Fine Location of the S-5 Locus Responsible for Wide Compatibility in Rice Using SSR Markers

Abstract

Partial abortion of gametes possessing S-5j in S-5i/S-5j genotype at locus S-5 is responsible for hybrid sterility between indica and japonica subspecies in rice (Oryza sativa L.), while a single wide compatibility (WC) allele S-5n can restore normal hybrid fertility between the two groups. In this study, Pei’ai 64S, one of the most popular WC line widely used for subspecific hybrid rice breeding program in South China was studied for location of its S-5 locus. Twenty SSR (Simple Sequence Repeat) markers derived from Cornell SSR linkage map and 9 developed using sequences from GenBank database were employed to perform bulked segregant analysis of the mapping population derived from a three-way cross (Pei’ai 64S/T8//Akihikari) to tag fine location of the hybrid sterility locus, S-5. This S-5 locus was mapped on chromosome 6 approximately 0.2 cM from GXR6 and RM276 SSR markers. This tight linkage of the markers and the S-5 locus would be very useful for efficient marker-assisted selection for WC varieties and for map-based cloning of the gene.

References

  1. Allard, R.W. 1956. Formulas and tables to facilitate the calculation of recombination values in heredity. Hilgardia 24:235–278.

    Article  Google Scholar 

  2. Bai, D.L., Luo, X.H. 1995. The combination and exploitation of new two-line rice hybrid, Liangyou Peite. Hunan Agr. Sci. 6:6–8.

    Google Scholar 

  3. Ikehashi, H., Araki, H. 1984. Variety screening of compatibility types revealed in F1 fertility of distant cross in rice. Jpn. J. Breed. 34:304–313.

    Article  Google Scholar 

  4. Ikehashi, H., Araki, H. 1986. Genetics of F1 sterility in remote crosses of rice. In: Khush, G.S. (ed.), Rice Genetics. IRRI, P.O. Box 933, Manila, Philippines, pp. 119–130.

    Google Scholar 

  5. Ikehashi, H., Araki, H., Yanagihara, S. 1991. Screening and analysis of wide compatibility loci in wide crosses of rice. In: Khush, G.S. (ed.), Rice Genetics II, 33–43. IRRI, P.O. Box 933, Manila, Philippines.

    Google Scholar 

  6. Ikehashi, H., Wan, J. 1998. The wide compatibility system: current knowledge of its genetics and use for enhanced yield heterosis. In: Vermani, S.S., Siddiq, E.A., Muralidharan, K. (eds), Advances in Hybrid Rice Technology. IRRI, Manila, Philippines, pp. 67–77.

    Google Scholar 

  7. Li, H., Tang, L., Zou, J. 1991. Marker-based analysis of wide compatibility in rice (in Chinese). Hybrid Rice 4:22–24.

    Google Scholar 

  8. Liu, A., Zhang, Q., Li, H. 1992. Location of a gene for wide-compatibility in the RFLP linkage map. Rice Genet. Newsl. 9:134–136.

    Google Scholar 

  9. McCouch, S.R., Teytelman, L., Xu, Y., Lobos, K.B., 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. 2002a. Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.). DNA Research 9:199–207.

    CAS  Article  Google Scholar 

  10. McCouch, S.R., Teytelman, L., Xu, Y., Lobos, K.B., 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. 2002b. Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.) (Supplement). DNA Research 9 Suppl.: 257–279.

    CAS  Article  Google Scholar 

  11. Michelmore, R.W., Paran, I., Kesseli, R.V. 1991. Identification of markers linked to disease resistance genes by bulked segregant analysis: a rapid method to detect markers in specific genomic regions by using segregating populations. Proc. Natl. Acad. Sci. USA 88:9828–9832.

    CAS  Article  Google Scholar 

  12. Murray, M.G., Thompson, W.F. 1980. Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res. 8:4321–4325.

    CAS  Article  Google Scholar 

  13. Panaud, O., Chen, X., McCouch, S.R. 1996. Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.). Mol. Gen. Genet. 252:597–607.

    CAS  PubMed  Google Scholar 

  14. Wan, J., Yanagihara, S., Kato, H., Ikehashi, H. 1993. Multiple alleles at a new locus causing hybrid sterility between a Korean Indica variety and a Javanica variety in rice (Oryza sativa L.). Jpn. J. Breed. 43:507–516.

    Article  Google Scholar 

  15. Wan, J., Ikehashi, H. 1995a. Identification of a new locus S-16 causing hybrid sterility in native rice varieties (Oryza sativa L.) from Tai-hu lake region and Yunnan Province, China. Breed. Sci. 45,:461–470.

    Google Scholar 

  16. Wan, J., Ikehashi, H. 1995b. A new locus hybrid sterility in remote crosses of cultivated rice (Oryza sativa L.) 6. Breed. Sci. 45, Suppl. 2: 191.

    Google Scholar 

  17. Wan, J., Yanagihara, S., Kato, H., Ikehashi, H. 1996. Two new loci for hybrid sterility in rice (Oryza sativa L.). Theor. Appl. Genet. 92:83–90.

    Article  Google Scholar 

  18. Wang, Z.Y., Tanksley, S.T. 1989. Restriction fragment length polymorphism in Oryza sativa L. Genome 32:1113–1118.

    CAS  Article  Google Scholar 

  19. Wu, K.S., Tanksley, S.D. 1993. Abundance, polymorphism and genetic mapping of microsatellite in rice. Mol. Gen. Genet. 241:225–235.

    CAS  Article  Google Scholar 

  20. Yanagihara, S., Kato, H., Ikehashi, H. 1992. A new locus for multiple alleles causing hybrid sterility between an Aus variety and Javanica varieties in rice (Oryza sativa L.) Japan. J. Breed. 42:793–801.

    Article  Google Scholar 

  21. Yanagihara, S., McCouch, S. R., Ishikawa, K., Ogi, Y., Maruyama, K., Ikehashi, H. 1995. Molecular analysis of the inheritance of the S-5 locus, conferring wide compatibility in indica/japonica hybrids rice (O. sativa L.). Theor. Appl. Genet. 90:182–188.

    CAS  Article  Google Scholar 

  22. Yuan, L.P. 1992. The strategy of the development of hybrid rice breeding. In: Yuan, L.P. (ed.), Current Status of Two Line Hybrid Rice Research. Agricultural Publishing LTD, Beijing, pp. 1–5.

    Google Scholar 

  23. Zheng, K., Shen, P., Qing, H., Wang, J. 1992. Tagging genes for wide compatibility in rice via linkage to SSR markers. Chinese J. Rice Sci. 6:145–150.

    Google Scholar 

  24. Zou, J., Nie, Y., Pan, Q., Fu, C. 1992. The tentative utilization of wide compatibility strain 02428 in indica/Japonica hybrid rice. In: Yuan, L.P. (ed.), Current Status of Two Line Hybrid Rice Research. Agricultural Publishing LTD, Beijing, pp. 333–339.

    Google Scholar 

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Correspondence to R. B. Li.

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Zhang, X.J., Chen, Y.Z., Wei, Y.P. et al. Fine Location of the S-5 Locus Responsible for Wide Compatibility in Rice Using SSR Markers. CEREAL RESEARCH COMMUNICATIONS 35, 1–10 (2007). https://doi.org/10.1556/CRC.35.2007.1.1

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Keywords

  • hybrid sterility
  • Oryza sativa
  • SSR marker
  • wide compatibility