Full genomic analysis of new variant rabbit hemorrhagic disease virus revealed multiple recombination events.
Identifieur interne : 002D78 ( Main/Exploration ); précédent : 002D77; suivant : 002D79Full genomic analysis of new variant rabbit hemorrhagic disease virus revealed multiple recombination events.
Auteurs : Ana M. Lopes [France] ; Kevin P. Dalton [Espagne] ; Maria J. Magalhães [Portugal] ; Francisco Parra [Espagne] ; Pedro J. Esteves [Portugal] ; Edward C. Holmes [Australie] ; Joana Abrantes [Portugal]Source :
- The Journal of general virology [ 1465-2099 ] ; 2015.
Descripteurs français
- KwdFr :
- ARN viral (génétique), Analyse de regroupements, Analyse de séquence d'ADN, Animaux, Chine, Données de séquences moléculaires, Génome viral, Lapins, Phylogénie, Recombinaison génétique, Similitude de séquences, Virus de la maladie hémorragique du lapin (génétique), Virus de la maladie hémorragique du lapin (isolement et purification), Évolution moléculaire.
- MESH :
- génétique : ARN viral, Virus de la maladie hémorragique du lapin.
- isolement et purification : Virus de la maladie hémorragique du lapin.
- Analyse de regroupements, Analyse de séquence d'ADN, Animaux, Chine, Données de séquences moléculaires, Génome viral, Lapins, Phylogénie, Recombinaison génétique, Similitude de séquences, Évolution moléculaire.
- Wicri :
- geographic : République populaire de Chine.
English descriptors
- KwdEn :
- Animals, China, Cluster Analysis, Evolution, Molecular, Genome, Viral, Hemorrhagic Disease Virus, Rabbit (genetics), Hemorrhagic Disease Virus, Rabbit (isolation & purification), Molecular Sequence Data, Phylogeny, RNA, Viral (genetics), Rabbits, Recombination, Genetic, Sequence Analysis, DNA, Sequence Homology.
- MESH :
- chemical , genetics : RNA, Viral.
- geographic : China.
- genetics : Hemorrhagic Disease Virus, Rabbit.
- isolation & purification : Hemorrhagic Disease Virus, Rabbit.
- Animals, Cluster Analysis, Evolution, Molecular, Genome, Viral, Molecular Sequence Data, Phylogeny, Rabbits, Recombination, Genetic, Sequence Analysis, DNA, Sequence Homology.
Abstract
Rabbit hemorrhagic disease virus (RHDV), a Lagovirus of the family Caliciviridae, causes rabbit hemorrhagic disease (RHD) in the European rabbit (Oryctolagus cuniculus). The disease was first documented in 1984 in China and rapidly spread worldwide. In 2010, a new RHDV variant emerged, tentatively classified as 'RHDVb'. RHDVb is characterized by affecting vaccinated rabbits and those <2 months old, and is genetically distinct (~20 %) from older strains. To determine the evolution of RHDV, including the new variant, we generated 28 full-genome sequences from samples collected between 1994 and 2014. Phylogenetic analysis of the gene encoding the major capsid protein, VP60, indicated that all viruses sampled from 2012 to 2014 were RHDVb. Multiple recombination events were detected in the more recent RHDVb genomes, with a single major breakpoint located in the 5' region of VP60. This breakpoint divides the genome into two regions: one that encodes the non-structural proteins and another that encodes the major and minor structural proteins, VP60 and VP10, respectively. Additional phylogenetic analysis of each region revealed two types of recombinants with distinct genomic backgrounds. Recombinants always include the structural proteins of RHDVb, with non-structural proteins from non-pathogenic lagoviruses or from pathogenic genogroup 1 strains. Our results show that in contrast to the evolutionary history of older RHDV strains, recombination plays an important role in generating diversity in the newly emerged RHDVb.
DOI: 10.1099/vir.0.000070
PubMed: 25626685
Affiliations:
- Australie, Espagne, France, Portugal
- Nouvelle-Galles du Sud, Pays de la Loire
- Nantes, Sydney
- Université de Sydney
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Le document en format XML
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Holmes</name><affiliation wicri:level="4"><nlm:affiliation>Marie Bashir Institute for Infectious Diseases and Biosecurity, Charles Perkins Centre, School of Biological Sciences and Sydney Medical School, The University of Sydney, Sydney, NSW, Australia.</nlm:affiliation><country xml:lang="fr">Australie</country><wicri:regionArea>Marie Bashir Institute for Infectious Diseases and Biosecurity, Charles Perkins Centre, School of Biological Sciences and Sydney Medical School, The University of Sydney, Sydney, NSW</wicri:regionArea><orgName type="university">Université de Sydney</orgName><placeName><settlement type="city">Sydney</settlement><region type="état">Nouvelle-Galles du Sud</region></placeName></affiliation></author><author><name sortKey="Abrantes, Joana" sort="Abrantes, Joana" uniqKey="Abrantes J" first="Joana" last="Abrantes">Joana Abrantes</name><affiliation wicri:level="1"><nlm:affiliation>CIBIO, InBIO - Research Network in Biodiversity and Evolutionary Biology, Universidade do Porto, Campus de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal jabrantes@cibio.up.pt.</nlm:affiliation><country wicri:rule="url">Portugal</country><wicri:regionArea>CIBIO, InBIO - Research Network in Biodiversity and Evolutionary Biology, Universidade do Porto, Campus de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão</wicri:regionArea><wicri:noRegion>4485-661 Vairão</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2015">2015</date><idno type="RBID">pubmed:25626685</idno><idno type="pmid">25626685</idno><idno type="doi">10.1099/vir.0.000070</idno><idno type="wicri:Area/PubMed/Corpus">002C90</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">002C90</idno><idno type="wicri:Area/PubMed/Curation">002C16</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">002C16</idno><idno type="wicri:Area/PubMed/Checkpoint">002C16</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">002C16</idno><idno type="wicri:Area/Ncbi/Merge">002204</idno><idno type="wicri:Area/Ncbi/Curation">002204</idno><idno type="wicri:Area/Ncbi/Checkpoint">002204</idno><idno type="wicri:Area/Main/Merge">002D79</idno><idno type="wicri:Area/Main/Curation">002D78</idno><idno type="wicri:Area/Main/Exploration">002D78</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Full genomic analysis of new variant rabbit hemorrhagic disease virus revealed multiple recombination events.</title><author><name sortKey="Lopes, Ana M" sort="Lopes, Ana M" uniqKey="Lopes A" first="Ana M" last="Lopes">Ana M. Lopes</name><affiliation wicri:level="3"><nlm:affiliation>CIBIO, InBIO - Research Network in Biodiversity and Evolutionary Biology, Universidade do Porto, Campus de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal Departamento de Biologia, Faculdade de Ciências da Universidade do Porto, Porto, Portugal INSERM, UMR892, Université de Nantes, Nantes, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>CIBIO, InBIO - Research Network in Biodiversity and Evolutionary Biology, Universidade do Porto, Campus de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal Departamento de Biologia, Faculdade de Ciências da Universidade do Porto, Porto, Portugal INSERM, UMR892, Université de Nantes, Nantes</wicri:regionArea><placeName><region type="region">Pays de la Loire</region><region type="old region">Pays de la Loire</region><settlement type="city">Nantes</settlement></placeName></affiliation></author><author><name sortKey="Dalton, Kevin P" sort="Dalton, Kevin P" uniqKey="Dalton K" first="Kevin P" last="Dalton">Kevin P. Dalton</name><affiliation wicri:level="1"><nlm:affiliation>Instituto Universitario de Biotecnología de Asturias, Departamento de Bioquímica y Biología Molecular, Universidad de Oviedo, Oviedo, Spain.</nlm:affiliation><country xml:lang="fr">Espagne</country><wicri:regionArea>Instituto Universitario de Biotecnología de Asturias, Departamento de Bioquímica y Biología Molecular, Universidad de Oviedo, Oviedo</wicri:regionArea><wicri:noRegion>Oviedo</wicri:noRegion></affiliation></author><author><name sortKey="Magalhaes, Maria J" sort="Magalhaes, Maria J" uniqKey="Magalhaes M" first="Maria J" last="Magalhães">Maria J. Magalhães</name><affiliation wicri:level="1"><nlm:affiliation>CIBIO, InBIO - Research Network in Biodiversity and Evolutionary Biology, Universidade do Porto, Campus de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal.</nlm:affiliation><country xml:lang="fr">Portugal</country><wicri:regionArea>CIBIO, InBIO - Research Network in Biodiversity and Evolutionary Biology, Universidade do Porto, Campus de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão</wicri:regionArea><wicri:noRegion>4485-661 Vairão</wicri:noRegion></affiliation></author><author><name sortKey="Parra, Francisco" sort="Parra, Francisco" uniqKey="Parra F" first="Francisco" last="Parra">Francisco Parra</name><affiliation wicri:level="1"><nlm:affiliation>Instituto Universitario de Biotecnología de Asturias, Departamento de Bioquímica y Biología Molecular, Universidad de Oviedo, Oviedo, Spain.</nlm:affiliation><country xml:lang="fr">Espagne</country><wicri:regionArea>Instituto Universitario de Biotecnología de Asturias, Departamento de Bioquímica y Biología Molecular, Universidad de Oviedo, Oviedo</wicri:regionArea><wicri:noRegion>Oviedo</wicri:noRegion></affiliation></author><author><name sortKey="Esteves, Pedro J" sort="Esteves, Pedro J" uniqKey="Esteves P" first="Pedro J" last="Esteves">Pedro J. Esteves</name><affiliation wicri:level="1"><nlm:affiliation>CIBIO, InBIO - Research Network in Biodiversity and Evolutionary Biology, Universidade do Porto, Campus de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal Departamento de Biologia, Faculdade de Ciências da Universidade do Porto, Porto, Portugal CITS, Centro de Investigação em Tecnologias da Saúde, IPSN, CESPU, Gandra, Portugal.</nlm:affiliation><country xml:lang="fr">Portugal</country><wicri:regionArea>CIBIO, InBIO - Research Network in Biodiversity and Evolutionary Biology, Universidade do Porto, Campus de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal Departamento de Biologia, Faculdade de Ciências da Universidade do Porto, Porto, Portugal CITS, Centro de Investigação em Tecnologias da Saúde, IPSN, CESPU, Gandra</wicri:regionArea><wicri:noRegion>Gandra</wicri:noRegion></affiliation></author><author><name sortKey="Holmes, Edward C" sort="Holmes, Edward C" uniqKey="Holmes E" first="Edward C" last="Holmes">Edward C. Holmes</name><affiliation wicri:level="4"><nlm:affiliation>Marie Bashir Institute for Infectious Diseases and Biosecurity, Charles Perkins Centre, School of Biological Sciences and Sydney Medical School, The University of Sydney, Sydney, NSW, Australia.</nlm:affiliation><country xml:lang="fr">Australie</country><wicri:regionArea>Marie Bashir Institute for Infectious Diseases and Biosecurity, Charles Perkins Centre, School of Biological Sciences and Sydney Medical School, The University of Sydney, Sydney, NSW</wicri:regionArea><orgName type="university">Université de Sydney</orgName><placeName><settlement type="city">Sydney</settlement><region type="état">Nouvelle-Galles du Sud</region></placeName></affiliation></author><author><name sortKey="Abrantes, Joana" sort="Abrantes, Joana" uniqKey="Abrantes J" first="Joana" last="Abrantes">Joana Abrantes</name><affiliation wicri:level="1"><nlm:affiliation>CIBIO, InBIO - Research Network in Biodiversity and Evolutionary Biology, Universidade do Porto, Campus de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal jabrantes@cibio.up.pt.</nlm:affiliation><country wicri:rule="url">Portugal</country><wicri:regionArea>CIBIO, InBIO - Research Network in Biodiversity and Evolutionary Biology, Universidade do Porto, Campus de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão</wicri:regionArea><wicri:noRegion>4485-661 Vairão</wicri:noRegion></affiliation></author></analytic><series><title level="j">The Journal of general virology</title><idno type="eISSN">1465-2099</idno><imprint><date when="2015" type="published">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>China</term><term>Cluster Analysis</term><term>Evolution, Molecular</term><term>Genome, Viral</term><term>Hemorrhagic Disease Virus, Rabbit (genetics)</term><term>Hemorrhagic Disease Virus, Rabbit (isolation & purification)</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>RNA, Viral (genetics)</term><term>Rabbits</term><term>Recombination, Genetic</term><term>Sequence Analysis, DNA</term><term>Sequence Homology</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN viral (génétique)</term><term>Analyse de regroupements</term><term>Analyse de séquence d'ADN</term><term>Animaux</term><term>Chine</term><term>Données de séquences moléculaires</term><term>Génome viral</term><term>Lapins</term><term>Phylogénie</term><term>Recombinaison génétique</term><term>Similitude de séquences</term><term>Virus de la maladie hémorragique du lapin (génétique)</term><term>Virus de la maladie hémorragique du lapin (isolement et purification)</term><term>Évolution moléculaire</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Viral</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>China</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Hemorrhagic Disease Virus, Rabbit</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN viral</term><term>Virus de la maladie hémorragique du lapin</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Hemorrhagic Disease Virus, Rabbit</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Virus de la maladie hémorragique du lapin</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Cluster Analysis</term><term>Evolution, Molecular</term><term>Genome, Viral</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>Rabbits</term><term>Recombination, Genetic</term><term>Sequence Analysis, DNA</term><term>Sequence Homology</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de regroupements</term><term>Analyse de séquence d'ADN</term><term>Animaux</term><term>Chine</term><term>Données de séquences moléculaires</term><term>Génome viral</term><term>Lapins</term><term>Phylogénie</term><term>Recombinaison génétique</term><term>Similitude de séquences</term><term>Évolution moléculaire</term></keywords><keywords scheme="Wicri" type="geographic" xml:lang="fr"><term>République populaire de Chine</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Rabbit hemorrhagic disease virus (RHDV), a Lagovirus of the family Caliciviridae, causes rabbit hemorrhagic disease (RHD) in the European rabbit (Oryctolagus cuniculus). The disease was first documented in 1984 in China and rapidly spread worldwide. In 2010, a new RHDV variant emerged, tentatively classified as 'RHDVb'. RHDVb is characterized by affecting vaccinated rabbits and those <2 months old, and is genetically distinct (~20 %) from older strains. To determine the evolution of RHDV, including the new variant, we generated 28 full-genome sequences from samples collected between 1994 and 2014. Phylogenetic analysis of the gene encoding the major capsid protein, VP60, indicated that all viruses sampled from 2012 to 2014 were RHDVb. Multiple recombination events were detected in the more recent RHDVb genomes, with a single major breakpoint located in the 5' region of VP60. This breakpoint divides the genome into two regions: one that encodes the non-structural proteins and another that encodes the major and minor structural proteins, VP60 and VP10, respectively. Additional phylogenetic analysis of each region revealed two types of recombinants with distinct genomic backgrounds. Recombinants always include the structural proteins of RHDVb, with non-structural proteins from non-pathogenic lagoviruses or from pathogenic genogroup 1 strains. Our results show that in contrast to the evolutionary history of older RHDV strains, recombination plays an important role in generating diversity in the newly emerged RHDVb.</div></front></TEI><affiliations><list><country><li>Australie</li><li>Espagne</li><li>France</li><li>Portugal</li></country><region><li>Nouvelle-Galles du Sud</li><li>Pays de la Loire</li></region><settlement><li>Nantes</li><li>Sydney</li></settlement><orgName><li>Université de Sydney</li></orgName></list><tree><country name="France"><region name="Pays de la Loire"><name sortKey="Lopes, Ana M" sort="Lopes, Ana M" uniqKey="Lopes A" first="Ana M" last="Lopes">Ana M. Lopes</name></region></country><country name="Espagne"><noRegion><name sortKey="Dalton, Kevin P" sort="Dalton, Kevin P" uniqKey="Dalton K" first="Kevin P" last="Dalton">Kevin P. Dalton</name></noRegion><name sortKey="Parra, Francisco" sort="Parra, Francisco" uniqKey="Parra F" first="Francisco" last="Parra">Francisco Parra</name></country><country name="Portugal"><noRegion><name sortKey="Magalhaes, Maria J" sort="Magalhaes, Maria J" uniqKey="Magalhaes M" first="Maria J" last="Magalhães">Maria J. Magalhães</name></noRegion><name sortKey="Abrantes, Joana" sort="Abrantes, Joana" uniqKey="Abrantes J" first="Joana" last="Abrantes">Joana Abrantes</name><name sortKey="Esteves, Pedro J" sort="Esteves, Pedro J" uniqKey="Esteves P" first="Pedro J" last="Esteves">Pedro J. Esteves</name></country><country name="Australie"><region name="Nouvelle-Galles du Sud"><name sortKey="Holmes, Edward C" sort="Holmes, Edward C" uniqKey="Holmes E" first="Edward C" last="Holmes">Edward C. Holmes</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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