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Journal of Zhejiang University SCIENCE B

, Volume 11, Issue 12, pp 958–964 | Cite as

Quantitative trait loci analysis for rice seed vigor during the germination stage

Article

Abstract

Seed vigor is an important characteristic of seed quality, and rice cultivars with strong seed vigor are desirable in direct-sowing rice production for optimum stand establishment. In the present study, the quantitative trait loci (QTLs) of three traits for rice seed vigor during the germination stage, including germination rate, final germination percentage, and germination index, were investigated using one recombinant inbred line (RIL) population derived from a cross between japonica Daguandao and indica IR28, and using the multiple interval mapping (MIM) approach. The results show that indica rice presented stronger seed vigor during the germination stage than japonica rice. A total of ten QTLs, and at least five novel alleles, were detected to control rice seed vigor, and the amount of variation (R 2) explained by an individual QTL ranged from 7.5% to 68.5%, with three major QTLs with R 2>20%. Most of the QTLs detected here are likely to coincide with QTLs for seed weight, seed size, or seed dormancy, suggesting that the rice seed vigor might be correlated with seed weight, seed size, and seed dormancy. At least five QTLs are novel alleles with no previous reports of seed vigor genes in rice, and those major or minor QTLs could be used to significantly improve the seed vigor by marker-assisted selection (MAS) in rice.

Key words

Rice Recombinant inbred line (RIL) population Seed vigor Quantitative trait locus (QTL) Germination 

CLC number

Q94 

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References

  1. Al-Chaarani, G.R., Gentzbittel, L., Wedzony, M., Sarrafi, A., 2005. Identification of QTLs for germination and seedling development in sunflower (Helianthus annuus L.). Plant Sci., 169(1):221–227. [doi:10.1016/j.plantsci.2005.03.016]CrossRefGoogle Scholar
  2. Bai, X., Luo, L., Yan, W., Kovi, M.R., Zhan, W., Xing, Y., 2010. Genetic dissection of rice grain shape using a recombinant inbred line population derived from two contrasting parents and fine mapping a pleiotropic quantitative trait locus qGL7. BMC Genet., 11(1):16. [doi:10.1186/1471-2156-11-16]PubMedCrossRefGoogle Scholar
  3. Bethke, P.C., Libourel, I.G., Aoyama, N., Chung, Y.Y., Still, D.W., Jones, R.L., 2007. The Arabidopsis aleurone layer responds to nitric oxide, gibberellin, and abscisic acid and is sufficient and necessary for seed dormancy. Plant Physiol., 143(3):1173–1188. [doi:10.1104/pp.106.093435]PubMedCrossRefGoogle Scholar
  4. Cao, D.D., Jin, H., Huang, X.X., Wang, X.J., Guan, Y.J., Wang, Z.F., 2008. Relationships between changes of kernel nutritive components and seed vigor during development stages of F1 seeds of sh2 sweet corn. J. Zhejiang Univ.-Sci. B, 9(12):964–968. [doi:10.1631/jzus.B0820084]PubMedCrossRefGoogle Scholar
  5. Catusse, J., Job, C., Job, D., 2008. Transcriptome- and proteome-wide analyses of seed germination. C. R. Biol., 331(10): 815–822. [doi:10.1016/j.crvi.2008.07.023]PubMedCrossRefGoogle Scholar
  6. Churchill, G.A., Doerge, R.W., 1994. Empirical threshold values for quantitative trait mapping. Genetics, 138(3): 963–971.PubMedGoogle Scholar
  7. Clerkx, E.J., El-Lithy, M.E., Vierling, E., Ruys, G.J., Blankestijn-De Vries, H., Groot, S.P., Vreugdenhil, D., Koornneef, M., 2004. Analysis of natural allelic variation of Arabidopsis seed germination and seed longevity traits between the accessions Landsberg erecta and Shakdara, using a new recombinant inbred line population. Plant Physiol., 135(1):432–443. [doi:10.1104/pp.103.036814]PubMedCrossRefGoogle Scholar
  8. Cui, K., Peng, S., Xing, Y., Xu, C., Yu, S., Zhang, Q., 2002. Molecular dissection of seedling-vigor and associated physiological traits in rice. Theor. Appl. Genet., 105(5): 745–753. [doi:10.1007/s00122-002-0908-2]PubMedCrossRefGoogle Scholar
  9. Fait, A., Angelovici, R., Less, H., Ohad, I., Urbanczyk-Wochniak, E., Fernie, A.R., Galili, G., 2006. Arabidopsis seed development and germination is associated with temporally distinct metabolic switches. Plant Physiol., 142(3):839–854. [doi:10.1104/pp.106.086694]PubMedCrossRefGoogle Scholar
  10. Foolad, M.R., Lin, G.Y., Chen, F.Q., 1999. Comparison of QTLs for seed germination under non-stress, cold stress and salt stress in tomato. Plant Breed., 118(2):167–173. [doi:10.1046/j.1439-0523.1999.118002167.x]CrossRefGoogle Scholar
  11. Foolad, M.R., Zhang, L.P., Subbiah, P., 2003. Genetics of drought tolerance during seed germination in tomato: inheritance and QTL mapping. Genome, 46(4):536–545. [doi:10.1139/g03-035]PubMedCrossRefGoogle Scholar
  12. Foolad, M.R., Subbiah, P., Zhang, L., 2007. Common QTL affect the rate of tomato seed germination under different stress and nonstress conditions. Int. J. Plant Genomics, 2007:97386. [doi:10.1155/2007/97386]PubMedGoogle Scholar
  13. Fujino, K., Sekiguchi, H., Sato, T., Kiuchi, H., Nonoue, Y., Takeuchi, Y., Ando, T., Lin, S.Y., Yano, M., 2004. Mapping of quantitative trait loci controlling low-temperature germinability in rice (Oryza sativa L.). Theor. Appl. Genet., 108(5):794–799. [doi:10.1007/s00122-003-1509-4]PubMedCrossRefGoogle Scholar
  14. Fujino, K., Sekiguchi, H., Matsuda, Y., Sugimoto, K., Ono, K., Yano, M., 2008. Molecular identification of a major quantitative trait locus, qLTG3-1, controlling low-temperature germinability in rice. PNAS, 105(34):12623–12628. [doi:10.1073/pnas.0805303105]PubMedCrossRefGoogle Scholar
  15. Gu, X.Y., Kianian, S.F., Foley, M.E., 2004. Multiple loci and epistases control genetic variation for seed dormancy in weedy rice (Oryza sativa). Genetics, 166(3):1503–1516. [doi:10.1534/genetics.166.3.1503]PubMedCrossRefGoogle Scholar
  16. Hayashi, E., Aoyama, N., Still, D.W., 2008. Quantitative trait loci associated with lettuce seed germination under different temperature and light environments. Genome, 51(11):928–947. [doi:10.1139/G08-077]PubMedCrossRefGoogle Scholar
  17. Hund, A., Fracheboud, Y., Soldati, A., Frascaroli, E., Salvi, S., Stamp, P., 2004. QTL controlling root and shoot traits of maize seedlings under cold stress. Theor. Appl. Genet., 109(3):618–629. [doi:10.1007/s00122-004-1665-1]PubMedCrossRefGoogle Scholar
  18. Jiang, L., Liu, S., Hou, M., Tang, J., Chen, L., Zhai, H., Wan, J., 2006. Analysis of QTLs for seed low temperature germinability and anoxia germinability in rice (Oryza sativa L.). Field Crops Res., 98(1):68–75. [doi:10.1016/j.fcr. 2005.12.015]CrossRefGoogle Scholar
  19. Lander, E.S., Green, P., Abrahamson, J., Barlow, A., Daly, M.J., Lincoln, S.E., Newburg, L., 1987. MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics, 1(2):174–181. [doi:10.1016/0888-7543(87)90010-3]PubMedCrossRefGoogle Scholar
  20. Li, C., Zhou, A., Sang, T., 2006. Genetic analysis of rice domestication syndrome with the wild annual species, Oryza nivara. New Phytol., 170(1):185–194. [doi:10.1111/j.1469-8137.2005.01647.x]CrossRefGoogle Scholar
  21. Li, J.X., Yu, S.B., Xu, C.G., Tan, Y.F., Gao, Y.J., Li, X.H., Zhang, Q., 2000. Analyzing quantitative trait loci for yield using a vegetatively replicated F2 population from a cross between the parents of an elite rice hybrid. Theor. Appl. Genet., 101(1–2):248–254. [doi:10.1007/s001220051476]Google Scholar
  22. Mano, Y., Takeda, K., 1997. Mapping quantitative trait loci for salt tolerance at germination and the seedling stage in barley (Hordeum vulgare L.). Euphytica, 94(3):263–272. [doi:10.1023/A:1002968207362]CrossRefGoogle Scholar
  23. Marri, P.R., Sarla, N., Reddy, L.V., Siddiq, E.A., 2005. Identification and mapping of yield and yield related QTLs from an Indian accession of Oryza rufipogon. BMC Genet., 6(1):33. [doi:10.1186/1471-2156-6-33]PubMedCrossRefGoogle Scholar
  24. McCouch, S.R., Cho, Y.G., Yano, M., Paul, E., Blinstrub, M., Morishima, H., Kinoshita, T., 1997. Report on QTL nomenclature. Rice Genet. Newslett., 14:11–13.Google Scholar
  25. McDonald, M.B., 1994. The history of seed vigor testing. J. Seed Technol., 17:93–101.Google Scholar
  26. McKenzie, K.S., Rutger, J.N., Peterson, M.L., 1980. Relation of seedling vigor to semidwarfism, early maturity, and pubescence in closely related rice lines. Crop Sci., 20(2): 169–172. [doi:10.2135/cropsci1980.0011183X002000020005x]CrossRefGoogle Scholar
  27. McKenzie, K.S., Johnson, C.W., Tseng, S.T., Oster, J.J., Brandon, D.M., 1994. Breeding improved rice cultivars for temperate regions-a case study. Aust. J. Exp. Agric., 34(7):897–905. [doi:10.1071/EA9940897]CrossRefGoogle Scholar
  28. Miura, K., Lin, S., Yano, M., Nagamine, T., 2002. Mapping quantitative trait loci controlling seed longevity in rice (Oryza sativa L.). Theor. Appl. Genet., 104(6–7):981–986. [doi:10.1007/s00122-002-0872-x]PubMedGoogle Scholar
  29. Moncada, P., Martinez, C.P., Borrero, J., Châtel, M., Gauch, H., Guimaraes, E.P., Tohmé, J., McCouch, S.R., 2001. Quantitative trait loci for yield and yield components in an Oryza sativa×Oryza rufipogon BC2F2 population evaluated in an upland environment. Theor. Appl. Genet., 102(1):41–52. [doi:10.1007/s001220051616]CrossRefGoogle Scholar
  30. Sun, Q., Wang, J.H., Sun, B.Q., 2007. Advances on seed vigor physiological and genetic mechanisms. Agric. Sci. China, 6(9):1060–1066. [doi:10.1016/S1671-2927(07)60147-3]Google Scholar
  31. Wan, X.Y., Wan, J.M., Weng, J.F., Jiang, L., Bi, J.C., Wang, C.M., Zhai, H.Q., 2005. Stability of QTLs for rice grain dimension and endosperm chalkiness characteristics across eight environments. Theor. Appl. Genet., 110(7): 1334–1346. [doi:10.1007/s00122-005-1976-x]PubMedCrossRefGoogle Scholar
  32. Zhang, H.S., Hu, J., 2010. Seed Science. Science Press, Beijing, China, p.165–170 (in Chinese).Google Scholar
  33. Zhang, Z.H., Yu, S.B., Yu, T., 2005. Mapping quantitative trait loci (QTLs) for seedling-vigor using recombinant inbred lines of rice (Oryza sativa L.). Field Crops Res., 91(2–3): 161–170. [doi:10.1016/j.fcr.2004.06.004]CrossRefGoogle Scholar

Copyright information

© Zhejiang University and Springer-Verlag Berlin Heidelberg 2010

Authors and Affiliations

  1. 1.State Key Laboratory of Crop Genetics and Germplasm EnhancementNanjing Agricultural UniversityNanjingChina
  2. 2.Institute of Crop ScienceHenan Academy of Agricultural SciencesZhengzhouChina

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