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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
agricultural and biological sciences
Development of a variable number of tandem repeats typing scheme for the bacterial rice pathogen Xanthomonas oryzae pv. oryzicola
Phytopathology, Volume 102, No. 10, Year 2012
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Description
Xanthomonas oryzae pv. oryzicola is an important bacterial pathogen responsible for outbreaks of bacterial leaf streak (BLS) on rice, mostly occurring in Asia and parts of Africa. To better monitor epidemics and assess population structures, efficient tools that allow the precise identification and diagnosis of pathogenic populations are needed. In this study, we explored variable numbers of tandem repeats (VNTR) as a fast, reliable, and cost-effective molecular typing tool. Screening of three X. oryzae pv. oryzicola genome sequences (Philippine strain BLS256, Chinese strain GX01, and Malian strain MAI10) predicted 28 candidate VNTR loci. Primer pairs for polymerase chain reaction (PCR) amplification of all 28 loci were designed and applied to a panel of 20 X. oryzae pv. oryzicola strains originating from Asia and Africa. Sequencing of PCR amplicons revealed 25 robust and polymorphic VNTR loci that are shared among Asian and African X. oryzae pv. oryzicola strains. A dendrogram constructed from 25 VNTR loci indicated that most Asian strains are clearly discriminated from African strains. However, in agreement with previous reports, one strain from Mali is related to Asian strains, pointing to a possible introduction of Asian strains to the African continent. The new VNTR-based tool described here is useful for studies of population structures and epidemiological monitoring of X. oryzae pv. oryzicola. © 2012 The American Phytopathological Society.
Authors & Co-Authors
Zhao, Shuai
France, Montpellier
Ird Centre de Montpellier
China, Nanning
Guangxi University
Poulin, Lucie
France, Montpellier
Ird Centre de Montpellier
Rodriguez-R, Luis M.
France, Montpellier
Ird Centre de Montpellier
United States, Atlanta
Georgia Institute of Technology
Forero Serna, N.
France, Montpellier
Ird Centre de Montpellier
Australia, Sydney
Macquarie University
Liu, Shu Yan
China, Nanning
Guangxi University
China, Nanning
Guangxi Medial University
Wonni, Issa
France, Montpellier
Ird Centre de Montpellier
Burkina Faso, Ouagadougou
Institut de L'environnement et de Recherches Agricoles
Szurek, Boris
France, Montpellier
Ird Centre de Montpellier
Verdier, Valérie
France, Montpellier
Ird Centre de Montpellier
United States, Fort Collins
Colorado State University
Leach, Jan E.
United States, Fort Collins
Colorado State University
He, Yong Qiang
China, Nanning
Guangxi University
Feng, Jia Xun
China, Nanning
Guangxi University
Koebnik, Ralf
France, Montpellier
Ird Centre de Montpellier
Statistics
Citations: 37
Authors: 12
Affiliations: 7
Identifiers
Doi:
10.1094/PHYTO-04-12-0078-R
ISSN:
0031949X
Study Design
Cross Sectional Study
Study Locations
Mali