Identification of QTL for seed dormancy from weedy rice and its application to elite rice cultivar ‘Ninggeng 4’
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Seed dormancy is a complex agronomic trait that is not only controlled by genetics but also influenced by environmental conditions. Novel seed dormancy genes could improve rice yield and quality by preventing losses due to pre-harvest sprouting (PHS). Although there have been many reported studies related to seed dormancy in rice, little is known about seed dormancy genes derived from weedy rice. We used a weedy rice line ‘Ludao’ (with strong seed dormancy) as the donor parent and elite japonica variety ‘Ninggeng 4’ (with weak seed dormancy) as a recurrent parent for backcrossing. A BC4F2 population was developed for gene mapping, and germination percentage was used as the phenotype. Four quantitative trait loci (QTLs), qSdr7-1, qSdr7-2, qSdr7-3, and qSdr7-4, were identified on chromosome 7. Seed dormancy alleles of the QTLs were all derived from ‘Ludao.’ Located between markers RM21103 and RM5672, qSdr7-2 had the largest effect and explained 27.2% of the phenotypic variation with a LOD score of 14.5. Based on the closest linked marker for locus qSdr7-2, we developed near-isogenic lines (NILs) with the qSdr7-2 allele from ‘Ludao’ in ‘Ninggeng 4’ background. The qSdr7-2-NILs, which have strong seed dormancy and elite agronomic traits, should be useful as a parent in breeding for PHS resistance.
KeywordsFine mapping Near-isogenic line Pre-harvest sprouting QTL Oryza sativa
analysis of variance
logarithm of odds
quantitative trait locus
polymerase chain reaction
phenotypic variance explained
single nucleotide polymorphism
simple sequence repeat
National Center for Biotechnology Information
Rice Annotation Project Database
We gratefully acknowledge support from the Key Laboratory of Biology, Genetics and Breeding of Japonica Rice in Mid-Lower Yangtze River, Ministry of Agriculture, P. R. China, and Jiangsu Collaborative Innovation Center for Modern Crop Production.
NTL, JL, and WJM conceived and designed the experiments. NTL, ZJL, ZTY, YJF, MR, HYS, ZXJ, SWH, LX, MCL, LJ, and ZZG performed the experiments and analyzed the data. LSJ and TYL were responsible for material plant and field management. NTL wrote the manuscript. JL and WJM revised the manuscript. All authors read and approved the manuscript.
This research was supported by the grants from the National Transformation Science and Technology Program (2016ZX08001006), the National Key Research and Development Program of China (2016YFD0100101-08), the National Natural Science Foundation of China (31871712), the Jiangsu Science and Technology Development Program (BE2018388), and the Project for Major New Varieties of Agriculture in Jiangsu Province (PZCZ201701).
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The authors declare that they have no competing interests.
- Black M, Bewley JD, Halmer P (2006) Preharvest sprouting – economic importance. In The Encyclopedia of Seeds Science, Technology and Uses. CABI, Wallingford, Oxfordshire, UK, pp 528Google Scholar
- Gu XY, Foley ME, Horvath DP, Anderson JV, Feng J, Zhang L, Mowry CR, Ye H, Suttle JC, Kadowaki K, Chen Z (2011) Association between seed dormancy and pericarp color is controlled by a pleiotropic gene that regulates ABA and flavonoid synthesis in weedy red rice. Genetics 189:1515–1524CrossRefGoogle Scholar
- Hu WM, Ma HS, Fan LJ, Ruan SL (2003) Characteristics of pre-harvest sprouting in sterile lines in hybrid rice seeds production. Acta Agron Sin 29:441–446 (in Chinese)Google Scholar
- Jiang H, Wu JL, Wang GL (1985) Studies on Ludao of Lianyungang. Crop Genetic Res 2:4–7Google Scholar
- Jing W, Jiang L, Zhang WW, Zhai HQ, Wan JM (2008) Mapping QTL for seed dormancy in weedy rice. Acta Agron Sin 34:737–742Google Scholar
- Mortimer M, Pandey S, Piggin C (2000) Weedy rice: approaches to ecological appraisal and implications for research priorities. In: Baki BB, Chin DV, Mortimer M (eds) Proceedings of wild and weedy rice in rice ecosystems in Asia–a review. Limited Proceedings No. 2. International Rice Research Institute, Los Banos, pp 97–105Google Scholar
- Oka HI (1958) Intervarietal variation and classification of cultivated rice. Indian J Genet Plant Breed 18:79–89Google Scholar
- Tang LH, Morishima H (1988) Characteristics of weed rice strains. Rice Genet Newsl 5:70–72Google Scholar