| Records |
| Author |
Malé, P.-J.G.; Bardon, L.; Besnard, G.; Coissac, E.; Delsuc, F.; Engel, J.; Lhuillier, E.; Scotti-Saintagne, C.; Tinaut, A.; Chave, J. |
| Title |
Genome skimming by shotgun sequencing helps resolve the phylogeny of a pantropical tree family |
Type |
Journal Article |
| Year |
2014 |
Publication |
Molecular Ecology Resources |
Abbreviated Journal |
Mol. Ecol. Resour. |
Volume  |
14 |
Issue |
5 |
Pages |
966-975 |
| Keywords |
Next-generation sequencing; Organellar genome; Phylogenomics; Tropical trees |
| Abstract |
Whole genome sequencing is helping generate robust phylogenetic hypotheses for a range of taxonomic groups that were previously recalcitrant to classical molecular phylogenetic approaches. As a case study, we performed a shallow shotgun sequencing of eight species in the tropical tree family Chrysobalanaceae to retrieve large fragments of high-copy number DNA regions and test the potential of these regions for phylogeny reconstruction. We were able to assemble the nuclear ribosomal cluster (nrDNA), the complete plastid genome (ptDNA) and a large fraction of the mitochondrial genome (mtDNA) with approximately 1000×, 450× and 120× sequencing depth respectively. The phylogenetic tree obtained with ptDNA resolved five of the seven internal nodes. In contrast, the tree obtained with mtDNA and nrDNA data were largely unresolved. This study demonstrates that genome skimming is a cost-effective approach and shows potential in plant molecular systematics within Chrysobalanaceae and other under-studied groups. © 2014 John Wiley & Sons Ltd. |
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GeT-PlaGe, Genotoul, INRA Auzeville, Castanet-Tolosan, F-31326, France |
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Blackwell Publishing Ltd |
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17550998 (Issn) |
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Export Date: 1 September 2014; Correspondence Address: Malé, P.-J.G.; UMR 5174 Laboratoire Évolution and Diversité Biologique, CNRS, Université Paul Sabatier, ENFA, 118 route de Narbonne, Toulouse, F-31062, France; email: pjg.male@gmail.com |
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EcoFoG @ webmaster @ |
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559 |
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Leba, L.-J.; Musset, L.; Pelleau, S.; Estevez, Y.; Birer, C.; Briolant, S.; Witkowski, B.; Ménard, D.; Delves, M.J.; Legrand, E.; Duplais, C.; Popovici, J. |
| Title |
Use of Plasmodium falciparum culture-adapted field isolates for in vitro exflagellation-blocking assay |
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Journal Article |
| Year |
2015 |
Publication |
Malaria Journal |
Abbreviated Journal |
Malaria Journal |
| Volume |
14 |
Issue |
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Pages |
234 |
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| Abstract |
Background: A major requirement for malaria elimination is the development of transmission-blocking interventions. In vitro transmission-blocking bioassays currently mostly rely on the use of very few Plasmodium falciparum reference laboratory strains isolated decades ago. To fill a piece of the gap between laboratory experimental models and natural systems, the purpose of this work was to determine if culture-adapted field isolates of P. falciparum are suitable for in vitro transmission-blocking bioassays targeting functional maturity of male gametocytes: exflagellation. Methods: Plasmodium falciparum isolates were adapted to in vitro culture before being used for in vitro gametocyte production. Maturation was assessed by microscopic observation of gametocyte morphology over time of culture and the functional viability of male gametocytes was assessed by microscopic counting of exflagellating gametocytes. Suitability for in vitro exflagellation-blocking bioassays was determined using dihydroartemisinin and methylene blue. Results: In vitro gametocyte production was achieved using two isolates from French Guiana and two isolates from Cambodia. Functional maturity of male gametocytes was assessed by exflagellation observations and all four isolates could be used in exflagellation-blocking bioassays with adequate response to methylene blue and dihydroartemisinin. Conclusion: This work shows that in vitro culture-adapted P. falciparum field isolates of different genetic background, from South America and Southeast Asia, can successfully be used for bioassays targeting the male gametocyte to gamete transition, exflagellation. © 2015 Leba et al. |
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Department of Life Sciences, Imperial College, London, United Kingdom |
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Export Date: 16 July 2015 |
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no |
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EcoFoG @ webmaster @ |
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612 |
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Goulamoussene, Y.; Bedeau, C.; Descroix, L.; Linguet, L.; Herault, B. |
| Title |
Environmental control of natural gap size distribution in tropical forests |
Type |
Journal Article |
| Year |
2017 |
Publication |
Biogeosciences |
Abbreviated Journal |
Biogeosciences |
| Volume |
14 |
Issue |
2 |
Pages |
353-364 |
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Natural disturbances are the dominant form of forest regeneration and dynamics in unmanaged tropical forests. Monitoring the size distribution of treefall gaps is important to better understand and predict the carbon budget in response to land use and other global changes. In this study, we model the size frequency distribution of natural canopy gaps with a discrete power law distribution. We use a Bayesian framework to introduce and test, using Monte Carlo Markov chain and Kuo-Mallick algorithms, the effect of local physical environment on gap size distribution. We apply our methodological framework to an original light detecting and ranging dataset in which natural forest gaps were delineated over 30 000 ha of unmanaged forest. We highlight strong links between gap size distribution and environment, primarily hydrological conditions and topography, with large gaps being more frequent on floodplains and in wind-exposed areas. In the future, we plan to apply our methodological framework on a larger scale using satellite data. Additionally, although gap size distribution variation is clearly under environmental control, variation in gap size distribution in time should be tested against climate variability. © Author(s) 2017. |
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Cirad, UMR EcoFoG, AgroParisTech, CNRS, Inra, Univ Antilles, Univ Guyane, Kourou, French Guiana |
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Export Date: 7 February 2017 |
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no |
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EcoFoG @ webmaster @ |
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729 |
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Ogeron, C.; Odonne, G.; Cristinoi, A.; Engel, J.; Grenand, P.; Beauchene, J.; Clair, B.; Davy, D. |
| Title |
Palikur traditional roundwood construction in eastern French Guiana: Ethnobotanical and cultural perspectives |
Type |
Journal Article |
| Year |
2018 |
Publication |
Journal of Ethnobiology and Ethnomedicine |
Abbreviated Journal |
Journal of Ethnobiology and Ethnomedicine |
| Volume |
14 |
Issue |
28 |
Pages |
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Amazonia; Annonaceae; Architecture; Non-timber forest products; Oyapock; Palikur; Sapotaceae; Traditional technological knowledge |
| Abstract |
Background: Palikur Amerindians live in the eastern part of French Guiana which is undergoing deep-seated changes due to the geographical and economic opening of the region. So far, Palikur's traditional ecological knowledge is poorly documented, apart from medicinal plants. The aim of this study was to document ethnobotanical practices related to traditional construction in the region. Methods: A combination of qualitative and quantitative methods was used. Thirty-nine Palikur men were interviewed in three localities (Saint-Georges de l'Oyapock, Regina and Trois-Palétuviers) between December 2013 and July 2014. Twenty-four inventories of wood species used in traditional buildings were conducted in the villages, as well as ethnobotanical walks in the neighboring forests, to complete data about usable species and to determine Linnaean names. Results: After an ethnographic description of roundwood Palikur habitat, the in situ wood selection process of Palikur is precisely described. A total of 960 roundwood pieces were inventoried in situ according to Palikur taxonomy, of which 860 were beams and rafters, and 100 posts in 20 permanent and 4 temporary buildings. Twenty-seven folk species were identified. Sixty-three folk species used in construction were recorded during ethnobotanical walks. They correspond to 263 botanical species belonging to 25 families. Posts in permanent buildings were made of yawu (Minquartia guianensis) (51%) and wakap (Vouacapoua americana) (14%). Beams and rafters were made of wood from Annonaceae (79%) and Lecythidaceae (13%) families. The most frequently used species were kuukumwi priye (Oxandra asbeckii), kuukumwi seyne (Pseudoxandra cuspidata), and pukuu (Xylopia nitida and X. cayennensis). Conclusions: Although the Palikur's relationship with their habitat is undergoing significant changes, knowledge about construction wood is still very much alive in the Oyapock basin. Many people continue to construct traditional buildings alongside modern houses, using a wide array of species described here for the first time, along with the techniques used. |
| Address |
Université des Antilles, Université de Guyane, CIRAD, UMR Ecologie des Forêts de Guyane (EcoFoG), AgroParisTech, Cirad, INRA, Kourou, France |
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Export Date: 7 May 2018 |
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no |
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EcoFoG @ webmaster @ |
Serial |
802 |
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Zaremski, A.; Malandain, C.; Sibourg, O.; Andary, C.; Michaloud, G.; Ducousso, M.; Amusant, N.; Zaremski, A. |
| Title |
NGS Identification of Fungi Potentially Implicated in the Production of Agarwood From Aquilaria Spp. Tree |
Type |
Journal Article |
| Year |
2018 |
Publication |
Pro Ligno |
Abbreviated Journal |
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| Volume |
14 |
Issue |
3 |
Pages |
9-18 |
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| Abstract |
Aquilaria is a tree species belonging to the Thymeleaceae family. When Aquilaria sp. is injured, it can produce agarwood. Agarwood is characterized by a darker wood colour than the healthy one and by a strong perfume that is much esteemed by perfumers and some oriental religious communities. The production of agarwood is presumed to depend on environmental factors, among them fungi. The aim of this work is to obtain an overview of fungi present in Aquilaria sp. from different countries. Aquilaria sp. is endemic to South East Asia including notably Cambodia, Laos and Thailand, where it is cultivated to produce agarwood. In French Guiana, farmers would like to locally produce agarwood in their field. That's why we wonder if fungal communities naturally present in French Guiana present characteristics making it compatible with the induction of agarwood. In this study, NGS was used to characterize fungal communities associated with agarwood: 693,961 sequences that cover ITS2 estimated about 250bp have been obtained. These sequences have been grouped into 535 OTUs, displaying 100% identity. In this study, 87% were Ascomycetes and 10.5% were Basidiomycetes. These results show also differences in fungal communities between aboveground and belowground parts of the tree. Likewise, differences between countries within fungal communities were also observed. |
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no |
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EcoFoG @ webmaster @ |
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855 |
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Hofman, M.P.; Hayward, M.W.; Heim, M.; Marchand, P.; Rolandsen, C.M.; Mattisson, J.; Urbano, F.; Heurich, M.; Mysterud, A.; Melzheimer, J.; Morellet, N.; Voigt, U.; Allen, B.L.; Gehr, B.; Rouco, C.; Ullmann, W.; Holand, Ø.; Jørgensen, N.H.; Steinheim, G.; Cagnacci, F.; Kroeschel, M.; Kaczensky, P.; Buuveibaatar, B.; Payne, J.C.; Palmegiani, I.; Jerina, K.; Kjellander, P.; Johansson, Ö.; LaPoint, S.; Bayrakcismith, R.; Linnell, J.D.C.; Zaccaroni, M.; Jorge, M.L.S.; Oshima, J.E.F.; Songhurst, A.; Fischer, C.; Mc Bride, R.T., Jr.; Thompson, J.J.; Streif, S.; Sandfort, R.; Bonenfant, C.; Drouilly, M.; Klapproth, M.; Zinner, D.; Yarnell, R.; Stronza, A.; Wilmott, L.; Meisingset, E.; Thaker, M.; Vanak, A.T.; Nicoloso, S.; Graeber, R.; Said, S.; Boudreau, M.R.; Devlin, A.; Hoogesteijn, R.; May-Junior, J.A.; Nifong, J.C.; Odden, J.; Quigley, H.B.; Tortato, F.; Parker, D.M.; Caso, A.; Perrine, J.; Tellaeche, C.; Zieba, F.; Zwijacz-Kozica, T.; Appel, C.L.; Axsom, I.; Bean, W.T.; Cristescu, B.; Périquet, S.; Teichman, K.J.; Karpanty, S.; Licoppe, A.; Menges, V.; Black, K.; Scheppers, T.L.; Schai-Braun, S.C.; Azevedo, F.C.; Lemos, F.G.; Payne, A.; Swanepoel, L.H.; Weckworth, B.V.; Berger, A.; Bertassoni, A.; McCulloch, G.; Sustr, P.; Athreya, V.; Bockmuhl, D.; Casaer, J.; Ekori, A.; Melovski, D.; Richard-Hansen, C.; Van De Vyver, D.; Reyna-Hurtado, R.; Robardet, E.; Selva, N.; Sergiel, A.; Farhadinia, M.S.; Sunde, P.; Portas, R.; Ambarli, H.; Berzins, R.; Kappeler, P.M.; Mann, G.K.; Pyritz, L.; Bissett, C.; Grant, T.; Steinmetz, R.; Swedell, L.; Welch, R.J.; Armenteras, D.; Bidder, O.R.; González, T.M.; Rosenblatt, A.; Kachel, S.; Balkenhol, N. |
| Title |
Right on track? Performance of satellite telemetry in terrestrial wildlife research |
Type |
Journal Article |
| Year |
2019 |
Publication |
PLoS One |
Abbreviated Journal |
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| Volume |
14 |
Issue |
5 |
Pages |
e0216223 |
| Keywords |
article; nonhuman; telemetry; terrestrial species; wildlife |
| Abstract |
Satellite telemetry is an increasingly utilized technology in wildlife research, and current devices can track individual animal movements at unprecedented spatial and temporal resolutions. However, as we enter the golden age of satellite telemetry, we need an in-depth understanding of the main technological, species-specific and environmental factors that determine the success and failure of satellite tracking devices across species and habitats. Here, we assess the relative influence of such factors on the ability of satellite telemetry units to provide the expected amount and quality of data by analyzing data from over 3,000 devices deployed on 62 terrestrial species in 167 projects worldwide. We evaluate the success rate in obtaining GPS fixes as well as in transferring these fixes to the user and we evaluate failure rates. Average fix success and data transfer rates were high and were generally better predicted by species and unit characteristics, while environmental characteristics influenced the variability of performance. However, 48% of the unit deployments ended prematurely, half of them due to technical failure. Nonetheless, this study shows that the performance of satellite telemetry applications has shown improvements over time, and based on our findings, we provide further recommendations for both users and manufacturers. |
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South African National Parks, Scientific Services, Kimberley, South Africa |
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Public Library of Science |
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19326203 (Issn) |
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no |
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EcoFoG @ webmaster @ |
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874 |
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Piponiot, C.; Rödig, E.; Putz, F.E.; Rutishauser, E.; Sist, P.; Ascarrunz, N.; Blanc, L.; Derroire, G.; Descroix, L.; Guedes, M.C.; Coronado, E.H.; Huth, A.; Kanashiro, M.; Licona, J.C.; Mazzei, L.; d’Oliveira, M.V.N.; Peña-Claros, M.; Rodney, K.; Shenkin, A.; de Souza, C.R.; Vidal, E.; West, T.A.P.; Wortel, V.; Herault, B. |
| Title |
Can timber provision from Amazonian production forests be sustainable? |
Type |
Journal Article |
| Year |
2019 |
Publication |
Environmental Research Letters |
Abbreviated Journal |
Environmental Research Letters |
| Volume |
14 |
Issue |
6 |
Pages |
064014 |
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| Abstract |
Around 30 Mm3 of sawlogs are extracted annually by selective logging of natural production forests in Amazonia, Earth’s most extensive tropical forest. Decisions concerning the management of these production forests will be of major importance for Amazonian forests’ fate. To date, no regional assessment of selective logging sustainability supports decision-making. Based on data from 3500 ha of forest inventory plots, our modelling results show that the average periodic harvests of 20 m3 ha−1 will not recover by the end of a standard 30 year cutting cycle. Timber recovery within a cutting cycle is enhanced by commercial acceptance of more species and with the adoption of longer cutting cycles and lower logging intensities. Recovery rates are faster in Western Amazonia than on the Guiana Shield. Our simulations suggest that regardless of cutting cycle duration and logging intensities, selectively logged forests are unlikely to meet timber demands over the long term as timber stocks are predicted to steadily decline. There is thus an urgent need to develop an integrated forest resource management policy that combines active management of production forests with the restoration of degraded and secondary forests for timber production. Without better management, reduced timber harvests and continued timber production declines are unavoidable. |
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IOP Publishing |
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1748-9326 |
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EcoFoG @ webmaster @ |
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875 |
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Piponiot, C.; Rutishauser, E.; Derroire, G.; Putz, F.E.; Sist, P.; West, T.A.P.; Descroix, L.; Guedes, M.C.; Coronado, E.N.H.; Kanashiro, M.; Mazzei, L.; d’Oliveira, M.V.N.; Peña-Claros, M.; Rodney, K.; Ruschel, A.R.; Souza, C.R. de; Vidal, E.; Wortel, V.; Hérault, B. |
| Title |
Optimal strategies for ecosystem services provision in Amazonian production forests |
Type |
Journal Article |
| Year |
2019 |
Publication |
Environmental Research Letters |
Abbreviated Journal |
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| Volume |
14 |
Issue |
12 |
Pages |
124090 |
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Although tropical forests harbour most of the terrestrial carbon and biological diversity on Earth they continue to be deforested or degraded at high rates. In Amazonia, the largest tropical forest on Earth, a sixth of the remaining natural forests is formally dedicated to timber extraction through selective logging. Reconciling timber extraction with the provision of other ecosystem services (ES) remains a major challenge for forest managers and policy-makers. This study applies a spatial optimisation of logging in Amazonian production forests to analyse potential trade-offs between timber extraction and recovery, carbon storage, and biodiversity conservation. Current logging regulations with unique cutting cycles result in sub-optimal ES-use efficiency. Long-term timber provision would require the adoption of a land-sharing strategy that involves extensive low-intensity logging, although high transport and road-building costs might make this approach economically unattractive. By contrast, retention of carbon and biodiversity would be enhanced by a land-sparing strategy restricting high-intensive logging to designated areas such as the outer fringes of the region. Depending on management goals and societal demands, either choice will substantially influence the future of Amazonian forests. Overall, our results highlight the need for revaluation of current logging regulations and regional cooperation among Amazonian countries to enhance coherent and trans-boundary forest management. |
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IOP Publishing |
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1748-9326 |
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EcoFoG @ webmaster @ |
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910 |
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de Aguiar, H.J.A.C.; Barros, L.A.C.; Silveira, L.I.; Petitclerc, F.; Etienne, S.; Orivel, J. |
| Title |
Cytogenetic data for sixteen ant species from North-eastern Amazonia with phylogenetic insights into three subfamilies |
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Journal Article |
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2020 |
Publication |
Comparative Cytogenetics |
Abbreviated Journal |
Comp. Cytogenet. |
| Volume |
14 |
Issue |
1 |
Pages |
43-60 |
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Biodiversity; Formicidae; Karyotype; Neotropical ants |
| Abstract |
Ants play essential roles in most terrestrial ecosystems and may be considered pests for agriculture and agroforestry. Recent morphological and molecular data have challenged conventional ant phylogeny and the interpretation of karyotypic variations. Existing Neotropical ant cytogenetic data focus on Atlantic rainforest species, and provide evolutionary and taxonomic insight. However, there are data for only 18 Amazonian species. In this study, we describe the karyotypes of 16 ant species belonging to 12 genera and three subfamilies, collected in the Brazilian state of Amapa, and in French Guiana. The karyotypes of six species are described for the first time, including that of the South American genus Allomerus Mayr, 1878. The karyotype of Crematogaster Lund, 1831 is also described for the first time for the New World. For other species, extant data for geographically distinct populations was compared with our own data, e.g. for the leafcutter ants Acromyrmex balzani (Emery, 1890) and Atta sexdens (Linnaeus, 1758). The information obtained for the karyotype of Dolichoderus imitator Emery, 1894 differs from extant data from the Atlantic forest, thereby highlighting the importance of population cytogenetic approaches. This study also emphasizes the need for good chromosome preparations for studying karyotype structure. |
| Address |
INRA, UMR EcoFoG, AgroParisTech, CIRAD, CNRS, Université de Guyane, Université des Antilles, Campus Agronomique, BP 316, Kourou Cedex, 97379, France |
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Pensoft Publishers |
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19930771 (Issn) |
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EcoFoG @ webmaster @ |
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917 |
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Lormée, Hervé ; Berzins, Rachel ; Rocheteau, Vincent ; De Coster, Fran ; Denis, Thomas ; Richard-Hanssen, Cécile |
| Title |
Seasonal Variation in the Home Ranges of Black Curassow, Crax alector, in French Guiana |
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Journal Article |
| Year |
2021 |
Publication |
Tropical Conservation Science |
Abbreviated Journal |
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14 |
Issue |
1 |
Pages |
1-10 |
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spatial ecology, Cracids, tracking, Kernel method, Home range, movement pattern |
| Abstract |
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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| Notes |
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Approved |
no |
| Call Number |
EcoFoG @ webmaster @ |
Serial |
1036 |
| Permanent link to this record |
