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1. Copy number variation and differential expression of a protective endogenous retrovirus in sheep.

Author

Barbara Viginier, Christine Dolmazon, Isabelle Lantier, Frédéric Lantier, Fabienne Archer, Caroline Leroux, and Christophe Terzian

Subjects
Medicine, Science
Abstract

The Jaagsiekte sheep retrovirus exJSRV and its endogenous counterpart enJSRV co-exist in sheep. exJSRV, a betaretrovirus, is the etiological agent of ovine pulmonary adenocarcinoma, and it has been demonstrated in vitro that an enJSRV Gag variant bearing the R-to-W amino acid change at position 21 was able to block exJSRV budding from the cells, providing a potential protective role for the host. In this work, we developed a fast mutation detection assay based on the oligo ligation assay (OLA) that permits the quantification of the relative proportions of the R21 and W21 Gag variants present in individual genomes and in cDNA obtained from normal and exJSRV-induced lung tumors. We have shown that the W21/R21 ratio is variable within and between breeds. We also describe for the first time that putative protecting enJSRV variants were expressed in alveolar type II cells (AECII), the major target of exJSRV.

Published
2012
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2. Statistical modeling of chikungunya virus intra-vector infection dynamics in a FrenchAedes albopictuspopulation reveals an explosive epidemic potential

Author

Barbara Viginier, Céline Garnier, Lucie Cappuccio, Edwige Martin, Claire Valiente Moro, Albin Fontaine, Sébastian Lequime, Frédérick Arnaud, Maxime Ratinier, Vincent Raquin, Infections Virales et Pathologie Comparée - UMR 754 (IVPC), École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Laboratoire d'Ecologie Microbienne - UMR 5557 (LEM), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Ecole Nationale Vétérinaire de Lyon (ENVL)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Unité de Parasitologie et d’Entomologie, Département des Maladies Infectieuses-Institut de Recherche Biomédicale des Armées [Brétigny-sur-Orge] (IRBA), Vecteurs - Infections tropicales et méditerranéennes (VITROME), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Institut de Recherche Biomédicale des Armées [Brétigny-sur-Orge] (IRBA), Institut Hospitalier Universitaire Méditerranée Infection (IHU Marseille), Groningen Institute for Evolutionary Life Sciences [Groningen] (GELIFES), and University of Groningen [Groningen]

Subjects
[SDV]Life Sciences [q-bio], [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology
Abstract

Arbovirus emergence and epidemic potential, as approximated by the vectorial capacity formula, depends on several host and vector parameters including vector intrinsic ability to transmit the pathogen. Such ability, called vector competence is influenced by biotic (e.g. virus and vector genotype) and abiotic (e.g. temperature). Vector competence is often evaluated as a qualitative phenotype although it is a multistep, time-dependent, quantitative phenotype. Combination of experimental and modelling approaches can i) capture intra-vector dynamics of arboviral infection and ii) use data to estimate arbovirus epidemic potential. Here, we measured individualAedes albopictus(Lyon, France) mosquitoes infection, dissemination, and transmission rate upon oral exposure to chikungunya virus (CHIKV, La Reunion Island isolate) at eleven time-points from day 2 to day 20 post-exposure (dpe) for a range of CHIKV infectious doses spanning human viremia. Statistical modelisation indicates an explosive CHIKV intra-vector dynamics mainly due to an absence of dissemination barrier with 100% of the infected mosquitoes ultimately exhibiting a disseminated infection regardless of the viral dose. Transmission rate data revealed a time and dose-dependent but overall weak transmission barrier with individuals transmitting as soon as 2 dpe and >50% infectious mosquitoes at 6 dpe for the highest dose. Epidemiological simulations conducted with an Agent-Based Model based on experimental intra-vector dynamics data showed that even at low mosquito biting rates, CHIKV triggers explosive outbreaks. Together, this reveals the high epidemic potential of this CHIKV isolate with this French metropolitan population ofAedes albopictus.

Published
2022
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3. LA DYNAMIQUE D'INFECTION VIRALE INTRA-VECTEUR QUESTIONNE UNE HYPOTHÈSE COURANTE EN MODÉLISATION DES MALADIES À TRANSMISSION VECTORIELLE.

Author

Léa, Loisel, Barbara, Viginier, Vincent, Raquin, Maxime, Ratinier, Pauline, Ezanno, and Gaël, Beaunée

Subjects
ARBOVIRUS diseases, POPULATION, MODELING (Sculpture), DISEASE vectors, FORECASTING
Abstract

Copyright of Épidémiologie et Santé Animale is the property of Association pour l'Etude de l'Epidemiologie des Maladies Animales (AEEMA) 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
2023

4. Viral infection impacts transposable element transcript amounts in Drosophila

Author

Maxime Ratinier, Marlène Roy, Barbara Viginier, Édouard Saint-Michel, Marie Fablet, Frederick Arnaud, Infections Virales et Pathologie Comparée - UMR 754 (IVPC), École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Physiologie cellulaire de la synapse (PCS), Université Bordeaux Segalen - Bordeaux 2-Institut François Magendie-Centre National de la Recherche Scientifique (CNRS), Institut de biologie et chimie des protéines [Lyon] (IBCP), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS), Eléments transposables, évolution, populations, Département génétique, interactions et évolution des génomes [LBBE] (GINSENG), Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), and École pratique des hautes études (EPHE)

Subjects
Transposable element, Small interfering RNA, Sindbis virus, transposon, Somatic cell, [SDV]Life Sciences [q-bio], Piwi-interacting RNA, piRNA, Biology, Genome, Virus, Evolution, Molecular, 03 medical and health sciences, 0302 clinical medicine, Genetics, Animals, Drosophila Proteins, RNA, Small Interfering, 030304 developmental biology, SINV, 0303 health sciences, Multidisciplinary, Effector, Alphavirus Infections, Biological Sciences, biology.organism_classification, Drosophila melanogaster, siRNA, DNA Transposable Elements, Female, insect, Sindbis Virus, 030217 neurology & neurosurgery
Abstract

Significance Transposable elements (TEs) are genomic parasites that are found in all genomes. Here, we show that viral infections impact TE transcript amounts in Drosophila somatic tissues. This is of major importance in the understanding of the tempo and mode of genetic diversification, suggesting that viral infections act as a significant factor determining TE activity. In addition, our results also suggest that the amounts of the maternally transmitted small RNAs that control TEs in the progeny may also be altered, which could have long-term, evolutionary impacts., Transposable elements (TEs) are genomic parasites that are found in all genomes, some of which display sequence similarity to certain viruses. In insects, TEs are controlled by the Piwi-interacting small interfering RNA (piRNA) pathway in gonads, while the small interfering RNA (siRNA) pathway is dedicated to TE somatic control and defense against viruses. So far, these two small interfering RNA pathways are considered to involve distinct molecular effectors and are described as independent. Using Sindbis virus (SINV) in Drosophila, here we show that viral infections affect TE transcript amounts via modulations of the piRNA and siRNA repertoires, with the clearest effects in somatic tissues. These results suggest that viral acute or chronic infections may impact TE activity and, thus, the tempo of genetic diversification. In addition, these results deserve further evolutionary considerations regarding potential benefits to the host, the virus, or the TEs.

Published
2020
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5. Evaluation of polylactic acid nanoparticles safety using Drosophila model

Author

Bernard Verrier, Sophie Legaz, Christophe Terzian, Claire Lethias, Jean-Yves Exposito, Barbara Viginier, Infections Virales et Pathologie Comparée - UMR 754 (IVPC), Institut National de la Recherche Agronomique (INRA)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon, European Commission FP7 ADITEC program [HEALTH-F4-2011-280873], FP7 CutHIVac [HEALTH-241904], Fondation Pierre Berge-Yves Saint-Laurent, ANR (grant ANR PECSDDeli and Euronanomed iNanoDCs), and Institut National de la Recherche Agronomique (INRA)-École pratique des hautes études (EPHE)-Université Claude Bernard Lyon 1 (UCBL)

Subjects
0301 basic medicine, [SDV]Life Sciences [q-bio], Nanoparticle, Biocompatible Materials, Toxicology, chemistry.chemical_compound, Polylactic acid, Cytotoxicity, Drug Carriers, Drug Carriers/chemistry/*toxicity, Cell Cycle, Nanoparticles/chemistry/*toxicity, Flow Cytometry, Drosophila melanogaster, Larva, Drug delivery, Drug, Drug carrier, Cell Survival/drug effects, sub-lethal concentration, Materials science, oral delivery, Cell Survival, Surface Properties, Polyesters, Biomedical Engineering, Nanotechnology, Real-Time Polymerase Chain Reaction, Cell Line, Dose-Response Relationship, 03 medical and health sciences, Reactive Oxygen Species/metabolism, Toxicity Tests, Animals, Particle Size, Cell Proliferation, Drosophila, Dose-Response Relationship, Drug, Cell growth, Polyesters/chemistry/*toxicity, Cell Cycle/*drug effects, Biocompatible Materials/chemistry/*toxicity, High-Throughput Screening Assays, 030104 developmental biology, chemistry, Cell culture, Cell Proliferation/*drug effects, Biophysics, Nanoparticles, Nanocarriers, Reactive Oxygen Species, PLA nanoparticle
Abstract

Cytotoxicity of nanoparticles and their sub-lethal effect on cell behavior and cell fate are a high topic of studies in the nanomaterial field. With an explosion of nanoparticle types (size, shape, polarity, stiffness, composition, etc.), Drosophila has become an attractive animal model for high throughput analysis of these nanocarriers in the drug delivery field with applications in cancer therapy, or simply to generate a fast and complete cytotoxic study of a peculiar nanoparticle. In respect to that, we have conducted an in cellulo study of poly(lactic acid) (PLA) nanoparticle cytotoxicity, and determined that near lethal nanoparticle doses, oxidative stress as well as P53 and ATP pathways may lead to cell cycle arrest at G1, and ultimately to cell death. Neither viability nor the development of Drosophila larvae are affected by the ingestion of PLA nanoparticles at sub-lethal concentrations. Drosophila will be a useful model to study PLA and PLA-modified nanoparticle toxicity, and nanoparticle fate after ingestion.

Published
2016
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6. Non-African Populations of Drosophila melanogaster Have a Unique Origin

Author

Emmanuelle Baudry, Michel Veuille, and Barbara Viginier

Subjects
X Chromosome, Molecular Sequence Data, Population, Genes, Insect, Balancing selection, Evolution, Molecular, Phylogenetics, Genetics, Melanogaster, Animals, education, Molecular Biology, Phylogeny, Ecology, Evolution, Behavior and Systematics, Selection (genetic algorithm), education.field_of_study, Polymorphism, Genetic, Base Sequence, biology, Haplotype, biology.organism_classification, Sexual dimorphism, Drosophila melanogaster, Haplotypes, Evolutionary biology, Africa
Abstract

Drosophila melanogaster is widely used as a model in DNA variation studies. Patterns of polymorphism have, however, been affected by the history of this species, which is thought to have recently spread out of Africa to the rest of the world. We analyzed DNA sequence variation in 11 populations, including four continental African and seven non-African samples (including Madagascar), at four independent X-linked loci. Variation patterns at all four loci followed neutral expectations in all African populations, but departed from it in all non-African ones due to a marked haplotype dimorphism at three out of four loci. We also found that all non-African populations show the same major haplotypes, though in various frequencies. A parsimonious explanation for these observations is that all non-African populations are derived from a single ancestral population having undergone a substantial reduction of polymorphism, probably through a bottleneck. Less likely alternatives involve either selection at all four loci simultaneously (including balancing selection at three of them), or admixture between two divergent populations. Small but significant structure was observed among African populations, and there were indications of differentiation across Eurasia for non-African ones. Since population history may result in non-equilibrium variation patterns, our study confirms that the search for footprints of selection in the D. melanogaster genome must include a sufficient understanding of its history.

Published
2004
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7. tirant, a newly discovered active endogenous retrovirus in Drosophila simulans

Author

Cristina Vieira, Rita Rebollo, Marie Fablet, Christophe Terzian, Caroline Esnault, Barbara Viginier, Nelly Burlet, Abdou Akkouche, Sonia Martinez, Eléments transposables, évolution, populations, Département génétique, interactions et évolution des génomes [LBBE] (GINSENG), Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), Fonctionnement et évolution des systèmes écologiques (FESE), École normale supérieure - Paris (ENS-PSL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS), Rétrovirus et Pathologie Comparée (RPC), Institut National de la Recherche Agronomique (INRA)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Ecole Nationale Vétérinaire de Lyon (ENVL), Institut de génétique humaine (IGH), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS), An algorithmic view on genomes, cells, and environments (BAMBOO), Inria Grenoble - Rhône-Alpes, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université de Lyon-Université de Lyon-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), ANR [GENEMOBILE] from the CNRS, FINOVI, IUF, Région Rhone Alpes [CIBLE 2008], École normale supérieure - Paris (ENS Paris)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS), Infections Virales et Pathologie Comparée - UMR 754 (IVPC), Institut National de la Recherche Agronomique (INRA)-École pratique des hautes études (EPHE)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon, École normale supérieure - Paris (ENS Paris), and Institut National de la Recherche Agronomique (INRA)-École pratique des hautes études (EPHE)

Subjects
0106 biological sciences, Immunology, Population, Endogenous retrovirus, Retrotransposon, Endogeny, Biology, phylogeny, 010603 evolutionary biology, 01 natural sciences, Microbiology, Genome, 03 medical and health sciences, Transcription (biology), Phylogenetics, Virology, Animals, endogenous Retroviruses, education, 030304 developmental biology, Genetics, 0303 health sciences, education.field_of_study, [SDV.GEN]Life Sciences [q-bio]/Genetics, 3. Good health, Retroviridae, Genetic Diversity and Evolution, Insect Science, Drosophila, molecular sequence Data, Paleovirology
Abstract

Endogenous retroviruses have the ability to become permanently integrated into the genomes of their host, and they are generally transmitted vertically from parent to progeny. With the exception of gypsy , few endogenous retroviruses have been identified in insects. In this study, we describe the tirant endogenous retrovirus in a subset of Drosophila simulans natural populations. By focusing on the envelope gene, we show that the entire retroviral cycle (transcription, translation, and retrotransposition) can be completed for tirant within one population of this species.

Published
2012
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8. Copy number variation and differential expression of a protective endogenous retrovirus in sheep

Author

Christine Dolmazon, Christophe Terzian, Frédéric Lantier, Caroline Leroux, Barbara Viginier, Fabienne Archer, Isabelle Lantier, Terzian, Christophe, Rétrovirus et Pathologie Comparée, Institut National de la Recherche Agronomique (INRA)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Ecole Nationale Vétérinaire de Lyon (ENVL)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS), École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL), Infectiologie et Santé Publique (UMR ISP), Institut National de la Recherche Agronomique (INRA)-Université de Tours (UT), and Institut National de la Recherche Agronomique (INRA)-Université de Tours

Subjects
Virologie, lcsh:Medicine, Endogenous retrovirus, medicine.disease_cause, Lung and Intrathoracic Tumors, Proviruses, Molecular Cell Biology, Inbreeding, RNA, Neoplasm, Copy-number variation, lcsh:Science, Lung, Genome Evolution, 0303 health sciences, Mutation, Genome, Multidisciplinary, Adenocarcinoma of the Lung, DNA, Neoplasm, Genomics, Jaagsiekte sheep retrovirus, Host-Pathogen Interaction, Retrotransposons, Oncology, rétrovirus endogène, Pulmonary Adenomatosis, Ovine, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, Medicine, RNA extraction, Transposons, Research Article, Gene Expression Regulation, Viral, DNA Copy Number Variations, mouton, Mechanisms of Resistance and Susceptibility, Molecular Sequence Data, Gene Products, gag, Biology, analyse phylogénétique, Microbiology, 03 medical and health sciences, Genome Analysis Tools, Complementary DNA, Virology, medicine, Animals, 030304 developmental biology, Evolutionary Biology, Sheep, Base Sequence, 030306 microbiology, génome, lcsh:R, Endogenous Retroviruses, Reproducibility of Results, Cancers and Neoplasms, biology.organism_classification, Molecular biology, In vitro, Viruses and Cancer, lcsh:Q, Mutant Proteins, Betaretrovirus
Abstract

International audience; The Jaagsiekte sheep retrovirus exJSRV and its endogenous counterpart enJSRV co-exist in sheep. exJSRV, a betaretrovirus, is the etiological agent of ovine pulmonary adenocarcinoma, and it has been demonstrated in vitro that an enJSRV Gag variant bearing the R-to-W amino acid change at position 21 was able to block exJSRV budding from the cells, providing a potential protective role for the host. In this work, we developed a fast mutation detection assay based on the oligo ligation assay (OLA) that permits the quantification of the relative proportions of the R21 and W21 Gag variants present in individual genomes and in cDNA obtained from normal and exJSRV-induced lung tumors. We have shown that the W21/R21 ratio is variable within and between breeds. We also describe for the first time that putative protecting enJSRV variants were expressed in alveolar type II cells (AECII), the major target of exJSRV.

Published
2012
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