Fine mapping of QTL qCTB10-2 that confers cold tolerance at the booting stage in rice
The QTL qCTB10 - 2 controlling cold tolerance at the booting stage in rice was delimited to a 132.5 kb region containing 17 candidate genes and 4 genes were cold-inducible.
Low temperature at the booting stage is a major abiotic stress-limiting rice production. Although some QTL for cold tolerance in rice have been reported, fine mapping of those QTL effective at the booting stage is few. Here, the near-isogenic line ZL31-2, selected from a BC7F2 population derived from a cross between cold-tolerant variety Kunmingxiaobaigu (KMXBG) and the cold-sensitive variety Towada, was used to map a QTL on chromosome 10 for cold tolerance at the booting stage. Using BC7F3 and BC7F4 populations, we firstly confirmed qCTB10-2 and gained confidence that it could be fine mapped. QTL qCTB10-2 explained 13.9 and 15.9% of the phenotypic variances in those two generations, respectively. Using homozygous recombinants screened from larger BC7F4 and BC7F5 populations, qCTB10-2 was delimited to a 132.5 kb region between markers RM25121 and MM0568. 17 putative predicted genes were located in the region and only 5 were predicted to encode expressed proteins. Expression patterns of these five genes demonstrated that, except for constant expression of LOC_Os10g11820, LOC_Os10g11730, LOC_Os10g11770, and LOC_Os10g11810 were highly induced by cold stress in ZL31-2 compared to Towada, while LOC_Os10g11750 showed little difference. Our results provide a basis for identifying the genes underlying qCTB10-2 and indicate that markers linked to the qCTB10-2 locus can be used to improve the cold tolerance of rice at the booting stage by marker-assisted selection.
We thank Robert A McIntosh (University of Sydney) for critical reading and suggested revisions to the manuscript. This work was supported by grants from Ministry of Science and Technology of China (2016YFD0100101, 2015BAD02B01 and 2013BAD01B02-15), National Natural Science Foundation of China (31471456, 31671649).
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Conflict of interest
The authors declare that they have no conflicts of interests.
- Abe N, Kotaka S, Toriyama K, Kobayashi M (1989) Development of the rice “Norin-PL 8” with high tolerance to cool temperature at the booting stage. Research Bulletin of the Hokkaido National Agricultural Experiment Station (Japan)Google Scholar
- Hayase H, Satake T, Nishiyama I, Ito N (1969) Male sterility caused by cooling treatment at the meiotic stage in rice plants: III. Male abnormalities at anthesis. Proc Crop Sci Soc Jpn 39:60–64Google Scholar
- Liu ZX, Deng HB (2009) Development of genetic and QTLs analysis for cold tolerance in rice. Chin Agric Sci Bull 16:013Google Scholar
- Sasaki T, Matsunaga K (1985) Inheritance and improvement of cold tolerance at booting stage in rice. I. Cold tolerance of rice cultivars; Yoneshiro, Todorokiwase and Koshihikari. Jpn J Breed 35:320–321Google Scholar
- Suh J, Jeung J, Lee J, Choi Y, Yea J, Virk P, Mackill D, Jena K (2010) Identification and analysis of QTLs controlling cold tolerance at the reproductive stage and validation of effective QTLs in cold-tolerant genotypes of rice (Oryza sativa L.). Theor Appl Genet 120:985–995CrossRefPubMedGoogle Scholar
- Wang JK, Li HH, Zhang LY, Meng L (2012) QTL IciMapping version 3.2. The Quantitative Genetics Group Institute of Crop Science Chinese Academy of Agricultural Sciences (CAAS) BeijingGoogle Scholar
- Yano M, Katayose Y, Ashikari M, Yamanouchi U, Monna L, Fuse T, Baba T, Yamamoto K, Umehara Y, Nagamura Y (2000) Hd1, a major photoperiod sensitivity quantitative trait locus in rice, is closely related to the Arabidopsis flowering time gene CONSTANS. Plant Cell 12:2473–2483CrossRefPubMedPubMedCentralGoogle Scholar
- Zeng YW, Li SC, Pu XY, Yang SM, Liu K, Gui M, Zhang H (2005) Ecological difference and correlation among cold tolerance traits at the booting stage for core collection of rice landrace in Yunnan, China. Zhongguo Shuidao Kexue 20:265–271Google Scholar