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- Title
Mapping of a major quantitative trait locus for bakanae disease resistance in rice by genome resequencing.
- Authors
Ji, Hyeonso; Kim, Tae-Ho; Lee, Gang-Seob; Kang, Hyun-Ju; Lee, Seung-Bum; Suh, Seok Cheol; Kim, Song Lim; Choi, Inchan; Baek, Jeongho; Kim, Kyung-Hwan
- Abstract
Bakanae disease (BD) has emerged as a serious threat in almost all rice cultivation regions worldwide. Nampyeong is a Korean japonica rice variety known to be resistant to BD. In this study, quantitative trait locus (QTL) mapping was performed with F2 and F3 plants derived from a cross between the Nampyeong variety and a susceptible Korean japonica line, DongjinAD. First, resequencing of Nampyeong and DongjinAD was performed, which identified 171,035 single nucleotide polymorphisms (SNPs) between the two parental varieties. Using these SNPs, 161 cleaved amplified polymorphic sequence (CAPS) markers and six derived CAPS markers were developed; then, a genetic map was constructed from the genotypes of 180 plants from the DongjinAD/Nampyeong F2 plants. The total length of the constructed genetic map was 1386 cM, with an average interval of 8.9 cM between markers. The BD mortality rates of each F3 family were measured by testing 40 F3 progenies using in vitro seedling screening method. QTL analysis based on the genetic map and mortality rate data revealed a major QTL, <italic>qFfR1</italic>, on rice chromosome 1. <italic>qFfR1</italic> was located at 89.8 cM with a logarithm of the odds (LOD) score of 22.7. Further, there were three markers at this point: <italic>JNS01033, JNS01037</italic>, and <italic>JNS01041</italic>. A total of 15 genes were identified with annotations related to defense against plant diseases among the 179 genes in the <italic>qFfR1</italic> interval at 95% probability, thereby providing potential candidate genes for <italic>qFfR1. qFfR1</italic> and its closely linked markers will be useful in breeding rice varieties resistant to BD.
- Subjects
SINGLE nucleotide polymorphisms; RICE diseases &; pests; GENETIC transcription in plants; PLANT defenses; RICE breeding
- Publication
Molecular Genetics & Genomics, 2018, Vol 293, Issue 3, p579
- ISSN
1617-4615
- Publication type
Article
- DOI
10.1007/s00438-017-1407-0