Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: high rates of intra-species recombination - a driving force in the emergence of new strains.
Identifieur interne : 002036 ( Ncbi/Curation ); précédent : 002035; suivant : 002037Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: high rates of intra-species recombination - a driving force in the emergence of new strains.
Auteurs : Simona Kraberger [Nouvelle-Zélande] ; Safaa G. Kumari [Tunisie] ; Abdelmagid A. Hamed [Soudan] ; Bruno Gronenborn [France] ; John E. Thomas [Australie] ; Murray Sharman [Australie] ; Gordon W. Harkins [Afrique du Sud] ; Brejnev M. Muhire [Afrique du Sud] ; Darren P. Martin [Afrique du Sud] ; Arvind Varsani [États-Unis]Source :
- Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases [ 1567-7257 ] ; 2015.
Descripteurs français
- KwdFr :
- ADN viral (génétique), Analyse de séquence d'ADN, Cicer (virologie), Données de séquences moléculaires, Geminiviridae (), Geminiviridae (génétique), Maladies des plantes (génétique), Maladies des plantes (virologie), Phylogénie, Recombinaison génétique, Soudan, Sélection génétique, Variation génétique.
- MESH :
- Wicri :
- geographic : Soudan.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : DNA, Viral.
- geographic : Sudan.
- classification : Geminiviridae.
- genetics : Geminiviridae, Plant Diseases.
- virology : Cicer, Plant Diseases.
- Genetic Variation, Molecular Sequence Data, Phylogeny, Recombination, Genetic, Selection, Genetic, Sequence Analysis, DNA.
Abstract
In Sudan Chickpea chlorotic dwarf virus (CpCDV, genus Mastrevirus, family Geminiviridae) is an important pathogen of pulses that are grown both for local consumption, and for export. Although a few studies have characterised CpCDV genomes from countries in the Middle East, Africa and the Indian subcontinent, little is known about CpCDV diversity in any of the major chickpea production areas in these regions. Here we analyse the diversity of 146 CpCDV isolates characterised from pulses collected across the chickpea growing regions of Sudan. Although we find that seven of the twelve known CpCDV strains are present within the country, strain CpCDV-H alone accounted for ∼73% of the infections analysed. Additionally we identified four new strains (CpCDV-M, -N, -O and -P) and show that recombination has played a significant role in the diversification of CpCDV, at least in this region. Accounting for observed recombination events, we use the large amounts of data generated here to compare patterns of natural selection within protein coding regions of CpCDV and other dicot-infecting mastrevirus species.
DOI: 10.1016/j.meegid.2014.11.024
PubMed: 25444941
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<term>Genetic Variation</term>
<term>Molecular Sequence Data</term>
<term>Phylogeny</term>
<term>Plant Diseases (genetics)</term>
<term>Plant Diseases (virology)</term>
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<term>Selection, Genetic</term>
<term>Sequence Analysis, DNA</term>
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<term>Cicer (virologie)</term>
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<term>Geminiviridae (génétique)</term>
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<term>Maladies des plantes (virologie)</term>
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<term>Recombinaison génétique</term>
<term>Soudan</term>
<term>Sélection génétique</term>
<term>Variation génétique</term>
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<term>Molecular Sequence Data</term>
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<term>Selection, Genetic</term>
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<keywords scheme="MESH" xml:lang="fr"><term>Analyse de séquence d'ADN</term>
<term>Données de séquences moléculaires</term>
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<term>Phylogénie</term>
<term>Recombinaison génétique</term>
<term>Soudan</term>
<term>Sélection génétique</term>
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<front><div type="abstract" xml:lang="en">In Sudan Chickpea chlorotic dwarf virus (CpCDV, genus Mastrevirus, family Geminiviridae) is an important pathogen of pulses that are grown both for local consumption, and for export. Although a few studies have characterised CpCDV genomes from countries in the Middle East, Africa and the Indian subcontinent, little is known about CpCDV diversity in any of the major chickpea production areas in these regions. Here we analyse the diversity of 146 CpCDV isolates characterised from pulses collected across the chickpea growing regions of Sudan. Although we find that seven of the twelve known CpCDV strains are present within the country, strain CpCDV-H alone accounted for ∼73% of the infections analysed. Additionally we identified four new strains (CpCDV-M, -N, -O and -P) and show that recombination has played a significant role in the diversification of CpCDV, at least in this region. Accounting for observed recombination events, we use the large amounts of data generated here to compare patterns of natural selection within protein coding regions of CpCDV and other dicot-infecting mastrevirus species.</div>
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