Publications des scientifiques de l'IRD

Poulin Lucie, Grygiel P., Magne M., Gagnevin L., Rodriguez L. M., Serna N. F., Zhao S., El Rafii M., Dao S., Tekete C., Wonni I., Koita O., Pruvost O., Verdier Valérie, Vernière C., Koebnik Ralf. (2015). New multilocus variable-number tandem-repeat analysis tool for surveillance and local epidemiology of bacterial leaf blight and bacterial leaf streak of rice caused by Xanthomonas oryzae. Applied and Environmental Microbiology, 81 (2), p. 688-698. ISSN 0099-2240.

Titre du document
New multilocus variable-number tandem-repeat analysis tool for surveillance and local epidemiology of bacterial leaf blight and bacterial leaf streak of rice caused by Xanthomonas oryzae
Année de publication
2015
Type de document
Article référencé dans le Web of Science WOS:000347377500025
Auteurs
Poulin Lucie, Grygiel P., Magne M., Gagnevin L., Rodriguez L. M., Serna N. F., Zhao S., El Rafii M., Dao S., Tekete C., Wonni I., Koita O., Pruvost O., Verdier Valérie, Vernière C., Koebnik Ralf
Source
Applied and Environmental Microbiology, 2015, 81 (2), p. 688-698 ISSN 0099-2240
Multilocus variable-number tandem-repeat analysis (MLVA) is efficient for routine typing and for investigating the genetic structures of natural microbial populations. Two distinct pathovars of Xanthomonas oryzae can cause significant crop losses in tropical and temperate rice-growing countries. Bacterial leaf streak is caused by X. oryzae pv. oryzicola, and bacterial leaf blight is caused by X. oryzae pv. oryzae. For the latter, two genetic lineages have been described in the literature. We developed a universal MLVA typing tool both for the identification of the three X. oryzae genetic lineages and for epidemiological analyses. Sixteen candidate variable-number tandem-repeat (VNTR) loci were selected according to their presence and polymorphism in 10 draft or complete genome sequences of the three X. oryzae lineages and by VNTR sequencing of a subset of loci of interest in 20 strains per lineage. The MLVA-16 scheme was then applied to 338 strains of X. oryzae representing different pathovars and geographical locations. Linkage disequilibrium between MLVA loci was calculated by index association on different scales, and the 16 loci showed linear Mantel correlation with MLSA data on 56 X. oryzae strains, suggesting that they provide a good phylogenetic signal. Furthermore, analyses of sets of strains for different lineages indicated the possibility of using the scheme for deeper epidemiological investigation on small spatial scales.
Plan de classement
Sciences du monde végétal [076]
Description Géographique
AFRIQUE ; ASIE
Localisation
Fonds IRD [F B010063668]
Identifiant IRD
fdi:010063668
Contact