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1. Coxiella burnetii Infection in Livestock, Pets, Wildlife, and Ticks in Latin America and the Caribbean: a Comprehensive Review of the Literature

Author

Epelboin, Loïc, De Souza Ribeiro Mioni, Mateus, Couesnon, Aurelie, Saout, Mona, Guilloton, Edith, Omar, Salma, De Santi, Vincent Pommier, Davoust, Bernard, Marié, Jean Lou, Lavergne, Anne, Donato, Damien, Guterres, Alexandro, Rabier, Sebastien, Destoop, Justin, Djossou, Felix, Baudrimont, Xavier, Roch, Antoine, Cicuttin, Gabriel Leonardo, Rozental, Tatiana, Nacher, Mathieu, Millán, Javier, De Lemos, Elba R. Sampaio, Fernandes, Jorlan, Duron, Olivier, De Thoisy, Benoit, and Rousset, Elodie

Published
2023
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2. Mosquito Feeding Habits in Coastal French Guiana: Mammals in the Crosshairs?

Author

Guidez, Amandine, Tirera, Sourakhata, Talaga, Stanislas, Lacour, Guillaume, Carinci, Romuald, Darcissac, Edith, Donato, Damien, Gaborit, Pascal, Clervil, Emmanuelle, Epelboin, Yanouk, de Thoisy, Benoit, Dusfour, Isabelle, Duchemin, Jean-Bernard, and Lavergne, Anne

Subjects
DOMESTIC animals, CULEX, ANIMAL species, RIBOSOMAL RNA, PUBLIC health, MOSQUITOES
Abstract

Simple Summary: Mosquitoes transmit pathogens through cycles involving animals and humans. Understanding which animals mosquitoes feed on helps us to monitor these diseases. In our study, we examined blood-fed female mosquitoes from various sites in French Guiana to determine their feeding preferences. We used DNA (genetic material) present in their blood meals to identify the animals they had fed on. We discovered that most mosquitoes we studied, especially those from the Culex group, prefer feeding on mammals like humans and other animals, followed by birds, amphibians, and reptiles. We identified 46 different animal species in the blood meals. Our findings provide important information on mosquito feeding habits and help improve the tracking of diseases spread by mosquitoes, which is crucial for public health. Pathogens transmitted by mosquitoes (Diptera, Culicidae) in sylvatic or urban cycles involve wild or domestic animals and humans, driven by various mosquito species with distinct host preferences. Understanding mosquito–host associations is crucial for ecological insights and pathogen surveillance. In this study, we analyzed mosquito blood meals from coastal French Guiana by amplifying and sequencing host DNA from blood-fed females. Using the 12S ribosomal RNA gene and Sanger sequencing, we identified blood meals from 26 mosquito species across six genera, with 59% belonging to the Culex genus. Nanopore sequencing of selected samples showed 12 mosquito species with one to three mixed blood-meal sources. Mammals were the primary hosts (88%), followed by birds (7%), squamates (3%), and amphibians (2%), indicating a strong preference for mammalian hosts. A total of 46 vertebrate host species were identified, demonstrating high host diversity. This research provides insights into mosquito host usage and highlights the complexities of monitoring arboviruses of public health concern. [ABSTRACT FROM AUTHOR]

Published
2024
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3. Maripa Virus RNA Load and Antibody Response in Hantavirus Pulmonary Syndrome, French Guiana

Author

Matheus, Severine, Kallel, Hatem, Roux, Alexandre, Bremand, Laetitia, Labeau, Bhety, Moua, David, Rousset, Dominique, Donato, Damien, Lacoste, Vincent, Houcke, Stephanie, Mayence, Claire, de Thoisy, Benoit, Hommel, Didier, and Lavergne, Anne

Subjects
Resveratrol -- Health aspects, Hantavirus infections -- Health aspects, Antibodies -- Health aspects, RNA -- Health aspects, Health
Abstract

Hantaviruses are members of the genus Orthohantavirus (family Hantaviridae:) and are carried by various rodent species, depending on the strain. Humans can be infected by inhalation of aerosolized viruses excreted [...]

Published
2018
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7. Statistical methods for ecoviromics of rodent reservoirs of zoonoses in French Guiana

Author

Franc, Alain, Peyrard, Nathalie, Tirera, Sourakhata, de Thoisy, Benoit, Donato, Damien, Lavergne, Anne, Biodiversité, Gènes & Communautés (BioGeCo), Université de Bordeaux (UB)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), from patterns to models in computational biodiversity and biotechnology (PLEIADE), Laboratoire Bordelais de Recherche en Informatique (LaBRI), Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Inria Bordeaux - Sud-Ouest, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Biodiversité, Gènes & Communautés (BioGeCo), Université de Bordeaux (UB)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRA), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Institut Pasteur de la Guyane, Réseau International des Instituts Pasteur (RIIP), Peyrard, Nathalie, Université de Bordeaux (UB)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Centre National de la Recherche Scientifique (CNRS)-Université de Bordeaux (UB)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Centre National de la Recherche Scientifique (CNRS)-Inria Bordeaux - Sud-Ouest, and Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRAE)

Subjects
[SDE.BE] Environmental Sciences/Biodiversity and Ecology, [MATH] Mathematics [math], [MATH]Mathematics [math], [SDE.BE]Environmental Sciences/Biodiversity and Ecology, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2020

8. Virus hébergés par les rongeurs en Guyane française

Author

Lavergne, Anne, Matheus, Séverine, Catzeflis, Francois, Donato, Damien, Lacoste, Vincent, De Thoisy, Benoît, Laboratoire des Interactions Virus-Hôtes [Cayenne, Guyane Française], Institut Pasteur de la Guyane, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), Réseau International des Instituts Pasteur (RIIP), Institut des Sciences de l'Evolution de Montpellier (UMR ISEM), École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UR226, Les travaux présentés dans cette revue ont été supportés par des fonds européens (Feder), l’aide de la Région Guyane et de la Direction régionale pour la recherche et la technologie dans le cadre des programmes VIRUSES ET RESERVOIRS, un contrat du programme FP7 de la Commission européenne « REGPOT-CT-2011-285837-STRonGer » et un contrat « Investissement d’Avenir » géré par l’Agence nationale de la recherche (CEBA, ref. ANR-10-LABEX-25-01)., ANR-10-LABX-0025,CEBA,CEnter of the study of Biodiversity in Amazonia(2010), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École Pratique des Hautes Études (EPHE), and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Institut de recherche pour le développement [IRD] : UR226-Centre National de la Recherche Scientifique (CNRS)

Subjects
rodents, rongeurs, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, arenavirus, Guyane, Hantavirus, zoonoses, French Guiana
Abstract

International audience; Among mammals, rodents play a key role in the emergence of viral diseases. In French Guiana, with 36 rodent species recorded in various ecosystems (pristine forests, savannas, anthropized environments), some natural habitats today encounter anthropogenic perturbations that induce changes in community structure and population dynamics. These modifications are sometimes associated with the circulation and emergence of viral pathogens. For 10 years, investigations on the circulation of two rodent-borne viruses, Hantavirus and Mammarenavirus, are underway in rodent populations as well as in humans for hantavirus. These investigations identified viruses from both genera in their potential reservoirs and allow describing the most favourable habitats for the reservoirs of hantavirus where the risk of viral emergence may be higher. We suggest to investigate how anthropic perturbations in rodent communities can drive the emergence of viruses that are currently confined to a small scale and search for evidence of infection in the human population.; Les rongeurs sont décrits comme des réservoirs privilégiés de nom-breuses zoonoses. Du fait de leur forte abondance, de leur dynamique et, pour plusieurs espèces, de leur capacité à coexister avec les populations humaines, les rongeurs jouent un rôle clé dans le maintien et la transmission de pathogènes. En Guyane, 36 espèces de rongeurs ont été recensées et sont présentes aussi bien en forêt primaire et secondaire qu'en savane et en zones urbaines. Certaines populations de rongeurs font face, aujourd'hui, à des perturbations de leurs habitats, du fait des pressions anthropiques. Ces perturbations engendrent des change-ments dans la dynamique des populations et des communautés pouvant avoir un impact sur la circulation et l'émergence des pathogènes. Nous avons récemment identifié des virus appartenant à deux familles virales, Bunyaviridae et Arenavi-dae, dans leurs réservoirs potentiels ainsi que des hantavirus (Bunyaviridae) chez l'homme. De plus, la caractérisation des habitats les plus favorables des espèces réservoirs d'hantavirus a permis de mettre en évidence les zones à plus fort risque d'émergence. Le rôle des communautés de rongeurs doit maintenant être étudié afin de mieux appréhender les mécanismes d'émergence en milieu amazonien.

Published
2020

10. Virome analysis of two sympatric bat species (Desmodus rotundus and Molossus molossus) in French Guiana

Author

LACOSTE, Vincent, SALMIER, Arielle, TIRERA, Sourakhata, FRANC, Alain, DARCISSAC, Edith, DONATO, Damien, BOUCHIER, Christiane, LAVERGNE, Anne, DE THOISY, Benoit, FORRESTER, Naomi, Laboratoire des Interactions Virus-Hôtes [Cayenne, Guyane Française], Institut Pasteur de la Guyane, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), Biodiversité, Gènes & Communautés (BioGeCo), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB), from patterns to models in computational biodiversity and biotechnology (PLEIADE), Laboratoire Bordelais de Recherche en Informatique (LaBRI), Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Inria Bordeaux - Sud-Ouest, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Biodiversité, Gènes & Communautés (BioGeCo), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB)-Institut National de la Recherche Agronomique (INRA), Génomique (Plate-Forme) - Genomics Platform, Institut Pasteur [Paris], A. Salmier was funded by a grant from European funds (PO FSE 2007-2013) and 'Investissement d’Avenir' managed by Agence Nationale de la Recherche (CEBA, Ref. ANR-10-LABEX-25-01). This study was conducted within the CAROLIA program supported by European funds (ERDF/FEDER) and assistance from Région Guyane and Direction Régionale pour la Recherche et la Technologie. It also received a European Commission 'REGPOT-CT-2011-285837-STRonGer' grant within the FP7 and 'Investissement d’Avenir' grants managed by the Agence Nationale de la Recherche (CEBA, Ref. ANR-10-LABEX-25-01). The Genomics Platform is a member of the France Génomique consortium (ANR10-INBS-09-08)., We acknowledge François Catzeflis and Marguerite Delaval for useful discussions on the biology, ecology and dynamics of bats. All field volunteers and owners and/or managers of capture sites are warmly acknowledged for their assistance in captures. We thank the INDA and C3BI teams at the Institut Pasteur and UMR BIOGECO for their technical support and access to the clusters. We thank L. Ma and M. Tichit for technical assistance., ANR-10-LABX-0025,CEBA,CEnter of the study of Biodiversity in Amazonia(2010), Université de Bordeaux (UB)-Institut National de la Recherche Agronomique (INRA), Centre National de la Recherche Scientifique (CNRS)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Université Sciences et Technologies - Bordeaux 1-Université Bordeaux Segalen - Bordeaux 2-Centre National de la Recherche Scientifique (CNRS)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Université Sciences et Technologies - Bordeaux 1-Université Bordeaux Segalen - Bordeaux 2-Inria Bordeaux - Sud-Ouest, Université de Bordeaux (UB)-Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB)-Institut National de la Recherche Agronomique (INRA), Génomique (Plate-Forme), ANR-10-LABX-25-01/10-LABX-0025,CEBA,CEnter of the study of Biodiversity in Amazonia(2010), Université de Bordeaux (UB)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Centre National de la Recherche Scientifique (CNRS)-Université de Bordeaux (UB)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Centre National de la Recherche Scientifique (CNRS)-Inria Bordeaux - Sud-Ouest, and Institut Pasteur [Paris] (IP)

Subjects
Topography, Molossus molossus, Forests, [SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy, Pathology and Laboratory Medicine, amazonie, Chiroptera, Bats, MESH: Animals, MESH: Ecosystem, lcsh:Science, MESH: Phylogeny, Phylogeny, Mammals, Fruit Bats, Eukaryota, Phylogenetic Analysis, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], Terrestrial Environments, French Guiana, Sympatric speciation, Medical Microbiology, Viral Pathogens, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, MESH: Viruses/genetics, MESH: Metagenomics, Bioinformatics, 030106 microbiology, Zoology, Sequence Databases, hématophage, Microbiology, 03 medical and health sciences, Phylogenetics, MESH: Sympatry/genetics, forêt primaire, espèce réservoir, Evolutionary Systematics, Saliva, Microbial Pathogens, Ecosystem, Host (biology), lcsh:R, Ecology and Environmental Sciences, Organisms, Biology and Life Sciences, 15. Life on land, 030104 developmental biology, desmodus rotundus, lcsh:Q, Metagenomics, 0301 basic medicine, MESH: Genome, Viral/genetics, Insecta, Range (biology), Physiology, viruses, MESH: Insecta/virology, lcsh:Medicine, Database and Informatics Methods, Medicine and Health Sciences, MESH: Chiroptera/virology, Data Management, Multidisciplinary, Ecology, MESH: Insect Viruses/genetics, Body Fluids, Sympatry, Caves, Viruses, Vertebrates, Anatomy, Pathogens, épidémie, Sequence Analysis, Research Article, Computer and Information Sciences, Herpesviruses, Insect Viruses, Genome, Viral, Biology, Research and Analysis Methods, Ecosystems, néotropique, chauve souris, MESH: Chiroptera/genetics, MESH: French Guiana, Animals, Human virome, population virale, Taxonomy, [SDV.EE.SANT]Life Sciences [q-bio]/Ecology, environment/Health, Evolutionary Biology, Landforms, insectivore, Insectivore, Geomorphology, biology.organism_classification, MESH: Sympatry/physiology, Biological Databases, Amniotes, Desmodus rotundus, Earth Sciences, DNA viruses
Abstract

International audience; Environmental disturbances in the Neotropics (e.g., deforestation, agriculture intensifica-tion, urbanization) contribute to an increasing risk of cross-species transmission of microorganisms and to disease outbreaks due to changing ecosystems of reservoir hosts. Although Amazonia encompasses the greatest diversity of reservoir species, the outsized viral population diversity (virome) has yet to be investigated. Here, through a metagenomic approach, we identified 10,991 viral sequences in the saliva and feces of two bat species, Desmodus rotundus (hematophagous), trapped in two different caves surrounded by primary lowland forest, and Molossus molossus (insectivorous), trapped in forest and urban habitats. These sequences are related to 51 viral families known to infect a wide range of hosts (i.e., bacteria , plants, insects and vertebrates). Most viruses detected reflected the diet of bat species, with a high proportion of plant and insect-related viral families for M. molossus and a high proportion of vertebrate-related viral families for D. rotundus, highlighting its influence in shaping the viral diversity of bats. Lastly, we reconstructed the phylogenetic relationships for five vertebrate-related viral families (Nairoviridae, Circoviridae, Retroviridae, Herpesviri-dae, Papillomaviridae). The results showed highly supported clustering with other viral sequences of the same viral family hosted by other bat species, highlighting the potential association of viral diversity with the host's diet. These findings provide significant insight into viral bat diversity in French Guiana belonging to the Amazonian biome and emphasize that habitats and the host's dietary ecology may drive the viral diversity in the bat communities investigated.

Published
2017

11. Rodent-borne viruses in French Guiana

Author

Lavergne, Anne, Matheus, Séverine, Catzeflis, François, Donato, Damien, Lacoste, Vincent, De Thoisy, Benoit, Laboratoire des Interactions Virus-Hôtes [Cayenne, Guyane Française], Institut Pasteur de la Guyane, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), Centre National de Référence pour les Arbovirus - Laboratoire de Virologie [Cayenne, Guyane française] (CNR - laboratoire associé), Institut des Sciences de l'Evolution de Montpellier (UMR ISEM), École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UR226, and Université de Montpellier (UM)

Subjects
[SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, rongeurs, arenavirus, hantavirus, Guyane, zoonoses
Abstract

International audience; Les rongeurs sont décrits comme des réservoirs privilégiés de nombreuses zoonoses. Du fait de leurs fortes abondances, de leur dynamique et, pour plusieurs espèces, de leur capacité à coexister avec les populations humaines, les rongeurs jouent un rôle clé dans le maintien et la transmission de pathogènes. En Guyane, 36 espèces de rongeurs ont été recensées et sont présentes aussi bien en forêt primaire et secondaire qu’en savane et en zones urbaines. Certaines populations de rongeurs font face, aujourd’hui, à des perturbations de leurs habitats, du fait des pressions anthropiques. Ces perturbations engendrent des changements dans la dynamique des populations et des communautés pouvant avoir un impact sur la circulation et l’émergence des pathogènes. Nous avons récemment identifié des virus appartenant à deux familles virales, Bunyaviridae et Arenaviridae, chez leurs réservoirs potentiels ainsi que chez l’homme dans le cas des hantavirus (Bunyaviridae). De plus, la caractérisation des habitats les plus favorables des espèces réservoirs d’hantavirus a permis de mettre en évidence les zones à plus fort risque d’émergence. Le rôle des communautés de rongeurs doit maintenant être étudié afin de mieux appréhender les mécanismes d’émergence en milieu amazonien.

Published
2017

14. Unraveling the genetic diversity and phylogeny of Leishmania RNA virus 1 strains of infected Leishmania isolates circulating in French Guiana

Author

Tirera, Sourakhata, primary, Ginouves, Marine, additional, Donato, Damien, additional, Caballero, Ignacio S., additional, Bouchier, Christiane, additional, Lavergne, Anne, additional, Bourreau, Eliane, additional, Mosnier, Emilie, additional, Vantilcke, Vincent, additional, Couppié, Pierre, additional, Prevot, Ghislaine, additional, and Lacoste, Vincent, additional

Published
2017
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15. Human Herpesvirus 7 with Roseoloviruses Closely Related to African Great Apes Are Naturally Infected Supplemental material

Author

Lavergne, Anne, Donato, Damien, Gessain, Antoine, Niphuis, Henk, Nerrienet, Eric, Verschoor, Ernst J, Lacoste, Vincent, Laboratoire des Interactions Virus-Hôtes [Cayenne, Guyane Française], Institut Pasteur de la Guyane, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), Epidémiologie et Physiopathologie des Virus Oncogènes (EPVO (UMR_3569 / U-Pasteur_3)), Institut Pasteur [Paris]-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS), Biomedical Primate Research Centre [Rijswijk] (BPRC), Centre Pasteur du Cameroun, Réseau International des Instituts Pasteur (RIIP), This study benefited from European commission grant REGPOT-CT-2011-285837-STRonGer within the FP7 program, European Project: 285837,EC:FP7:REGPOT,FP7-REGPOT-2011-1,STRONGER(2011), Institut Pasteur [Paris] (IP)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS), and Centre National de la Recherche Scientifique (CNRS)-Université Paris Diderot - Paris 7 (UPD7)-Institut Pasteur [Paris]

Subjects
MESH: Sequence Analysis, DNA, MESH: Molecular Sequence Data, viruses, MESH: DNA, Viral/chemistry, MESH: Roseolovirus/isolation & purification, MESH: Polymerase Chain Reaction, MESH: Africa, MESH: Roseolovirus/classification, MESH: Primate Diseases/virology, MESH: Cluster Analysis, MESH: Roseolovirus Infections/virology, MESH: Blood/virology, MESH: Genotype, MESH: Viral Proteins/genetics, MESH: Hominidae, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, MESH: Roseolovirus Infections/veterinary, MESH: DNA, Viral/genetics, MESH: Animals, MESH: Roseolovirus/genetics, MESH: Sequence Homology, MESH: Phylogeny
Abstract

International audience; Primates are naturally infected with herpesviruses. During the last 15 years, the search for homologues of human herpesvirusesin nonhuman primates allowed the identification of numerous viruses belonging to the different herpesvirus subfamilies andgenera. No simian homologue of human herpesvirus 7 (HHV7) has been reported to date. To investigate the putative existence ofHHV7-like viruses in African great apes, we applied the consensus-degenerate hybrid oligonucleotide primers (CODEHOP) program-mediated PCR strategy to blood DNA samples from the four common chimpanzee subspecies (Pan troglodytes verus, P. t.ellioti, P. t. troglodytes, and P. t. schweinfurthii), pygmy chimpanzees (Pan paniscus), as well as lowland gorillas (Gorilla gorillagorilla). This study led to the discovery of a novel roseolovirus close to HHV7 in each of these nonhuman primate species andsubspecies. Generation of the partial glycoprotein B (1,111-bp) and full-length DNA polymerase (3,036/3,042-bp) gene sequencesallowed the deciphering of their evolutionary relationships. Phylogenetic analyses revealed that HHV7 and its Africangreat ape homologues formed well-supported monophyletic lineages whose topological resemblance to the host phylogeny issuggestive of virus-host codivergence. Notably, the evolutionary branching points that separate HHV7 from African great apeherpesvirus 7 are remarkably congruent with the dates of divergence of their hosts. Our study shows that African great apes arehosts of human herpesvirus homologues, including HHV7 homologues, and that the latter, like other DNA viruses that establishpersistent infections, have cospeciated with their hosts.

Published
2014

16. Short Report : Maripa hantavirus in French Guiana : phylogenetic position and predicted spatial distribution of rodent hosts

Author

de Thoisy, Benoît, Matheus, Séverine, Catzeflis, François, Clément, Luc, Barrioz, Sébastien, Guidez, Amandine, Donato, Damien, Cornu, Jean-François, Brunaux, Olivier, Guitet, Stéphane, Lacoste, Vincent, Lavergne, Anne, Laboratoire des Interactions Virus-Hôtes [Cayenne, Guyane Française], Institut Pasteur de la Guyane, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), Centre National de Référence pour les Arbovirus - Laboratoire de Virologie [Cayenne, Guyane française] (CNR - laboratoire associé), Laboratoire de Paléontologie-Paléobiologie-Phylogénie (UMR CNRS 5554), Université Montpellier 2 - Sciences et Techniques (UM2)-Centre National de la Recherche Scientifique (CNRS), Association Kwata - Etude et protection de la nature [Guyane], Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), ONF - Direction régionale de la Guyane [Cayenne], Office national des forêts (ONF), This study was supported by Fonds Européen de Développement Régional (FEDER) and assistance from Région Guyane and Direction Régionale pour la Recherche et la Technologie. This study benefited from European Commission Grant REGPOT-CT-2011-285837-STRonGer in the frame of FP7 and an Investissement d’Avenir Grant managed by Agence Nationale de la Recherche (Centre d’Etude de la Biodiversité Amazonienne [CEBA], ANR-10-LABX-25-01)., This study was conducted within the Virus-Reservoirs-Urbanisation-Surveillance de l#x0027, Emergence en Amérique du Sud (ViRUSES) program. F.C. acknowledges the technical expertise of Michel Gillioz at the Natural History Museum of Geneva, who curated our specimens with care., ANR-10-LABX-0025,CEBA,CEnter of the study of Biodiversity in Amazonia(2010), European Project: 285837,EC:FP7:REGPOT,FP7-REGPOT-2011-1,STRONGER(2011), European Project: ERDF/FEDER,ViRUSES, Université Montpellier 2 - Sciences et Techniques (UM2), and Office National des Forêts (ONF)

Subjects
MESH: Rodent Diseases/epidemiology, MESH: Disease Reservoirs, MESH: Sequence Analysis, DNA, MESH: DNA, Complementary/genetics, MESH: Humans, MESH: Molecular Sequence Data, MESH: French Guiana/epidemiology, MESH: Kidney/virology, MESH: Rodent Diseases/virology, MESH: Rodentia, MESH: animals, MESH: Demography, MESH: Lung/virology, MESH: DNA, Complementary/chemistry, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, MESH: hantavirus, [SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie, MESH: RNA, Viral/genetics, MESH: Phylogeny
Abstract

International audience; A molecular screening of wild-caught rodents was conducted in French Guiana, South America to identify hosts of the hantavirus Maripa described in 2008 in a hantavirus pulmonary syndrome (HPS) case. Over a 9-year period, 418 echimyids and murids were captured. Viral RNA was detected in two sigmodontine rodents, Oligoryzomys fulvescens and Zygodontomys brevicauda, trapped close to the house of a second HPS case that occurred in 2009 and an O. fulvescens close to the fourth HPS case identified in 2013. Sequences from the rodents had 96% and 97% nucleotide identity (fragment of S and M segments, respectively) with the sequence of the first human HPS case. Phylogenetic reconstruc-tions based on the complete sequence of the S segment show that Maripa virus is closely related to Rio Mamore hantavirus. Using environmental descriptors of trapping sites, including vegetation, landscape units, rain, and human disturbance, a maximal entropy-based species distribution model allowed for identification of areas of higher predicted occurrence of the two rodents, where emergence risks of Maripa virus are expected to be higher. Hantaviruses (Bunyaviridae) are distributed worldwide.

Published
2014

17. HIV-1 Pol Gene Polymorphism and Antiretroviral Resistance Mutations in Treatment-Naive Adult Patients in French Guiana Between 2006 and 2012

Author

Darcissac, Edith, primary, Nacher, Mathieu, additional, Adriouch, Leila, additional, Berlioz-Arthaud, Alain, additional, Boukhari, Rachida, additional, Couppié, Pierre, additional, Djossou, Felix, additional, Donato, Damien, additional, El Guedj, Myriam, additional, Lavergne, Anne, additional, Papot, Emmanuelle, additional, Pouliquen, Jean-François, additional, Tanguy, Edouard, additional, Vantilcke, Vincent, additional, and Lacoste, Vincent, additional

Published
2016
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18. Bioecological Drivers of Rabies Virus Circulation in a Neotropical Bat Community

Author

de Thoisy, Benoit, primary, Bourhy, Hervé, additional, Delaval, Marguerite, additional, Pontier, Dominique, additional, Dacheux, Laurent, additional, Darcissac, Edith, additional, Donato, Damien, additional, Guidez, Amandine, additional, Larrous, Florence, additional, Lavenir, Rachel, additional, Salmier, Arielle, additional, Lacoste, Vincent, additional, and Lavergne, Anne, additional

Published
2016
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22. Virus hébergés par les rongeurs en Guyane française.

Author

Lavergne, Anne, Matheus, Séverine, Catzeflis, François, Donato, Damien, Lacoste, Vincent, and de Thoisy, Benoit

Abstract

Copyright of Virologie is the property of John Libbey Eurotext Ltd. and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)

Published
2017
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24. Maripa Hantavirus in French Guiana: Phylogenetic Position and Predicted Spatial Distribution of Rodent Hosts

Author

de Thoisy, Benoît, primary, Matheus, Séverine, additional, Guitet, Stéphane, additional, Donato, Damien, additional, Clément, Luc, additional, Lavergne, Anne, additional, Brunaux, Olivier, additional, Guidez, Amandine, additional, Catzeflis, François, additional, Lacoste, Vincent, additional, Cornu, Jean-François, additional, and Barrioz, Sébastien, additional

Published
2014
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25. High Performance of Histidine-Rich Protein 2 Based Rapid Diagnostic Tests in French Guiana are Explained by the Absence of pfhrp2 Gene Deletion in P. falciparum

Author

Trouvay, Mélanie, primary, Palazon, Georges, additional, Berger, Franck, additional, Volney, Béatrice, additional, Blanchet, Denis, additional, Faway, Emilie, additional, Donato, Damien, additional, Legrand, Eric, additional, Carme, Bernard, additional, and Musset, Lise, additional

Published
2013
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26. High Performance of Histidine-Rich Protein 2 Based Rapid Diagnostic Tests in French Guiana are Explained by the Absence of pfhrp2 Gene Deletion in P. falciparum.

Author

Trouvay, Mélanie, Palazon, Georges, Berger, Franck, Volney, Béatrice, Blanchet, Denis, Faway, Emilie, Donato, Damien, Legrand, Eric, Carme, Bernard, and Musset, Lise

Subjects
HISTIDINE, DELETION mutation, GENE targeting, GENETIC code, SENSITIVITY analysis, PERFORMANCE evaluation
Abstract

Background: Care for malaria patients in endemic areas has been improved through the increasing use of Rapid Diagnostic Tests (RDTs). Most RDTs target the histidine-rich protein-2 antigen (PfHRP2) to detect P. falciparum, as it is abundant and shows great heat stability. However, their use in South America has been widely questioned following a recent publication that pinpoints the high prevalence of Peruvian field isolates lacking the gene encoding this protein. In the remote rural health centers of French Guiana, RDTs are the main diagnosis tools. Therefore, a study of PfHRP2 RDT performances and pfhrp2 genotyping was conducted to determine whether a replacement of the current pLDH-based kit could be considered. Methods: The performance study compared the SD Malaria Ag test P.f/Pan® kit with the current gold standard diagnosis by microscopy. The prevalence of pfhrp2 and pfhrp3 deletions were evaluated from 221 P. falciparum isolates collected between 2009 and 2011 in French Guiana. Results: Between January 2010 and August 2011, 960 suspected cases of malaria were analyzed using microscopy and RDTs. The sensitivity of the SD Malaria Ag test P.f/Pan® for detection of P. falciparum was 96.8% (95% CI: 90.9–99.3), and 86.0% (95% CI: 78.9–91.5) for the detection of P. vivax. No isolates (95% CI: 0–4.5) lacking either exon of the pfhrp2 gene were identified among the 221 P. falciparum isolates analyzed, but 7.4% (95% CI: 2.8–15.4) lacked the exon 2 part of the pfhrp3 gene. Conclusions: Field isolates lacking either exon of the pfhrp2 gene are absent in this western part of South America. Despite its sensibility to detect P. vivax, the SD Malaria Ag test P.f/Pan® kit is a satisfying alternative to microscopy in remote health centers, where it is difficult to provide highly skilled microscopists and to maintain the necessary equipment. [ABSTRACT FROM AUTHOR]

Published
2013
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27. High Performance of Histidine-Rich Protein 2 Based Rapid Diagnostic Tests in French Guiana are Explained by the Absence of pfhrp2 Gene Deletion in P. falciparum.

Author

Trouvay, Mélanie, Palazon, Georges, Berger, Franck, Volney, Béatrice, Blanchet, Denis, Faway, Emilie, Donato, Damien, Legrand, Eric, Carme, Bernard, and Musset, Lise

Subjects
*HISTIDINE, *DELETION mutation, *GENE targeting, *GENETIC code, *SENSITIVITY analysis, *PERFORMANCE evaluation
Abstract

Background: Care for malaria patients in endemic areas has been improved through the increasing use of Rapid Diagnostic Tests (RDTs). Most RDTs target the histidine-rich protein-2 antigen (PfHRP2) to detect P. falciparum, as it is abundant and shows great heat stability. However, their use in South America has been widely questioned following a recent publication that pinpoints the high prevalence of Peruvian field isolates lacking the gene encoding this protein. In the remote rural health centers of French Guiana, RDTs are the main diagnosis tools. Therefore, a study of PfHRP2 RDT performances and pfhrp2 genotyping was conducted to determine whether a replacement of the current pLDH-based kit could be considered. Methods: The performance study compared the SD Malaria Ag test P.f/Pan® kit with the current gold standard diagnosis by microscopy. The prevalence of pfhrp2 and pfhrp3 deletions were evaluated from 221 P. falciparum isolates collected between 2009 and 2011 in French Guiana. Results: Between January 2010 and August 2011, 960 suspected cases of malaria were analyzed using microscopy and RDTs. The sensitivity of the SD Malaria Ag test P.f/Pan® for detection of P. falciparum was 96.8% (95% CI: 90.9–99.3), and 86.0% (95% CI: 78.9–91.5) for the detection of P. vivax. No isolates (95% CI: 0–4.5) lacking either exon of the pfhrp2 gene were identified among the 221 P. falciparum isolates analyzed, but 7.4% (95% CI: 2.8–15.4) lacked the exon 2 part of the pfhrp3 gene. Conclusions: Field isolates lacking either exon of the pfhrp2 gene are absent in this western part of South America. Despite its sensibility to detect P. vivax, the SD Malaria Ag test P.f/Pan® kit is a satisfying alternative to microscopy in remote health centers, where it is difficult to provide highly skilled microscopists and to maintain the necessary equipment. [ABSTRACT FROM AUTHOR]

Published
2013
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28. Rodent-borne viruses in French Guiana.

Author

Lavergne A, Matheus S, Catzeflis F, Donato D, Lacoste V, and de Thoisy B

Abstract

Among mammals, rodents play a key role in the emergence of viral diseases. In French Guiana, with 36 rodent species recorded in various ecosystems (pristine forests, savannas, anthropized environments), some natural habitats today encounter anthropogenic perturbations that induce changes in community structure and population dynamics. These modifications are sometimes associated with the circulation and emergence of viral pathogens. For 10 years, investigations on the circulation of two rodent-borne viruses, Hantavirus and Mammarenavirus, are underway in rodent populations as well as in humans for hantavirus. These investigations identified viruses from both genera in their potential reservoirs and allow describing the most favourable habitats for the reservoirs of hantavirus where the risk of viral emergence may be higher. We suggest to investigate how anthropic perturbations in rodent communities can drive the emergence of viruses that are currently confined to a small scale and search for evidence of infection in the human population.

Published
2017
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