Ongoing geographical spread of Tomato yellow leaf curl virus.
Identifieur interne : 001A15 ( Main/Exploration ); précédent : 001A14; suivant : 001A16Ongoing geographical spread of Tomato yellow leaf curl virus.
Auteurs : Batsirai Mabvakure [Afrique du Sud] ; Darren P. Martin [Afrique du Sud] ; Simona Kraberger [États-Unis] ; Leendert Cloete [Afrique du Sud] ; Sharon Van Brunschot [Australie] ; Andrew D W. Geering [Australie] ; John E. Thomas [Australie] ; Kaveh Bananej [Iran] ; Jean-Michel Lett [France] ; Pierre Lefeuvre [France] ; Arvind Varsani [États-Unis] ; Gordon W. Harkins [Afrique du Sud]Source :
- Virology [ 1096-0341 ] ; 2016.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Begomovirus.
- virologie : Maladies des plantes.
- Begomovirus, Génome viral, Mutation, Phylogénie, Phylogéographie, Recombinaison génétique, Théorème de Bayes, Évolution moléculaire.
English descriptors
- KwdEn :
- MESH :
- classification : Begomovirus.
- genetics : Begomovirus.
- virology : Plant Diseases.
- Bayes Theorem, Evolution, Molecular, Genome, Viral, Mutation, Phylogeny, Phylogeography, Recombination, Genetic.
Abstract
Tomato yellow leaf curl virus (TYLCV) seriously impacts tomato production throughout tropical and sub-tropical regions of the world. It has a broad geographical distribution and continues to spread to new regions in the Indian and Pacific Oceans including Australia, New Caledonia and Mauritius. We undertook a temporally-scaled, phylogeographic analysis of all publicly available, full genome sequences of TYLCV, together with 70 new genome sequences from Australia, Iran and Mauritius. This revealed that whereas epidemics in Australia and China likely originated through multiple independent viral introductions from the East-Asian region around Japan and Korea, the New Caledonian epidemic was seeded by a variant from the Western Mediterranean region and the Mauritian epidemic by a variant from the neighbouring island of Reunion. Finally, we show that inter-continental scale movements of TYLCV to East Asia have, at least temporarily, ceased, whereas long-distance movements to the Americas and Australia are probably still ongoing.
DOI: 10.1016/j.virol.2016.08.033
PubMed: 27619929
Affiliations:
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Thomas</name><affiliation wicri:level="1"><nlm:affiliation>The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Ecosciences Precinct, GPO Box 267, Brisbane, QLD 4001, Australia.</nlm:affiliation><country xml:lang="fr">Australie</country><wicri:regionArea>The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Ecosciences Precinct, GPO Box 267, Brisbane, QLD 4001</wicri:regionArea><wicri:noRegion>QLD 4001</wicri:noRegion></affiliation></author><author><name sortKey="Bananej, Kaveh" sort="Bananej, Kaveh" uniqKey="Bananej K" first="Kaveh" last="Bananej">Kaveh Bananej</name><affiliation wicri:level="1"><nlm:affiliation>Department of Plant Virus Research, Iranian Research Institute of Plant Protection (IRIPP), Tehran 19395-1454, Iran.</nlm:affiliation><country xml:lang="fr">Iran</country><wicri:regionArea>Department of Plant Virus Research, Iranian Research Institute of Plant Protection (IRIPP), Tehran 19395-1454</wicri:regionArea><wicri:noRegion>Tehran 19395-1454</wicri:noRegion></affiliation></author><author><name sortKey="Lett, Jean Michel" sort="Lett, Jean Michel" uniqKey="Lett J" first="Jean-Michel" last="Lett">Jean-Michel Lett</name><affiliation wicri:level="1"><nlm:affiliation>CIRAD, UMR PVBMT, Pôle de Protection des Plantes, 7 chemin de l'IRAT, Saint-Pierre, Ile de la Réunion 97410, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>CIRAD, UMR PVBMT, Pôle de Protection des Plantes, 7 chemin de l'IRAT, Saint-Pierre, Ile de la Réunion 97410</wicri:regionArea><wicri:noRegion>97410</wicri:noRegion><wicri:noRegion>97410</wicri:noRegion></affiliation></author><author><name sortKey="Lefeuvre, Pierre" sort="Lefeuvre, Pierre" uniqKey="Lefeuvre P" first="Pierre" last="Lefeuvre">Pierre Lefeuvre</name><affiliation wicri:level="1"><nlm:affiliation>CIRAD, UMR PVBMT, Pôle de Protection des Plantes, 7 chemin de l'IRAT, Saint-Pierre, Ile de la Réunion 97410, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>CIRAD, UMR PVBMT, Pôle de Protection des Plantes, 7 chemin de l'IRAT, Saint-Pierre, Ile de la Réunion 97410</wicri:regionArea><wicri:noRegion>97410</wicri:noRegion><wicri:noRegion>97410</wicri:noRegion></affiliation></author><author><name sortKey="Varsani, Arvind" sort="Varsani, Arvind" uniqKey="Varsani A" first="Arvind" last="Varsani">Arvind Varsani</name><affiliation wicri:level="2"><nlm:affiliation>Department of Clinical Laboratory Sciences, University of Cape Town, Cape Town, South Africa; School of Biological Sciences and Biomolecular Interaction Centre, University of Canterbury, Private Bag 4800, Christchurch 8140, New Zealand; The Center for Functional Microbiomics, The Biodesign Institute and School of Life sciences, Arizona State University, Tempe, AZ 85287, USA. Electronic address: arvind.varsani@asu.edu.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Clinical Laboratory Sciences, University of Cape Town, Cape Town, South Africa; School of Biological Sciences and Biomolecular Interaction Centre, University of Canterbury, Private Bag 4800, Christchurch 8140, New Zealand; The Center for Functional Microbiomics, The Biodesign Institute and School of Life sciences, Arizona State University, Tempe, AZ 85287</wicri:regionArea><placeName><region type="state">Arizona</region></placeName></affiliation></author><author><name sortKey="Harkins, Gordon W" sort="Harkins, Gordon W" uniqKey="Harkins G" first="Gordon W" last="Harkins">Gordon W. Harkins</name><affiliation wicri:level="1"><nlm:affiliation>South African National Bioinformatics Institute, University of the Western Cape, Bellville 7535, South Africa. Electronic address: gordon@sanbi.ac.za.</nlm:affiliation><country xml:lang="fr">Afrique du Sud</country><wicri:regionArea>South African National Bioinformatics Institute, University of the Western Cape, Bellville 7535</wicri:regionArea><wicri:noRegion>Bellville 7535</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2016">2016</date><idno type="RBID">pubmed:27619929</idno><idno type="pmid">27619929</idno><idno type="doi">10.1016/j.virol.2016.08.033</idno><idno type="wicri:Area/PubMed/Corpus">001613</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">001613</idno><idno type="wicri:Area/PubMed/Curation">001591</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">001591</idno><idno type="wicri:Area/PubMed/Checkpoint">001591</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">001591</idno><idno type="wicri:Area/Ncbi/Merge">003B32</idno><idno type="wicri:Area/Ncbi/Curation">003B32</idno><idno type="wicri:Area/Ncbi/Checkpoint">003B32</idno><idno type="wicri:Area/Main/Merge">001A11</idno><idno type="wicri:Area/Main/Curation">001A15</idno><idno type="wicri:Area/Main/Exploration">001A15</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Ongoing geographical spread of Tomato yellow leaf curl virus.</title><author><name sortKey="Mabvakure, Batsirai" sort="Mabvakure, Batsirai" uniqKey="Mabvakure B" first="Batsirai" last="Mabvakure">Batsirai Mabvakure</name><affiliation wicri:level="1"><nlm:affiliation>South African National Bioinformatics Institute, University of the Western Cape, Bellville 7535, South Africa.</nlm:affiliation><country xml:lang="fr">Afrique du Sud</country><wicri:regionArea>South African National Bioinformatics Institute, University of the Western Cape, Bellville 7535</wicri:regionArea><wicri:noRegion>Bellville 7535</wicri:noRegion></affiliation></author><author><name sortKey="Martin, Darren P" sort="Martin, Darren P" uniqKey="Martin D" first="Darren P" last="Martin">Darren P. Martin</name><affiliation wicri:level="1"><nlm:affiliation>Department of Clinical Laboratory Sciences, University of Cape Town, Cape Town, South Africa.</nlm:affiliation><country xml:lang="fr">Afrique du Sud</country><wicri:regionArea>Department of Clinical Laboratory Sciences, University of Cape Town, Cape Town</wicri:regionArea><wicri:noRegion>Cape Town</wicri:noRegion></affiliation></author><author><name sortKey="Kraberger, Simona" sort="Kraberger, Simona" uniqKey="Kraberger S" first="Simona" last="Kraberger">Simona Kraberger</name><affiliation wicri:level="2"><nlm:affiliation>School of Biological Sciences and Biomolecular Interaction Centre, University of Canterbury, Private Bag 4800, Christchurch 8140, New Zealand; Department of Microbiology, Immunology, and Pathology, Colorado State University, Fort Collins, CO, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>School of Biological Sciences and Biomolecular Interaction Centre, University of Canterbury, Private Bag 4800, Christchurch 8140, New Zealand; Department of Microbiology, Immunology, and Pathology, Colorado State University, Fort Collins, CO</wicri:regionArea><placeName><region type="state">Colorado</region></placeName></affiliation></author><author><name sortKey="Cloete, Leendert" sort="Cloete, Leendert" uniqKey="Cloete L" first="Leendert" last="Cloete">Leendert Cloete</name><affiliation wicri:level="1"><nlm:affiliation>South African National Bioinformatics Institute, University of the Western Cape, Bellville 7535, South Africa.</nlm:affiliation><country xml:lang="fr">Afrique du Sud</country><wicri:regionArea>South African National Bioinformatics Institute, University of the Western Cape, Bellville 7535</wicri:regionArea><wicri:noRegion>Bellville 7535</wicri:noRegion></affiliation></author><author><name sortKey="Van Brunschot, Sharon" sort="Van Brunschot, Sharon" uniqKey="Van Brunschot S" first="Sharon" last="Van Brunschot">Sharon Van Brunschot</name><affiliation wicri:level="1"><nlm:affiliation>School of Biological Sciences, The University of Queensland, Brisbane, Queensland 4072, Australia; The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Ecosciences Precinct, GPO Box 267, Brisbane, QLD 4001, Australia.</nlm:affiliation><country xml:lang="fr">Australie</country><wicri:regionArea>School of Biological Sciences, The University of Queensland, Brisbane, Queensland 4072, Australia; The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Ecosciences Precinct, GPO Box 267, Brisbane, QLD 4001</wicri:regionArea><wicri:noRegion>QLD 4001</wicri:noRegion></affiliation></author><author><name sortKey="Geering, Andrew D W" sort="Geering, Andrew D W" uniqKey="Geering A" first="Andrew D W" last="Geering">Andrew D W. Geering</name><affiliation wicri:level="1"><nlm:affiliation>The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Ecosciences Precinct, GPO Box 267, Brisbane, QLD 4001, Australia.</nlm:affiliation><country xml:lang="fr">Australie</country><wicri:regionArea>The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Ecosciences Precinct, GPO Box 267, Brisbane, QLD 4001</wicri:regionArea><wicri:noRegion>QLD 4001</wicri:noRegion></affiliation></author><author><name sortKey="Thomas, John E" sort="Thomas, John E" uniqKey="Thomas J" first="John E" last="Thomas">John E. Thomas</name><affiliation wicri:level="1"><nlm:affiliation>The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Ecosciences Precinct, GPO Box 267, Brisbane, QLD 4001, Australia.</nlm:affiliation><country xml:lang="fr">Australie</country><wicri:regionArea>The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Ecosciences Precinct, GPO Box 267, Brisbane, QLD 4001</wicri:regionArea><wicri:noRegion>QLD 4001</wicri:noRegion></affiliation></author><author><name sortKey="Bananej, Kaveh" sort="Bananej, Kaveh" uniqKey="Bananej K" first="Kaveh" last="Bananej">Kaveh Bananej</name><affiliation wicri:level="1"><nlm:affiliation>Department of Plant Virus Research, Iranian Research Institute of Plant Protection (IRIPP), Tehran 19395-1454, Iran.</nlm:affiliation><country xml:lang="fr">Iran</country><wicri:regionArea>Department of Plant Virus Research, Iranian Research Institute of Plant Protection (IRIPP), Tehran 19395-1454</wicri:regionArea><wicri:noRegion>Tehran 19395-1454</wicri:noRegion></affiliation></author><author><name sortKey="Lett, Jean Michel" sort="Lett, Jean Michel" uniqKey="Lett J" first="Jean-Michel" last="Lett">Jean-Michel Lett</name><affiliation wicri:level="1"><nlm:affiliation>CIRAD, UMR PVBMT, Pôle de Protection des Plantes, 7 chemin de l'IRAT, Saint-Pierre, Ile de la Réunion 97410, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>CIRAD, UMR PVBMT, Pôle de Protection des Plantes, 7 chemin de l'IRAT, Saint-Pierre, Ile de la Réunion 97410</wicri:regionArea><wicri:noRegion>97410</wicri:noRegion><wicri:noRegion>97410</wicri:noRegion></affiliation></author><author><name sortKey="Lefeuvre, Pierre" sort="Lefeuvre, Pierre" uniqKey="Lefeuvre P" first="Pierre" last="Lefeuvre">Pierre Lefeuvre</name><affiliation wicri:level="1"><nlm:affiliation>CIRAD, UMR PVBMT, Pôle de Protection des Plantes, 7 chemin de l'IRAT, Saint-Pierre, Ile de la Réunion 97410, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>CIRAD, UMR PVBMT, Pôle de Protection des Plantes, 7 chemin de l'IRAT, Saint-Pierre, Ile de la Réunion 97410</wicri:regionArea><wicri:noRegion>97410</wicri:noRegion><wicri:noRegion>97410</wicri:noRegion></affiliation></author><author><name sortKey="Varsani, Arvind" sort="Varsani, Arvind" uniqKey="Varsani A" first="Arvind" last="Varsani">Arvind Varsani</name><affiliation wicri:level="2"><nlm:affiliation>Department of Clinical Laboratory Sciences, University of Cape Town, Cape Town, South Africa; School of Biological Sciences and Biomolecular Interaction Centre, University of Canterbury, Private Bag 4800, Christchurch 8140, New Zealand; The Center for Functional Microbiomics, The Biodesign Institute and School of Life sciences, Arizona State University, Tempe, AZ 85287, USA. Electronic address: arvind.varsani@asu.edu.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Clinical Laboratory Sciences, University of Cape Town, Cape Town, South Africa; School of Biological Sciences and Biomolecular Interaction Centre, University of Canterbury, Private Bag 4800, Christchurch 8140, New Zealand; The Center for Functional Microbiomics, The Biodesign Institute and School of Life sciences, Arizona State University, Tempe, AZ 85287</wicri:regionArea><placeName><region type="state">Arizona</region></placeName></affiliation></author><author><name sortKey="Harkins, Gordon W" sort="Harkins, Gordon W" uniqKey="Harkins G" first="Gordon W" last="Harkins">Gordon W. Harkins</name><affiliation wicri:level="1"><nlm:affiliation>South African National Bioinformatics Institute, University of the Western Cape, Bellville 7535, South Africa. Electronic address: gordon@sanbi.ac.za.</nlm:affiliation><country xml:lang="fr">Afrique du Sud</country><wicri:regionArea>South African National Bioinformatics Institute, University of the Western Cape, Bellville 7535</wicri:regionArea><wicri:noRegion>Bellville 7535</wicri:noRegion></affiliation></author></analytic><series><title level="j">Virology</title><idno type="eISSN">1096-0341</idno><imprint><date when="2016" type="published">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Bayes Theorem</term><term>Begomovirus (classification)</term><term>Begomovirus (genetics)</term><term>Evolution, Molecular</term><term>Genome, Viral</term><term>Mutation</term><term>Phylogeny</term><term>Phylogeography</term><term>Plant Diseases (virology)</term><term>Recombination, Genetic</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Begomovirus ()</term><term>Begomovirus (génétique)</term><term>Génome viral</term><term>Maladies des plantes (virologie)</term><term>Mutation</term><term>Phylogénie</term><term>Phylogéographie</term><term>Recombinaison génétique</term><term>Théorème de Bayes</term><term>Évolution moléculaire</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Begomovirus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Begomovirus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Begomovirus</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Maladies des plantes</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Plant Diseases</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Bayes Theorem</term><term>Evolution, Molecular</term><term>Genome, Viral</term><term>Mutation</term><term>Phylogeny</term><term>Phylogeography</term><term>Recombination, Genetic</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Begomovirus</term><term>Génome viral</term><term>Mutation</term><term>Phylogénie</term><term>Phylogéographie</term><term>Recombinaison génétique</term><term>Théorème de Bayes</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Tomato yellow leaf curl virus (TYLCV) seriously impacts tomato production throughout tropical and sub-tropical regions of the world. It has a broad geographical distribution and continues to spread to new regions in the Indian and Pacific Oceans including Australia, New Caledonia and Mauritius. We undertook a temporally-scaled, phylogeographic analysis of all publicly available, full genome sequences of TYLCV, together with 70 new genome sequences from Australia, Iran and Mauritius. This revealed that whereas epidemics in Australia and China likely originated through multiple independent viral introductions from the East-Asian region around Japan and Korea, the New Caledonian epidemic was seeded by a variant from the Western Mediterranean region and the Mauritian epidemic by a variant from the neighbouring island of Reunion. Finally, we show that inter-continental scale movements of TYLCV to East Asia have, at least temporarily, ceased, whereas long-distance movements to the Americas and Australia are probably still ongoing.</div></front></TEI><affiliations><list><country><li>Afrique du Sud</li><li>Australie</li><li>France</li><li>Iran</li><li>États-Unis</li></country><region><li>Arizona</li><li>Colorado</li></region></list><tree><country name="Afrique du Sud"><noRegion><name sortKey="Mabvakure, Batsirai" sort="Mabvakure, Batsirai" uniqKey="Mabvakure B" first="Batsirai" last="Mabvakure">Batsirai Mabvakure</name></noRegion><name sortKey="Cloete, Leendert" sort="Cloete, Leendert" uniqKey="Cloete L" first="Leendert" last="Cloete">Leendert Cloete</name><name sortKey="Harkins, Gordon W" sort="Harkins, Gordon W" uniqKey="Harkins G" first="Gordon W" last="Harkins">Gordon W. Harkins</name><name sortKey="Martin, Darren P" sort="Martin, Darren P" uniqKey="Martin D" first="Darren P" last="Martin">Darren P. Martin</name></country><country name="États-Unis"><region name="Colorado"><name sortKey="Kraberger, Simona" sort="Kraberger, Simona" uniqKey="Kraberger S" first="Simona" last="Kraberger">Simona Kraberger</name></region><name sortKey="Varsani, Arvind" sort="Varsani, Arvind" uniqKey="Varsani A" first="Arvind" last="Varsani">Arvind Varsani</name></country><country name="Australie"><noRegion><name sortKey="Van Brunschot, Sharon" sort="Van Brunschot, Sharon" uniqKey="Van Brunschot S" first="Sharon" last="Van Brunschot">Sharon Van Brunschot</name></noRegion><name sortKey="Geering, Andrew D W" sort="Geering, Andrew D W" uniqKey="Geering A" first="Andrew D W" last="Geering">Andrew D W. Geering</name><name sortKey="Thomas, John E" sort="Thomas, John E" uniqKey="Thomas J" first="John E" last="Thomas">John E. Thomas</name></country><country name="Iran"><noRegion><name sortKey="Bananej, Kaveh" sort="Bananej, Kaveh" uniqKey="Bananej K" first="Kaveh" last="Bananej">Kaveh Bananej</name></noRegion></country><country name="France"><noRegion><name sortKey="Lett, Jean Michel" sort="Lett, Jean Michel" uniqKey="Lett J" first="Jean-Michel" last="Lett">Jean-Michel Lett</name></noRegion><name sortKey="Lefeuvre, Pierre" sort="Lefeuvre, Pierre" uniqKey="Lefeuvre P" first="Pierre" last="Lefeuvre">Pierre Lefeuvre</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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