  Call Number EcoFoG @ webmaster @ Serial 976  
Permanent link to this record
 

 
Author Fortunel, C.; Stahl, C.; Heuret, P.; Nicolini, E.; Baraloto, C. doi  openurl
  Title Disentangling the effects of environment and ontogeny on tree functional dimensions for congeneric species in tropical forests Type Journal Article
  Year 2020 Publication New Phytologist Abbreviated Journal New Phytol.  
  Volume 226 Issue 2 Pages 385-395  
  Keywords chemistry; developmental stage; habitats; Micropholis; morphology; physiology; plant traits; seasons; developmental stage; ecosystem function; forest ecosystem; habitat selection; habitat structure; nutrient availability; ontogeny; physiological response; soil water; taxonomy; tropical forest; Amazonia  
  Abstract Soil water and nutrient availability are key drivers of tree species distribution and forest ecosystem functioning, with strong species differences in water and nutrient use. Despite growing evidence for intraspecific trait differences, it remains unclear under which circumstances the effects of environmental gradients trump those of ontogeny and taxonomy on important functional dimensions related to resource use, particularly in tropical forests. Here, we explore how physiological, chemical, and morphological traits related to resource use vary between life stages in four species within the genus Micropholis that is widespread in lowland Amazonia. Specifically, we evaluate how environment, developmental stage, and taxonomy contribute to single-trait variation and multidimensional functional strategies. We find that environment, developmental stage, and taxonomy differentially contribute to functional dimensions. Habitats and seasons shape physiological and chemical traits related to water and nutrient use, whereas developmental stage and taxonomic identity impact morphological traits –especially those related to the leaf economics spectrum. Our findings suggest that combining environment, ontogeny, and taxonomy allows for a better understanding of important functional dimensions in tropical trees and highlights the need for integrating tree physiological and chemical traits with classically used morphological traits to improve predictions of tropical forests’ responses to environmental change. © 2019 The Authors New Phytologist © 2019 New Phytologist Trust  
  Address Department of Biological Sciences, Florida International University, Miami, FL 33133, United States  
  Corporate Author Thesis  
  Publisher Blackwell Publishing Ltd Place of Publication Editor  
  Language Summary Language Original Title  
  Series Editor Series Title Abbreviated Series Title  
  Series Volume (down) Series Issue Edition  
  ISSN 0028646x (Issn) ISBN Medium  
  Area Expedition Conference  
  Notes Approved no  
  Call Number EcoFoG @ webmaster @ Serial 977  
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