OsGA20ox1, a candidate gene for a major QTL controlling seedling vigor in rice
- 1.3k Downloads
Seedling vigor is among the major determinants of stable stand establishment in direct-seeded rice (Oryza sativa L.) in temperate regions. Quantitative trait loci (QTL) for seedling vigor were identified using 250 recombinant inbred lines (RILs) derived from a cross between two japonica rice cultivars Kakehashi and Dunghan Shali. Seedling heights measured at 14 days after sowing were 20.3 and 29.4 cm for Kakehashi and Dunghan Shali, respectively. For the RILs, the height ranged from 14.1 to 31.7 cm. Four putative QTLs associated with seedling height were detected. qPHS3-2, the major QTL that was located on the long arm of chromosome 3, accounted for 26.2 % of the phenotypic variance. Using progeny of the near isogenic lines (NILs) produced by the backcross introduction of a chromosome segment carrying this major QTL into an elite cultivar Iwatekko, we fine-mapped qPHS3-2 to a 81-kb interval between two markers, ID_CAPS_01 and RM16227. Within this mapped region, we identified the gene OsGA20ox1, which is related to gibberellin (GA) biosynthesis. The relative expression levels of GA20ox1 in seedlings of Dunghan Shali and NILs were higher than that of Iwatekko. Concomitantly, the amount of endogenous active GA was higher in Dunghan Shali and the NILs compared to the level detected in Iwatekko. These results indicate that OsGA20ox1 is a strong candidate gene for major QTL controlling seedling vigor in rice.
KeywordsQuantitative Trait Locus Simple Sequence Repeat Marker Quantitative Trait Locus Analysis Segregation Distortion Major Quantitative Trait Locus
We thank Yutaka Kiuchi, Tsutomu Sasaki and Hitoshi Hatakeyama for general support of the work. We are also grateful to the following staffs for technical support: N. Kikuchi, E. Kanzaki, J. Tokuta, A. Yamaguchi, Y. Ogasawara, K. Itoh and Y. Ochiai. Our gratitude extends to Muluneh Tamiru for improvement of the manuscript. We thank the NIAS Genebank, Japan for providing the seeds of Dunghan Shali. This work was supported by the Program for Promotion of Basic and Applied Researches for Innovations in Bio-oriented Industry (PRO-BRAIN) and by Japan Advanced Plant Science Network.
- Ashikari M, Sasaki A, Ueguchi-Tanaka M, Itoh H, Nishimura A, Datta S, Ishiyama K, Saito T, Kobayashi M, Khush GS, Kitano H, Matsuoka M (2002) Loss-of-function of a rice gibberellin biosynthetic gene, GA20 oxidase (GA20ox-2), led to the rice ‘Green Revolution’. Breed Sci 52:143–150CrossRefGoogle Scholar
- Basten CJ, Weir BS, Zeng ZB (2005) QTL cartographer, version 1.17. North Carolina State University, Raleigh, p 189Google Scholar
- Kojima M, Kamada-Nobusada T, Komatsu H, Takei K, Kuroha T, Mizutani M, Ashikari M, Ueguchi-Tanaka M, Matsuoka M, Suzuki K, Sakakibara H (2009) Highly sensitive and high-throughput analysis of plant hormones using MS-probe modification and liquid chromatography-tandem mass spectrometry: an application for hormone profiling in Oryza sativa. Plant Cell Physiol 50:1201–1214PubMedCrossRefGoogle Scholar
- Matsubara K, Kono I, Hori K, Nonoue Y, Ono N, Shomura A, Mizubayashi T, Yamamoto S, Yamanouchi U, Shirasawa K, Nishio T, Yano M (2008) Novel QTLs for photoperiodic flowering revealed by using reciprocal backcross inbred lines from crosses between japonica rice cultivars. Theor Appl Genet 117:935–945PubMedCrossRefGoogle Scholar
- McCouch SR, Teytelman L, Xu Y, Lobos KB, Clare K, Walton M, Fu B, Maghirang R, Li Z, Xing Y, Zhang Q, Kono I, Yano M, Fjellstrom R, DeClerck G, Schneider D, Cartinhour S, Ware D, Stein L (2002) Development and mapping of 2,240 new SSR markers for rice (Oryza sativa L.). DNA Res 9:199–207PubMedCrossRefGoogle Scholar
- Ohyanagi H, Tanaka T, Sasaki H, Shigemoto Y, Yamaguchi K, Habara T, Fujii Y, Antonio BA, Nagamura Y, Imanishi T, Ikeo K, Itoh T, Gojobori T, Sasaki T (2006) The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information. Nucleic Acids Res 34:D741–D744PubMedCrossRefGoogle Scholar
- Peterson ML, Jones DB, Rutger JN (1978) Cool temperature screening of rice lines for seedling vigor. Riso 27:269–274Google Scholar
- Sasahara T, Ikarashi K, Kambayashi M (1986) Genetic variations in embryo and endosperm weights, seedling growth parameters and alpha-amylase activity of the germinated grains in rice (Oryza sativa L.). Jpn J Breed 36:248–261Google Scholar
- Yano K, Takashi T, Nagamatsu S, Kojima M, Sakakibara H, Kitano H, Matsuoka M, Aya K (2012) Efficacy of microarray profiling data combined with QTL mapping for the identification of a QTL gene controlling the initial growth rate in rice. Plant Cell Physiol. doi: 10.1093/pcp/pcs027