Genetic Diversity and Connectivity of the Ostreid Herpesvirus 1 Populations in France: A First Attempt to Phylogeographic Inference for a Marine Mollusc Disease
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 on...
Published in: | Virus Evolution |
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Language: | English |
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Oxford University Press (OUP)
2022
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Online Access: | https://archimer.ifremer.fr/doc/00766/87834/93399.pdf https://archimer.ifremer.fr/doc/00766/87834/93400.zip https://doi.org/10.1093/ve/veac039 https://archimer.ifremer.fr/doc/00766/87834/ |
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ftarchimer:oai:archimer.ifremer.fr:87834 2023-05-15T17:54:17+02:00 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, Caroline Escoubas, Jean Michel 2022-05 application/pdf https://archimer.ifremer.fr/doc/00766/87834/93399.pdf https://archimer.ifremer.fr/doc/00766/87834/93400.zip https://doi.org/10.1093/ve/veac039 https://archimer.ifremer.fr/doc/00766/87834/ eng eng Oxford University Press (OUP) info:eu-repo/grantAgreement/EC/FP7/678589/EU//VIVALDI https://archimer.ifremer.fr/doc/00766/87834/93399.pdf https://archimer.ifremer.fr/doc/00766/87834/93400.zip doi:10.1093/ve/veac039 https://archimer.ifremer.fr/doc/00766/87834/ info:eu-repo/semantics/openAccess restricted use Virus Evolution (2057-1577) (Oxford University Press (OUP)), 2022-05 , Vol. 8 , N. 1 , P. veac039 (14p.) herpesvirus OsHV-1 Pacific oyster phylogeography non-redundant genomes genetic diversity viral spread minor variations text Publication info:eu-repo/semantics/article 2022 ftarchimer https://doi.org/10.1093/ve/veac039 2022-06-14T22:50:14Z 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 Archimer (Archive Institutionnelle de l'Ifremer - Institut français de recherche pour l'exploitation de la mer) Pacific Virus Evolution |
institution |
Open Polar |
collection |
Archimer (Archive Institutionnelle de l'Ifremer - Institut français de recherche pour l'exploitation de la mer) |
op_collection_id |
ftarchimer |
language |
English |
topic |
herpesvirus OsHV-1 Pacific oyster phylogeography non-redundant genomes genetic diversity viral spread minor variations |
spellingShingle |
herpesvirus OsHV-1 Pacific oyster phylogeography non-redundant genomes genetic diversity viral spread minor variations Delmotte, Jean Pelletier, Camille Morga, Benjamin Galinier, Richard Petton, Bruno Lamy, Jean-baptiste Kaltz, Oliver Avarre, Jean-christophe Jacquot, Maude Montagnani, Caroline 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 |
herpesvirus OsHV-1 Pacific oyster phylogeography non-redundant genomes genetic diversity viral spread minor variations |
description |
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. |
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, Caroline 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, Caroline 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 |
Oxford University Press (OUP) |
publishDate |
2022 |
url |
https://archimer.ifremer.fr/doc/00766/87834/93399.pdf https://archimer.ifremer.fr/doc/00766/87834/93400.zip https://doi.org/10.1093/ve/veac039 https://archimer.ifremer.fr/doc/00766/87834/ |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Pacific oyster |
genre_facet |
Pacific oyster |
op_source |
Virus Evolution (2057-1577) (Oxford University Press (OUP)), 2022-05 , Vol. 8 , N. 1 , P. veac039 (14p.) |
op_relation |
info:eu-repo/grantAgreement/EC/FP7/678589/EU//VIVALDI https://archimer.ifremer.fr/doc/00766/87834/93399.pdf https://archimer.ifremer.fr/doc/00766/87834/93400.zip doi:10.1093/ve/veac039 https://archimer.ifremer.fr/doc/00766/87834/ |
op_rights |
info:eu-repo/semantics/openAccess restricted use |
op_doi |
https://doi.org/10.1093/ve/veac039 |
container_title |
Virus Evolution |
_version_ |
1766162033303093248 |