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Harper, Anna B. ; Williams, Karina E. ; McGuire, Patrick ; Duran Rojas, Maria Carolina ; Hemming, Debbie ; Verhoef, Anne ; Huntingford, Chris ; Rowland, Lucy ; Marthews, Toby ; Breder Eller, Cleiton ; Mathison, Camilla ; Nobrega, Rodolfo L.B. ; Gedney, Nicola ; Vidale, Pier Luigi ; Otu-Larbi, Fred ; Pandey, Divya |
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Improvement of modeling plant responses to low soil moisture in JULESvn4.9 and evaluation against flux tower measurements |
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2021 |
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Geoscientific Model Development |
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14 |
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6 |
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3269-3294 |
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Drought is predicted to increase in the future due to climate change, bringing with it myriad impacts on ecosystems. Plants respond to drier soils by reducing stomatal conductance in order to conserve water and avoid hydraulic damage. Despite the importance of plant drought responses for the global carbon cycle and local and regional climate feedbacks, land surface models are unable to capture observed plant responses to soil moisture stress. We assessed the impact of soil moisture stress on simulated gross primary productivity (GPP) and latent energy flux (LE) in the Joint UK Land Environment Simulator (JULES) vn4.9 on seasonal and annual timescales and evaluated 10 different representations of soil moisture stress in the model. For the default configuration, GPP was more realistic in temperate biome sites than in the tropics or high-latitude (cold-region) sites, while LE was best simulated in temperate and high-latitude (cold) sites. Errors that were not due to soil moisture stress, possibly linked to phenology, contributed to model biases for GPP in tropical savanna and deciduous forest sites. We found that three alternative approaches to calculating soil moisture stress produced more realistic results than the default parameterization for most biomes and climates. All of these involved increasing the number of soil layers from 4 to 14 and the soil depth from 3.0 to 10.8 m. In addition, we found improvements when soil matric potential replaced volumetric water content in the stress equation (the “soil14psi” experiments), when the critical threshold value for inducing soil moisture stress was reduced (“soil14p0”), and when plants were able to access soil moisture in deeper soil layers (“soil14_dr*2”). For LE, the biases were highest in the default configuration in temperate mixed forests, with overestimation occurring during most of the year. At these sites, reducing soil moisture stress (with the new parameterizations mentioned above) increased LE and increased model biases but improved the simulated seasonal cycle and brought the monthly variance closer to the measured variance of LE. Further evaluation of the reason for the high bias in LE at many of the sites would enable improvements in both carbon and energy fluxes with new parameterizations for soil moisture stress. Increasing the soil depth and plant access to deep soil moisture improved many aspects of the simulations, and we recommend these settings in future work using JULES or as a general way to improve land surface carbon and water fluxes in other models. In addition, using soil matric potential presents the opportunity to include plant functional type-specific parameters to further improve modeled fluxes. |
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European Geosciences Union |
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EcoFoG @ webmaster @ |
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1057 |
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Poyatos, Rafael ; Granda, Victor ; Flo, Victor ; Adams, Mark A. ; Adorjan, Balazs ; Aguadé, David ; Aidar, Marcos P.M. ; Allen, Scott ; Alvarado-Barrientos, M.Susana ; Anderson-Teixeira, Kristina J. ; Aparecido, Luiza Maria ; Arain, M. Altaf ; Aranda, Ismael ; Asbjornsen, Heidi ; Baxter, Robert |
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Global transpiration data from sap flow measurements: the SAPFLUXNET database |
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2021 |
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Earth System Science Data |
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13 |
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6 |
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2607–2649 |
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Plant transpiration links physiological responses of vegetation to water supply and demand with hydrological, energy, and carbon budgets at the land–atmosphere interface. However, despite being the main land evaporative flux at the global scale, transpiration and its response to environmental drivers are currently not well constrained by observations. Here we introduce the first global compilation of whole-plant transpiration data from sap flow measurements (SAPFLUXNET, https://sapfluxnet.creaf.cat/, last access: 8 June 2021). We harmonized and quality-controlled individual datasets supplied by contributors worldwide in a semi-automatic data workflow implemented in the R programming language. Datasets include sub-daily time series of sap flow and hydrometeorological drivers for one or more growing seasons, as well as metadata on the stand characteristics, plant attributes, and technical details of the measurements. SAPFLUXNET contains 202 globally distributed datasets with sap flow time series for 2714 plants, mostly trees, of 174 species. SAPFLUXNET has a broad bioclimatic coverage, with woodland/shrubland and temperate forest biomes especially well represented (80 % of the datasets). The measurements cover a wide variety of stand structural characteristics and plant sizes. The datasets encompass the period between 1995 and 2018, with 50 % of the datasets being at least 3 years long. Accompanying radiation and vapour pressure deficit data are available for most of the datasets, while on-site soil water content is available for 56 % of the datasets. Many datasets contain data for species that make up 90 % or more of the total stand basal area, allowing the estimation of stand transpiration in diverse ecological settings. SAPFLUXNET adds to existing plant trait datasets, ecosystem flux networks, and remote sensing products to help increase our understanding of plant water use, plant responses to drought, and ecohydrological processes. SAPFLUXNET version 0.1.5 is freely available from the Zenodo repository (https://doi.org/10.5281/zenodo.3971689; Poyatos et al., 2020a). The “sapfluxnetr” R package – designed to access, visualize, and process SAPFLUXNET data – is available from CRAN. |
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EcoFoG @ webmaster @ |
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1058 |
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Picard, Nicolas ; Mortier, Frédéric ; Ploton, Pierre ; Liang, Jingjing ; Derroire, Géraldine ; Bastin, Jean-François ; Ayyappan, Narayanan ; Bénédet, Fabrice ; Bosela, Faustin Boyemba ; Clark, Connie J. ; Crowther, Thomas W. ; Obiang, Nestor Laurier Engone ; Forni, Eric ; Harris, David ; Ngomanda, Alfred ; Poulsen, John R. ; Sonké, Bonaventure ; Couteron, Pierre ; Gourley-Fleury, Sylvie |
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Using Model Analysis to Unveil Hidden Patterns in Tropical Forest structures |
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2021 |
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Frontiers in Ecology and Evolution |
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9 |
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599200 |
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When ordinating plots of tropical rain forests using stand-level structural attributes such as biomass, basal area and the number of trees in different size classes, two patterns often emerge: a gradient from poorly to highly stocked plots and high positive correlations between biomass, basal area and the number of large trees. These patterns are inherited from the demographics (growth, mortality and recruitment) and size allometry of trees and tend to obscure other patterns, such as site differences among plots, that would be more informative for inferring ecological processes. Using data from 133 rain forest plots at nine sites for which site differences are known, we aimed to filter out these patterns in forest structural attributes to unveil a hidden pattern. Using a null model framework, we generated the anticipated pattern inherited from individual allometric patterns. We then evaluated deviations between the data (observations) and predictions of the null model. Ordination of the deviations revealed site differences that were not evident in the ordination of observations. These sites differences could be related to different histories of large-scale forest disturbance. By filtering out patterns inherited from individuals, our model analysis provides more information on ecological processes |
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1029 |
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Diatta, Bétémondji Désiré ; Niass, Ousmane ; Diouf, Massamba ; Guéye, Mathieu ; Houel, Emeline ; Boetsch, Gilles |
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Diversité et composition phytochimique des bâtonnets frotte-dents (cure-dents) proposés chez les Peul de la commune de Tessékéré (Ferlo Nord, Sénégal) |
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Journal Article |
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2021 |
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Journal of Applied Biosciences |
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158 |
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16267-16281 |
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Objectifs : Le but de cette étude était de déterminer la composition phytochimique et la teneur en grandes classes chimiques des tiges les plus utilisées comme bâtonnets frotte-dents chez les peul de Widou Thiengoli au Nord Ferlo (Sénégal). Méthodes et résultats : Des entretiens ouverts semi structurés ont permis de recueillir les plantes les plus utilisées. L’indice de fidélité renseigne sur la convergence des usages quant à l’emploi des plantes comme bâtonnets frotte-dent comparé aux autres pratiques cosmétiques. L’étude de la composition phytochimique des tiges a ciblé 8 classes chimiques. Les tanins et les saponines sont très fréquents ; les terpénoïdes et les leuco-anthocyanines presque inexistants. Un dosage des flavonoïdes, alcaloïdes et polyphénols, réalisé chez des extraits aqueux, a porté sur 12 plantes. Les meilleures teneurs en polyphénols et alcaloïdes sont recueillies chez Anogeissus leiocarpa, et la meilleure en flavonoïdes chez Commiphora africana. Conclusion et applicabilité des résultats : Ces résultats permettent de sélectionner à travers la composition phytochimique des plantes, les espèces présentant de potentielles activités antimicrobiennes, car renfermant des composés phytochimique doués de fonctions germicides, au- delà de la fonction mécanique connue des bâtonnets dans l’élimination de la plaque dentaire. |
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Elewa |
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1997-5902 |
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EcoFoG @ webmaster @ |
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1053 |
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Gargallo-Garriga, Albert ; Sardans, Jordi ; Alrefaei, Abdulwahed Fahad ; Klem, Karel ; Fuchslueger, Lucia ; Ramirez-Rojas, Irène ; Donald, Julian ; Leroy, Celine ; Van Langenhove, Leandro ; Verbruggen, Erik ; Janssens, Ivan A. ; Urban, Otmar ; Penuelas, Josep |
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Tree Species and Epiphyte Taxa Determine the “Metabolomic niche” of Canopy Suspended Soils in a Species-Rich Lowland Tropical Rainforest |
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2021 |
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Metabolites |
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11 |
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11 |
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Bacteria, Canopy soils, Epiphyte, French Guiana, Metabolomics |
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Tropical forests are biodiversity hotspots, but it is not well understood how this diversity is structured and maintained. One hypothesis rests on the generation of a range of metabolic niches, with varied composition, supporting a high species diversity. Characterizing soil metabolomes can reveal fine-scale differences in composition and potentially help explain variation across these habitats. In particular, little is known about canopy soils, which are unique habitats that are likely to be sources of additional biodiversity and biogeochemical cycling in tropical forests. We studied the effects of diverse tree species and epiphytes on soil metabolomic profiles of forest floor and canopy suspended soils in a French Guianese rainforest. We found that the metabolomic profiles of canopy suspended soils were distinct from those of forest floor soils, differing between epiphyte-associated and non-epiphyte suspended soils, and the metabolomic profiles of suspended soils varied with host tree species, regardless of association with epiphyte. Thus, tree species is a key driver of rainforest suspended soil metabolomics. We found greater abundance of metabolites in suspended soils, particularly in groups associated with plants, such as phenolic compounds, and with metabolic pathways related to amino acids, nucleotides, and energy metabolism, due to the greater relative proportion of tree and epiphyte organic material derived from litter and root exudates, indicating a strong legacy of parent biological material. Our study provides evidence for the role of tree and epiphyte species in canopy soil metabolomic composition and in maintaining the high levels of soil metabolome diversity in this tropical rainforest. It is likely that a wide array of canopy microsite-level environmental conditions, which reflect interactions between trees and epiphytes, increase the microscale diversity in suspended soil metabolomes |
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MDPI |
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EcoFoG @ webmaster @ |
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1041 |
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Chanson, Anaïs ; Moreau, Corrie S. ; Duplais, Christophe |
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Assessing Biosynthetic Gene Cluster Diversity of Specialized Metabolites in the Conserved Gut Symbionts of Herbivorous Turtle Ants |
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2021 |
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Frontiers in Microbiology |
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12 |
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678100 |
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insect-microbe mutualism, ants, metagemonic, biosynthetic gene cluster, gut bacteria, Cephalotes |
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Cephalotes are herbivorous ants (>115 species) feeding on low-nitrogen food sources, and they rely on gut symbionts to supplement their diet by recycling nitrogen food waste into amino acids. These conserved gut symbionts, which encompass five bacterial orders, have been studied previously for their primary nitrogen metabolism; however, little is known about their ability to biosynthesize specialized metabolites which can play a role in bacterial interactions between communities living in close proximity in the gut. To evaluate the biosynthetic potential of their gut symbionts, we mine 14 cultured isolate genomes and gut metagenomes across 17 Cephalotes species to explore the biodiversity of biosynthetic gene clusters (BGCs) producing specialized metabolites. The diversity of BGCs across Cephalotes phylogeny was analyzed using sequence similarity networking and BGC phylogenetic reconstruction. Our results reveal that the conserved gut symbionts involved in the nutritional symbiosis possess 80% of all the 233 BGCs retrieved in this work. Furthermore, the phylogenetic analysis of BGCs reveals different patterns of distribution, suggesting different mechanisms of conservation. A siderophore BGC shows high similarity in a single symbiont across different ant host species, whereas a BGC encoding the production of non-ribosomal peptides (NRPs) found different symbionts within a single host species. Additionally, BGCs were abundant in four of the five bacterial orders of conserved symbionts co-occurring in the hindgut. However, one major symbiont localized alone in the midgut lack BGCs. Because the spatial isolation prevents direct interaction with other symbionts, this result supports the idea that BGCs are maintained in bacteria living in close proximity but are dispensable for an alone-living symbiont. These findings together pave the way for studying the mechanisms of BGC conservation and evolution in gut bacterial genomes associated with Cephalotes. This work also provides a genetic background for further study, aiming to characterize bacterial specialized metabolites and to understand their functional role in multipartite mutualisms between conserved gut symbionts and Cephalotes turtle ants. |
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Frontiers Media |
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1049 |
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Heu, Katy ; Romoli, Ottavia ; Schonbeck, Johan Claes ; Ajenoe, Rachel ; Epelboin, Yanouk ; Kircher, Verena ; Houel, Emeline ; Estevez, Yannick ; Gendrin, Mathilde |
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The Effect of Secondary Metabolites Produced by Serratia marcescens on Aedes aegypti and Its Microbiota |
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2021 |
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Frontiers in Microbiology |
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12 |
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645701 |
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Serratia marcescens is a bacterial species widely found in the environment, which very efficiently colonizes mosquitoes. In this study, we isolated a red-pigmented S. marcescens strain from our mosquito colony (called S. marcescens VA). This red pigmentation is caused by the production of prodigiosin, a molecule with antibacterial properties. To investigate the role of prodigiosin on mosquito- S. marcescens interactions, we produced two white mutants of S. marcescens VA by random mutagenesis. Whole genome sequencing and chemical analyses suggest that one mutant has a nonsense mutation in the gene encoding prodigiosin synthase, while the other one is deficient in the production of several types of secondary metabolites including prodigiosin and serratamolide. We used our mutants to investigate how S. marcescens secondary metabolites affect the mosquito and its microbiota. Our in vitro tests indicated that S. marcescens VA inhibits the growth of several mosquito microbiota isolates using a combination of prodigiosin and other secondary metabolites, corroborating published data. This strain requires secondary metabolites other than prodigiosin for its proteolytic and hemolytic activities. In the mosquito, we observed that S. marcescens VA is highly virulent to larvae in a prodigiosin-dependent manner, while its virulence on adults is lower and largely depends on other metabolites |
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1024 |
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Sellan, G. ; Brearley, FQ. ; Nilus, R. ; Ttin, J. ; Majalap-Lee, N. |
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Differences in soil properties among contrasting soil types in Northern Borneo |
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2021 |
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Journal of Tropical Forest Science |
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33 |
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2 |
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191-202 |
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Soil in the tropics is high in diversity, and despite the diversity of Borneo’s forest–soil associations, there is a paucity of data on its soil properties. We investigated the differences between three soil types in the Kabili–Sepilok Forest Reserve, Sabah, Malaysia, encompassing the contrasting alluvial, sandstone and heath forest typologies. We examined the distribution of nutrients between soil types and through soil depths, and assessed the extent of spatial autocorrelation in the three soil types. We confirmed the fertility gradient from alluvial to heath forest soil found by others. Soil elemental concentrations declined in deeper horizons with the exception of exchangeable sodium and aluminium that remained constant through alluvial and sandstone soil profiles. Spatial autocorrelation was present in all three soil types and strongest in the sandstone soil. Overall, we show how bedrock, erosion, leaching and topography influence soil properties across this mosaic of soil types and note their importance in influencing tree communities and their ecological functioning. |
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FOREST RESEARCH INST MALAYSIA |
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0128-1283 |
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1017 |
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Barr, Cheryl B. ; Cerdan, Axel ; Clavier, Simon ; Murienne, Jérôme |
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Amazonopsis cerdani (Coleoptera: Elmidae: Elminae), a New Species of RiffleBeetle from French Guiana with Habitat Observations |
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2021 |
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The Coleopterists Bulletin |
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75 |
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2 |
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427-439 |
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A third species of Amazonopsis , Amazonopsis cerdani Barr and Cerdan, new species (Coleoptera: Elmidae), is herein described from French Guiana. One female paratype of Amazonopsis theranyi Barr from Peru is tentatively reassigned to A. cerdani as a non-paratype. Photographic images of the male and female habitus, and the male genitalia, are provided, as is a distribution map and a key to the species. Amazonopsis cerdani differs from A. theranyi from Peru and Amazonopsis camachoi Barr from Venezuela by the presence of prominent spines on protarsomeres 1–4 of males, among other characters. The habitat of this species is small, shallow, lowland streams with sandy-silty substrates and low flow. Specimens were collected from unconsolidated leaf litter in depositional areas, and from stick and leaf packs lodged in the current. Genetic analysis conducted on three specimens from two localities, a male and two females, showed that they are conspecific. |
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BioOne |
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EcoFoG @ webmaster @ |
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1035 |
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Lormée, Hervé ; Berzins, Rachel ; Rocheteau, Vincent ; De Coster, Fran ; Denis, Thomas ; Richard-Hanssen, Cécile |
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Seasonal Variation in the Home Ranges of Black Curassow, Crax alector, in French Guiana |
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2021 |
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Tropical Conservation Science |
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14 |
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1 |
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1-10 |
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spatial ecology, Cracids, tracking, Kernel method, Home range, movement pattern |
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Cracidae is the most threatened avian family in the Neotropics, mainly because of habitat destruction, heavy hunting pressure and poaching. In French Guiana, Black Curassows are heavily hunted, although basic knowledge of the ecological and demographical traits of the species remains limited. Such a gap prevents any attempt to assess the impact of hunting and to help stakeholders to develop proposals ensuring hunting sustainability. The spatial relationship between animals and their habitat is important for conservation management, being related to population densities through complex patterns. Here, we report on a radio-tracking study of Black Curassows in tropical primary rainforest, in Nouragues National Reserve, French Guiana. The aims of the study were to estimate home range size and its variation across seasons, and to quantify movement patterns of the birds. We captured and fitted VHF tags to four adults, and tracked them for 10 to 21.5 months. Daily movements were recorded, and home ranges estimated using the Kernel Density method, for two consecutive wet seasons and one dry season. Using 95% and 50% Kernel densities, the average annual home range and core area were 96.3± 32.6 ha (SE) and 22.8 ± 2.8 ha respectively. Home ranges appeared spatially stable over the two years, and overlapped between neighbouring groups. During the dry season, Black Curassows did not migrate but tended to enlarge their home range, with greater daily movements and higher home range overlap. Although additional data are still needed, our results can help to improve the knowledge and management of this poorly studied species |
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SAGE |
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EcoFoG @ webmaster @ |
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1036 |
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