Development of a rapid multiplex SSR genotyping method to study populations of the fungal plant pathogen Zymoseptoria tritici

BMC Research Notes

Anne-Sophie Walker¹  Frédéric Suffert¹  Gert Kema³  Charles Crane²  Johann Confais¹  Thierry C Marcel¹  Angélique Gautier¹ 

[1] UR 1290 BIOGER-CPP, INRA, BP01, Avenue Lucien Brétignières, F-78850 Thiverval-Grignon, France;USDA-ARS, Crop Production and Pest Control Research Unit, Department of Botany and Plant Pathology, Purdue University, 915 West State Street, West Lafayette, IN 47907-2054, USA;Plant Research International, Biointeractions and Plant Health, P.O. Box 16, 6700 AA Wageningen, The Netherlands

关键词: Phytopathogenic fungus;    Mycosphaerella graminicola;    Diversity;    Population genetics;    Multiplex;    Genotyping;    Single sequence repeat (SSR);    Microsatellite;   

Others  :  1132455
DOI  :  10.1186/1756-0500-7-373

 received in 2013-05-16, accepted in 2014-05-30,  发布年份 2014

【 摘 要 】

Background

Zymoseptoria tritici is a hemibiotrophic ascomycete fungus causing leaf blotch of wheat that often decreases yield severely. Populations of the fungus are known to be highly diverse and poorly differentiated from each other. However, a genotyping tool is needed to address further questions in large collections of isolates, regarding regional population structure, adaptation to anthropogenic selective pressures, and dynamics of the recently discovered accessory chromosomes. This procedure is limited by costly and time-consuming simplex PCR genotyping. Recent development of genomic approaches and of larger sets of SSRs enabled the optimization of microsatellite multiplexing.

Findings

We report here a reliable protocol to amplify 24 SSRs organized in three multiplex panels, and covering all Z. tritici chromosomes. We also propose an automatic allele assignment procedure, which allows scoring alleles in a repeatable manner across studies and laboratories. All together, these tools enabled us to characterize local and worldwide populations and to calculate diversity indexes consistent with results reported in the literature.

Conclusion

This easy-to-use, accurate, repeatable, economical, and faster technical strategy can provide useful genetic information for evolutionary inferences concerning Z. tritici populations. Moreover, it will facilitate the comparison of studies from different scientific groups.

【 授权许可】

   
2014 Gautier et al.; licensee BioMed Central Ltd.

【 图 表 】

Figure 1.

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