Genome-wide association mapping of virulence gene in rice blast fungus Magnaporthe oryzae using a genotyping by sequencing approach

Siripar Korinsak; Sithichoke Tangphatsornruang; Wirulda Pootakham; Samart Wanchana; Anucha Plabpla; Chatchawan Jantasuriyarat; Sujin Patarapuwadol; Apichart Vanavichit; Theerayut Toojinda

doi:10.1016/j.ygeno.2018.05.011

Genome-wide association mapping of virulence gene in rice blast fungus Magnaporthe oryzae using a genotyping by sequencing approach

Genomics. 2019 Jul;111(4):661-668. doi: 10.1016/j.ygeno.2018.05.011. Epub 2018 May 15.

Authors

Siripar Korinsak¹, Sithichoke Tangphatsornruang², Wirulda Pootakham², Samart Wanchana², Anucha Plabpla³, Chatchawan Jantasuriyarat⁴, Sujin Patarapuwadol⁵, Apichart Vanavichit⁶, Theerayut Toojinda⁷

Affiliations

¹ Plant Breeding Program, Faculty of Agriculture at Kamphaeng Saen, Kesetsart University, Nakhon Pathom 73140, Thailand.
² National Center for Genetic Engineering and Biotechnology (BIOTEC), 113 Thailand Science Park, Pahonyothin Road, Khlong Nueng, Khlong Luang, PathumThani 12120, Thailand.
³ Interdisciplinary Graduate Program in Genetic Engineering, Kasetsart University, Bangkok 10900, Thailand.
⁴ Department of Genetics, Faculty of Science, Kasetsart University, Bangkok 10900, Thailand.
⁵ Department of Plant Pathology, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand.
⁶ Department of Agronomy, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand; Rice Science Center, Kasetsart University, Kamphaeng Saen, Nakhon Pathom 73140, Thailand.
⁷ National Center for Genetic Engineering and Biotechnology (BIOTEC), 113 Thailand Science Park, Pahonyothin Road, Khlong Nueng, Khlong Luang, PathumThani 12120, Thailand. Electronic address: theerayut@biotec.or.th.

PMID: 29775784
DOI: 10.1016/j.ygeno.2018.05.011

Abstract

Magnaporthe oryzae is a fungal pathogen causing blast disease in many plant species. In this study, seventy three isolates of M. oryzae collected from rice (Oryza sativa) in 1996-2014 were genotyped using a genotyping-by-sequencing approach to detect genetic variation. An association study was performed to identify single nucleotide polymorphisms (SNPs) associated with virulence genes using 831 selected SNP and infection phenotypes on local and improved rice varieties. Population structure analysis revealed eight subpopulations. The division into eight groups was not related to the degree of virulence. Association mapping showed five SNPs associated with fungal virulence on chromosome 1, 2, 3, 4 and 7. The SNP on chromosome 1 was associated with virulence against RD6-Pi7 and IRBL7-M which might be linked to the previously reported AvrPi7.

Keywords: Association mapping; Genotyping-by-sequencing (GBS); Magnaporthe oryzae; Rice blast; Virulence gene.

MeSH terms

Fungal Proteins / genetics*
Fungal Proteins / metabolism
Genome, Fungal*
Magnaporthe / genetics*
Magnaporthe / pathogenicity
Oryza / microbiology
Polymorphism, Single Nucleotide
Virulence Factors / genetics*
Virulence Factors / metabolism

Substances

Fungal Proteins
Virulence Factors