Genome Wide Association Study (GWAS) for Southern Corn Rust (SCR) Disease Resistance in Maize

Authors

  • Nay Nay Oo Doctor of Philosophy Program in Agricultural Sciences, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Kamphaeng Saen campus, Nakhon Pathom 73140, Thailand.
  • Vinitchan Ruanjaichon National Center for Genetic Engineering and Biotechnology (BIOTEC), 632113 Thailand Science Park, Phahonyothin Road, Khlong Nueng, Khlong Luang, Pathum Thani 12120, Thailand
  • Kularb Laosatit Department of Agronomy, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand.
  • Theerayut Toojinda National Center for Genetic Engineering and Biotechnology (BIOTEC), 632113 Thailand Science Park, Phahonyothin Road, Khlong Nueng, Khlong Luang, Pathum Thani 12120, Thailand
  • Jintana Unartngam Department of Plant Pathology, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Kam-phaeng Saen campus, Nakhon Pathom 73140, Thailand.

DOI:

https://doi.org/10.14456/thaidoa-agres.2024.7

Keywords:

Genome-wide association study (GWAS), Puccinia polysora, Southern corn rust (SCR), single nucleotide polymorphosim (SNP) genotyping array

Abstract

Southern corn rust (SCR), caused by Puccinia polysora Undrew, is one of the most important maize diseases threatening maize production. Growing resistant varieties is the most practical and cost-effective approach to controlling the disease. Identification of resistance genes would help in the development of high-yielding resistant maize hybrids. Genome-wide association studies (GWAS) can efficiently reveal genomic loci associated with the desired phenotypic traits. In this study, the phenotypes of 262 maize recombinant inbreds against two isolates of SCR disease, namely, Nakhon Pathom and Chiang Mai, were investigated. Using 434,871 single nucleotide polymorphism (SNP) markers obtained from the maize SNP 600K genotyping array, GWAS was performed with the Fixed and random model Circulating Probability Unification (FarmCPU) model. The results showed that 19 SNPs distributed on chromosomes 1, 2, 3, 4, 5, 9 and 10 were significantly associated with resistance to SCR disease. As a result, 19 quantitative trait loci (QTL)s and 36 candidate genes were identified. In addition, the three major QTLs/SNP loci which included AX-90915192 on chromosome 4, AX-91151225 on chromosome 9 and AX-91648757 on chromosome 5, could distinguish the disease-resistant from disease-susceptible lines. These identified SNPs and genes provide useful information for cloning genes and understanding disease resistance mechanisms to SCR, and can be used in marker-assisted breeding programs to develop SCR resistant maize.

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Published

2024-04-29

How to Cite

Oo, N. N., Ruanjaichon, V., Laosatit, K., Toojinda, T., & Unartngam, J. (2024). Genome Wide Association Study (GWAS) for Southern Corn Rust (SCR) Disease Resistance in Maize. Thai Agricultural Research Journal, 42(1), 71–85. https://doi.org/10.14456/thaidoa-agres.2024.7

Issue

Vol. 42 No. 1 (2024): January - April

Section

Technical or research paper

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