QTL-Seq Approach Identified Pi63 Conferring Blast Resistance at the Seedling and Tillering Stages of Thai Indigenous Rice Variety “Phaladum”

Chaiwat Netpakdee, Sittiwut Mathasiripakorn, Arthit Sribunrueang, Sompong Chankaew, Tidarat Monkham, Siwaret Arikit and Jirawat Sanitchon ()
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Chaiwat Netpakdee: Department of Agronomy, Faculty of Agriculture, Khon Kaen University, Khon Kaen 40002, Thailand
Sittiwut Mathasiripakorn: Department of Agronomy, Faculty of Agriculture, Khon Kaen University, Khon Kaen 40002, Thailand
Arthit Sribunrueang: Department of Agronomy, Faculty of Agriculture, Khon Kaen University, Khon Kaen 40002, Thailand
Sompong Chankaew: Department of Agronomy, Faculty of Agriculture, Khon Kaen University, Khon Kaen 40002, Thailand
Tidarat Monkham: Department of Agronomy, Faculty of Agriculture, Khon Kaen University, Khon Kaen 40002, Thailand
Siwaret Arikit: Department of Agronomy, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Kamphaeng Saen, Nakhon Pathom 73140, Thailand
Jirawat Sanitchon: Department of Agronomy, Faculty of Agriculture, Khon Kaen University, Khon Kaen 40002, Thailand

Agriculture, 2022, vol. 12, issue 8, 1-14

Abstract: Rice blast (BL) caused by Magnaporthe oryzae is a fungal disease causing significant yield losses in rice production worldwide. To overcome the breakdown of resistance by the rapid adaptation of pathogens, identifying resistance ( R ) genes or QTLs in indigenous rice, which harbors the R genes that co-evolved with the local pathogen race, is necessary. In this study, a recombinant inbred line (RIL) population derived from a cross between RD6 and Phaladum (PLD) was used to map quantitative trait loci (QTL) for BL resistance through a QTL-seq approach. A single QTL ( qBLchr4 ) associated with BL resistance at the seedling and maximum tillering stages was mapped on the long arm of chromosome 4. Five genes, LOC_Os04g0616600, LOC_Os04g0617900 (OsGLP4-1), LOC_Os04g0619600 (OsRLCK161), LOC_Os04g0620800 (Pi63), and LOC_Os04g0621500 , were considered the candidate genes representing qBLchr4 . Subsequently, the Kompetitive Allele-Specific PCR (KASP) markers specific for the SNP variant and position of each gene were designed for validation in the mapping population. These markers showed the high phenotypic variance explained (PVE) values in all testing methods and/or environments, signifying the major effect of qBLchr4 . Among these markers, the Pi63 -KASP marker explained the highest and most stable phenotypic variation across all testing methods and/or environments, with 84.18%, 80.34%, and 23.43% in the upland short row (USR) method, Sila environment, and Mueang environment, respectively. Therefore, Pi63 was suggested to be the strongest candidate gene. These results represent the potential utility of future BL resistance breeding and/or pyramiding using marker-assisted selection (MAS).

Keywords: multiple-stage resistance; rice germplasm; rapid generation advance; upland short row; SNP index (search for similar items in EconPapers)
JEL-codes: Q1 Q10 Q11 Q12 Q13 Q14 Q15 Q16 Q17 Q18 (search for similar items in EconPapers)
Date: 2022
References: View references in EconPapers View complete reference list from CitEc
Citations: View citations in EconPapers (1)

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