Molecular Marker based Genetic Diversity Analysis in Rice (Oryza sativa L.) using RAPD and SSR markers

Euphytica

Volumn 133, Issue 2, 2003, Pages 243-252

  Ravi, M ^a   Geethanjali, S ^a   Sameeyafarheen, F ^a   Maheswaran, M ^a  

^a TAMIL NADU AGRICULTURAL UNIVERSITY   (India)

Author keywords

Genetic diversity; Molecular markers; Oryza sativa; RAPD; SSR

Indexed keywords

EMBRYOPHYTA; ORYZA SATIVA;

EID: 0141503284     PISSN: 00142336     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1025513111279     Document Type: Article

References (33)

1. Akagi, H., Y. Yokozeki, A. Inagaki & T. Fujimura, 1997. Highly polymorphic microsatellites of rice consist of AT repeats, and a classification of closely related cultivars with these microsatellite loci. Theor Appl Genet 94: 61-67.
2. Bligh, H.F.J., 2000. Detection of adulteration of Basmati rice with non-premium long grain rice. Int J Food Sci & Technol 35: 257-265.
3. Chen, X., S. Temnykh, Y. Xu. Y.G. Cho & S.R. McCouch. 1997. Development of a microsatellite framework map providing genome-wide coverage in rice (Oryza sativa L.). Theor Appl Genet 95: 553-567.
4. Duwick, D.N., 1984. Genetic diversity in major farm crops on the farm and reserve. Econ Bot 32: 161-178.
5. Fukuoka, S., K. Hosaka & O. Kamijima, 1992. Use of random amplified polymorphic DNA (RAPD) for identification of rice accessions. Japan J Genet 67: 247-252.
6. Garland, S.H., L. Lewinm M. Abedinia, R. Henry & A. Blakeney, 1999. The use of microsatellite polymorphisms for the identification of Australian breeding lines of rice (Oryza sativa L.). Euphytica 108: 53-63.
7. Ge Song, G., C.X. Oliveria, B.A. Schaal, G.L. Zhi & H.D. Yuan, 1999. RAPD variation within and between natural populations of the wild rice Oiyza rufipogon from China and Brazil. Heredity 82: 638-644.
8. Liu, X.C & J.L. Wu, 1998. SSR heterogenic patterns of parents for making and predicting heterosis in rice breeding. Mol Breed 4: 263-268.
9. Mackill, D.J., Z. Zhang, E.D. Redona & P.M. Colowit, 1996. Level of polymorphism and genetic mapping of AFLP markers in rice. Genome 39: 969-977.
10. Mantel, N., 1967. The detection of disease clustering and a generalized repression approach. Cancer Res 27: 209-220.
11. McCouch, S.R., G. Kochert, Z.H. Yu, Z.Y. Wang, G.S. Khush, W.R. Coffman & S.D. Tanksley, 1988. Molecular mapping of rice chromosomes. Theor Appl Genet 76: 815-829.
12. McCouch, S.R., X. Chen, O. Panaud, S. Temnykh, Y. Xu, Y.G. Cho, N. Huang, T. Ishii & M. Blair, 1997. Microsatellite marker development, mapping and applications in rice genetics and breeding. Plant Mol Biol 35: 89-99.
13. McCouch, S.R., L. Teytelman, Y. Xu, K.B. Lobos, K. Clare, M. Walton, B. Fu, R. Maghirang, Z. Li, Y. Xing, Q. Zhang, I. Kono, M. Yano, R. Fjellstrom, G. DeClerck, D. Schneider, S. Cartinhour, D. Ware & L. Stein, 2002. Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.). DNA Res 9: 257-279.
14. Melchinger, A.E., M. Messmer, M. Lee, W.L. Woodman & K.R. Lamkey, 1991. Diversity and relationships among U.S. maize inbreds revealed by restriction fragment length polymorphisms. Crop Sci 31: 669-678.
15. Nei, M., 1973. Analysis of gene diversity in subdivided populations. Proc Natl Acad Sci USA 70: 3321-3323.
16. Ohtsubo, K., T. Fujii, Y. Hashino, H. Toyoshima, H. Okadome, S. Nakamura, T. Fuse & S. Kawasaki, 1999a. Identification of domestic rice cultivars by RAPD method using milled rice grains as samples. J Jap Soc Food Sci Tech 46: 117-122.
17. Ohtsubo, K., S. Nakamura, H. Morooka, T. Fujii, T. Fuse & S. Kawasaki, 1999b. Identification of domestic rice cultivars by RAPD method using a single grain of cooked rice as a sample. J Jap Soc Food Sci Tech 46: 262-267.
18. Olufowote, J.O., Y. Xu, X. Chen, W.O. Park, H.M. Beachell, R.H. Dilday, M. Goto & S.R. McCouch, 1997. Comparative evaluation of within-cultivar variation or rice (Oryza sativa L.) using microsatellite and RFLP markers. Genome 40: 370-378.
19. Panaud, O., X.L. Chen & S.R. McCouch, 1996. Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.). Mol Gen Genet 252: 597-607.
20. Provan, J., G. Corbett, J.W. McNiol & W. Powell, 1997. Chloroplast DNA variability in wild and cultivated rice (Oryza spp.) revealed by polymorphic chloroplast simple sequence repeats. Genome 40: 104-110.
21. Ravi, M., 2000. Molecular marker based varietal profiling and monitoring in rice (Oryza sativa L.). Thesis submitted to the Tamil Nadu Agricultural University, Coimbatore, India, 85 p.
22. Qiang, W., L.L. Jie, Y.D. Chang, H.G. Cun & S.L. Hui, 1998. RAPD analysis of wild rice genomes. J Trop Subtrop Bot 6: 260-266.
23. Rohlf, F.J., 1994. NTSYS-PC: Numerical Taxonomy and Multivariate Analysis System Version 2.2. State University of New York, Stony Brook N.Y.
24. Temnykh, S., W.D. Park, N. Ayres, S. Cartinhour, N. Hauck, L. Lipovich, Y.G. Cho, T. Ishii & S.R. McCouch, 2000. Mapping and genome organization of microsatellite sequences in rice. Theor Appl Genet 100: 697-712.
25. Virk, P.S., J. Zhu, H.J. Newbury, G.J. Bryan, M.T. Jackson & B.V. Ford-Lloyd, 2000. Effectiveness of different classes of molecular marker for classifying and revealing variation in rice (Oryza sativa) germplasm. Euphytica 112: 275-284.
26. Weeden, N.F., G.M. Timmerman, M. Hemmat, B.E. Kneen & M.A. Lofhi, 1992. Inheritance and reliability of RAPD markers. In: Applications of RAPD markers to plant breeding. Crop Sci Soc Am, pp. 12-17.
27. Weir, B.S., 1990. Genetic Data Analysis: Methods for Discrete Population Genetic Data. Sinauer Associates, Inc. Publishers. Sunderland, Massachusetts, 377 pp.
28. Welsh, J. & M. McClelland, 1990. Fingerprinting genomes: using PCR with arbitrary primers. Nucl Acids Res 18: 7213-7218.
29. Williams, J.G.K., A.R. Kubelik, K.J. Livak, J.A. Rafalski & S.V. Tingey, 1990. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucl Acids Res 18: 6531-6535.
30. Wu, K.S & S.D. Tanksley, 1993. Abundance, polymorphism and genetic mapping of microsatellites in rice. Mol Gen Genet 241: 225-235.
31. Xiao, J., J. Li, L. Yuan, S.R. McCouch & S.D. Tanksley, 1996. Genetic diversity and its relationship to hybrid performance and heterosis in rice as revealed by PCR-based markers. Theor Appl Genet 92: 637-643.
32. Zhao, M.F., X.H. Li, J.B. Yang, C.G. Xu, R.Y. Hu, D.J. Liu & Q. Zhang, 1999. Relationship between molecular marker heterozygosity and hybrid performance in intra and inter subspecific crosses of rice. Plant Breed 118: 139-144.
33. Zheng, K.L., B. Shen & H.R. Qian, 1991. DNA polymorphisms generated by arbitrary primed PCR in rice. Rice Genet Newsl 8: 134-136.