Detection of quantitative trait loci controlling extremely early heading in rice
- 440 Downloads
To clarify the genetic basis of extremely early heading in rice, we conducted quantitative trait locus (QTL) analyses using F2 populations from two genetically wide cross combinations, Hayamasari/Kasalath (HaF2) and Hoshinoyume/Kasalath (HoF2). Hayamasari and Hoshinoyume are extremely early-heading japonica cultivars. Photoperiod sensitivity is completely lost in Hayamasari and weak in Hoshinoyume. Three QTLs, QTL(chr6), QTL(chr7), and QTL(chr8), for days-to-heading (DTH) in HaF2 were detected on chromosomes 6, 7, and 8, respectively, and QTL(chr6) and QTL(chr7) were detected in HoF2. On the basis of the chromosomal locations, QTL(chr6), QTL(chr7), and QTL(chr8) may be likely to be Hd1, Hd4, and Hd5, respectively, which had been detected previously as QTLs for DTH in an F2 population of Nipponbare × Kasalath. Alleles of QTL(chr7) decreased DTH dramatically in both Hayamasari and Hoshinoyume, suggesting that QTL(chr7) has a major role in determining extremely early heading. In addition, allele-specific interactions were detected between QTL(chr6), QTL(chr7) and QTL(chr8). This result suggests that not only allelic differences but also epistatic interactions contribute to extremely early heading. QTL(chr8) was detected in HaF2, but not in HoF2, suggesting that it determines the difference in DTH between Hayamasari and Hoshinoyume. A major QTL was also detected in the region of QTL(chr8) in QTL analysis using an F2 population of Hayamasari × Hoshinoyume. This result supports the idea that QTL(chr8) is a major factor that determines the difference in DTH between Hayamasari and Hoshinoyume, and is involved in photoperiod sensitivity.
KeywordsQuantitative Trait Locus Quantitative Trait Locus Analysis Quantitative Trait Locus Mapping Epistatic Interaction Photoperiod Sensitivity
We thank Dr. Harumi Kikuchi, Hokkaido Central Agricultural Experiment Station, for providing seeds of Hoshinoyume and Hayamasari. This work was supported by the Agri-Bio Project (IP-1001) of the Ministry of Agriculture, Forestry and Fisheries of Japan.
- Basten CJ, Weir BS, Zeng ZB (2005) QTL cartographer, ver. 1.17. Department of Statistics, North Carolina State University, RaleighGoogle Scholar
- Harushima Y, Yano M, Shomura A, Sato M, Shimano T, Kuboki Y, Yamamoto T, Lin SY, Antonio BA, Parco A, Kajiya H, Huang N, Yamamoto K, Nagamura Y, Kurata N, Khush GS, Sasaki T (1998) A high-density rice genetic linkage map with 2,275 markers using a single F2 population. Genetics 148:479–494PubMedGoogle Scholar
- Ichitani K, Okumoto Y, Tanisaka T (1997) Photoperiod sensitivity gene of Se-1 locus in photoperiod insensitive rice cultivars of the northern limit region of rice cultivation. Breed Sci 47:145–152Google Scholar
- Ichitani K, Okumoto Y, Tanisaka T (1998b) Genetic analyses of the rice cultivar Kasalath with special reference to two photoperiod sensitivity loci, E1 and Se-1. Breed Sci 48:51–57Google Scholar
- Kurata N, Nagamura Y, Yamamoto K, Harushima Y, Sue N, Wu J, Antonio BA, Shomura A, Shimizu T, Lin SY, Inoue T, Fukuda A, Shimano T, Kuboki Y, Toyama T, Miyamoto Y, Kirihara T, Hayasaka H, Miyao A, Monna L, Zhong HS, Tamura Y, Wang ZX, Momma T, Umehara Y, Yano M, Sasaki T, Minobe Y (1994) A 300-kilobase-interval genetic map of rice including 883 expressed sequences. Nature Genet 8:365–372CrossRefPubMedGoogle Scholar
- Rice Genome Research Program (2007) The latest high-density rice genetic map, including 3,267 markers. http://rgp.dna.affrc.go.jp/publicdata/geneticmap2000/index.html
- Yano M, Katayose Y, Ashikari M, Yamanouchi U, Monna L, Fuse T, Baba T, Yamamoto K, Umehara Y, Nagamura Y, Sasaki T (2000) Hd1, a major photoperiod sensitivity quantitative trait locus in rice, is closely related to the Arabidopsis flowering time gene CONSTANS. Plant Cell 12:2473–2484CrossRefPubMedGoogle Scholar