Genetic Diversity and Connectivity of the Ostreid Herpesvirus 1 Populations in France: A First Attempt to Phylogeographic Inference for a Marine Mollusc Disease
International audience The genetic diversity of viral populations is a key driver of the spatial and temporal diffusion of viruses; yet, studying the diversity of whole genomes from natural populations still remains a challenge. Phylodynamic approaches are commonly used for RNA viruses harboring sma...
Published in: | Virus Evolution |
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Main Authors: | , , , , , , , , , , |
Other Authors: | , , , , , , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
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HAL CCSD
2022
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Subjects: | |
Online Access: | https://hal.science/hal-03652456 https://hal.science/hal-03652456/document https://hal.science/hal-03652456/file/Delmotte-2022-VirusEvol-Genetic-ACCEPTED-MANUSCRIT.pdf https://doi.org/10.1093/ve/veac039 |
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ftunimontpellier:oai:HAL:hal-03652456v1 |
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openpolar |
institution |
Open Polar |
collection |
Université de Montpellier: HAL |
op_collection_id |
ftunimontpellier |
language |
English |
topic |
Herpes virus OsHV-1 phylogeography non-redundant genomes genetic diversity viral spread minor variations [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology [SDV.BID]Life Sciences [q-bio]/Biodiversity |
spellingShingle |
Herpes virus OsHV-1 phylogeography non-redundant genomes genetic diversity viral spread minor variations [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology [SDV.BID]Life Sciences [q-bio]/Biodiversity Delmotte, Jean Pelletier, Camille Morga, Benjamin Galinier, Richard Petton, Bruno Lamy, Jean-Baptiste Kaltz, Oliver Avarre, Jean-Christophe Jacquot, Maude Montagnani, C. Escoubas, Jean-Michel Genetic Diversity and Connectivity of the Ostreid Herpesvirus 1 Populations in France: A First Attempt to Phylogeographic Inference for a Marine Mollusc Disease |
topic_facet |
Herpes virus OsHV-1 phylogeography non-redundant genomes genetic diversity viral spread minor variations [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology [SDV.BID]Life Sciences [q-bio]/Biodiversity |
description |
International audience The genetic diversity of viral populations is a key driver of the spatial and temporal diffusion of viruses; yet, studying the diversity of whole genomes from natural populations still remains a challenge. Phylodynamic approaches are commonly used for RNA viruses harboring small genomes, but have only rarely been applied to DNA viruses with larger genomes. Here, we used the Pacific Oyster Mortality Syndrome (POMS, a disease that affects oyster farms around the world) as a model to study the genetic diversity of its causative agent, the Ostreid herpesvirus 1 (OsHV-1) in the three main French oyster-farming areas. Using ultra-deep sequencing on individual moribund oysters and an innovative combination of bioinformatics tools, we de novo assembled 21 OsHV-1 new genomes. Combining quantification of major and minor genetic variations, phylogenetic analysis and ancestral state reconstruction of discrete traits approaches; we assessed the connectivity of OsHV-1 viral populations between the three oyster-farming areas. Our results suggest that the Marennes-Oléron Bay represents the main source of OsHV-1 diversity, from where the virus has dispersed to other farming areas, a scenario consistent with current practices of oyster transfers in France. We demonstrate that phylodynamic approaches can be applied to aquatic DNA viruses to determine how epidemiological, immunological, and evolutionary processes act and potentially interact to shape their diversity patterns. |
author2 |
Interactions Hôtes-Pathogènes-Environnements (IHPE) Université de Perpignan Via Domitia (UPVD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM) Unité Adaptation et Santé des Invertébrés Marins (ASIM) Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER) Laboratoire des Sciences de l'Environnement Marin (LEMAR) (LEMAR) Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Institut Universitaire Européen de la Mer (IUEM) Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS) Institut des Sciences de l'Evolution de Montpellier (UMR ISEM) Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École Pratique des Hautes Études (EPHE) Université Paris Sciences et Lettres (PSL)-Université Paris Sciences et Lettres (PSL)-Institut de recherche pour le développement IRD : UR226-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM) European Project: 678589,H2020,H2020-SFS-2015-2,VIVALDI(2016) |
format |
Article in Journal/Newspaper |
author |
Delmotte, Jean Pelletier, Camille Morga, Benjamin Galinier, Richard Petton, Bruno Lamy, Jean-Baptiste Kaltz, Oliver Avarre, Jean-Christophe Jacquot, Maude Montagnani, C. Escoubas, Jean-Michel |
author_facet |
Delmotte, Jean Pelletier, Camille Morga, Benjamin Galinier, Richard Petton, Bruno Lamy, Jean-Baptiste Kaltz, Oliver Avarre, Jean-Christophe Jacquot, Maude Montagnani, C. Escoubas, Jean-Michel |
author_sort |
Delmotte, Jean |
title |
Genetic Diversity and Connectivity of the Ostreid Herpesvirus 1 Populations in France: A First Attempt to Phylogeographic Inference for a Marine Mollusc Disease |
title_short |
Genetic Diversity and Connectivity of the Ostreid Herpesvirus 1 Populations in France: A First Attempt to Phylogeographic Inference for a Marine Mollusc Disease |
title_full |
Genetic Diversity and Connectivity of the Ostreid Herpesvirus 1 Populations in France: A First Attempt to Phylogeographic Inference for a Marine Mollusc Disease |
title_fullStr |
Genetic Diversity and Connectivity of the Ostreid Herpesvirus 1 Populations in France: A First Attempt to Phylogeographic Inference for a Marine Mollusc Disease |
title_full_unstemmed |
Genetic Diversity and Connectivity of the Ostreid Herpesvirus 1 Populations in France: A First Attempt to Phylogeographic Inference for a Marine Mollusc Disease |
title_sort |
genetic diversity and connectivity of the ostreid herpesvirus 1 populations in france: a first attempt to phylogeographic inference for a marine mollusc disease |
publisher |
HAL CCSD |
publishDate |
2022 |
url |
https://hal.science/hal-03652456 https://hal.science/hal-03652456/document https://hal.science/hal-03652456/file/Delmotte-2022-VirusEvol-Genetic-ACCEPTED-MANUSCRIT.pdf https://doi.org/10.1093/ve/veac039 |
genre |
Pacific oyster |
genre_facet |
Pacific oyster |
op_source |
EISSN: 2057-1577 Virus Evolution https://hal.science/hal-03652456 Virus Evolution, 2022, 8 (1), pp.veac039. ⟨10.1093/ve/veac039⟩ https://academic.oup.com/ve/advance-article/doi/10.1093/ve/veac039/6572772 |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.1093/ve/veac039 info:eu-repo/grantAgreement//678589/EU/Preventing and mitigating farmed bivalve diseases/VIVALDI hal-03652456 https://hal.science/hal-03652456 https://hal.science/hal-03652456/document https://hal.science/hal-03652456/file/Delmotte-2022-VirusEvol-Genetic-ACCEPTED-MANUSCRIT.pdf doi:10.1093/ve/veac039 |
op_rights |
info:eu-repo/semantics/OpenAccess |
op_doi |
https://doi.org/10.1093/ve/veac03910.1093/ve/veac039/6572772 |
container_title |
Virus Evolution |
container_volume |
8 |
container_issue |
1 |
_version_ |
1799487104298778624 |
spelling |
ftunimontpellier:oai:HAL:hal-03652456v1 2024-05-19T07:46:51+00:00 Genetic Diversity and Connectivity of the Ostreid Herpesvirus 1 Populations in France: A First Attempt to Phylogeographic Inference for a Marine Mollusc Disease Delmotte, Jean Pelletier, Camille Morga, Benjamin Galinier, Richard Petton, Bruno Lamy, Jean-Baptiste Kaltz, Oliver Avarre, Jean-Christophe Jacquot, Maude Montagnani, C. Escoubas, Jean-Michel Interactions Hôtes-Pathogènes-Environnements (IHPE) Université de Perpignan Via Domitia (UPVD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM) Unité Adaptation et Santé des Invertébrés Marins (ASIM) Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER) Laboratoire des Sciences de l'Environnement Marin (LEMAR) (LEMAR) Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Institut Universitaire Européen de la Mer (IUEM) Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS) Institut des Sciences de l'Evolution de Montpellier (UMR ISEM) Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École Pratique des Hautes Études (EPHE) Université Paris Sciences et Lettres (PSL)-Université Paris Sciences et Lettres (PSL)-Institut de recherche pour le développement IRD : UR226-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM) European Project: 678589,H2020,H2020-SFS-2015-2,VIVALDI(2016) 2022 https://hal.science/hal-03652456 https://hal.science/hal-03652456/document https://hal.science/hal-03652456/file/Delmotte-2022-VirusEvol-Genetic-ACCEPTED-MANUSCRIT.pdf https://doi.org/10.1093/ve/veac039 en eng HAL CCSD Oxford University Press info:eu-repo/semantics/altIdentifier/doi/10.1093/ve/veac039 info:eu-repo/grantAgreement//678589/EU/Preventing and mitigating farmed bivalve diseases/VIVALDI hal-03652456 https://hal.science/hal-03652456 https://hal.science/hal-03652456/document https://hal.science/hal-03652456/file/Delmotte-2022-VirusEvol-Genetic-ACCEPTED-MANUSCRIT.pdf doi:10.1093/ve/veac039 info:eu-repo/semantics/OpenAccess EISSN: 2057-1577 Virus Evolution https://hal.science/hal-03652456 Virus Evolution, 2022, 8 (1), pp.veac039. ⟨10.1093/ve/veac039⟩ https://academic.oup.com/ve/advance-article/doi/10.1093/ve/veac039/6572772 Herpes virus OsHV-1 phylogeography non-redundant genomes genetic diversity viral spread minor variations [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology [SDV.BID]Life Sciences [q-bio]/Biodiversity info:eu-repo/semantics/article Journal articles 2022 ftunimontpellier https://doi.org/10.1093/ve/veac03910.1093/ve/veac039/6572772 2024-04-24T01:00:06Z International audience The genetic diversity of viral populations is a key driver of the spatial and temporal diffusion of viruses; yet, studying the diversity of whole genomes from natural populations still remains a challenge. Phylodynamic approaches are commonly used for RNA viruses harboring small genomes, but have only rarely been applied to DNA viruses with larger genomes. Here, we used the Pacific Oyster Mortality Syndrome (POMS, a disease that affects oyster farms around the world) as a model to study the genetic diversity of its causative agent, the Ostreid herpesvirus 1 (OsHV-1) in the three main French oyster-farming areas. Using ultra-deep sequencing on individual moribund oysters and an innovative combination of bioinformatics tools, we de novo assembled 21 OsHV-1 new genomes. Combining quantification of major and minor genetic variations, phylogenetic analysis and ancestral state reconstruction of discrete traits approaches; we assessed the connectivity of OsHV-1 viral populations between the three oyster-farming areas. Our results suggest that the Marennes-Oléron Bay represents the main source of OsHV-1 diversity, from where the virus has dispersed to other farming areas, a scenario consistent with current practices of oyster transfers in France. We demonstrate that phylodynamic approaches can be applied to aquatic DNA viruses to determine how epidemiological, immunological, and evolutionary processes act and potentially interact to shape their diversity patterns. Article in Journal/Newspaper Pacific oyster Université de Montpellier: HAL Virus Evolution 8 1 |