Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination – a driving force in the emergence of new strains

Published Date
January 01, 2015
Type
Journal Article
Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination – a driving force in the emergence of new strains
Authors:
Simona Kraberger
Safaa G. Kumari, Abdelmagid Adlan Hamed, Bruno Gronenborn, John Thomas, Murray Sharman, Gordon Harkins, Brejnev M. Muhire, Darren Martin, Arvind Varsani, Arvind Varsani, Arvind Varsani

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 similar to 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. (C) 2014 Elsevier B.V. All rights reserved.

Citation:
Simona Kraberger, Safaa Kumari, Abdelmagid Adlan Hamed, Bruno Gronenborn, John Thomas, Murray Sharman, Gordon Harkins, Brejnev Muhire, Darren Martin, Arvind Varsani. (1/1/2015). Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination – a driving force in the emergence of new strains. Infection, Genetics and Evolution, 29, pp. 203-215.
Keywords:
geminivirus
mastrevirus
chickpea chlorotic dwarf virus
sudan
chickpeas
recombination