Genetic diversity of rice cultivars by microsatellite markers tightly linked to cooking and eating quality

Australian Journal of Crop Science

Volumn 6, Issue 6, 2012, Pages 980-985

  Tabkhkar, Narjes ^a   Rabiei, Babak ^a   Sabouri, Atefeh ^a  

^a UNIVERSITY OF GUILAN   (Iran)

Author keywords

Cluster analysis; Genetic diversity; Grain quality; Marker assisted selection; Rice

Indexed keywords

EID: 84865964712     PISSN: 18352693     EISSN: 18352707     Source Type: Journal    
DOI: None     Document Type: Article

References (35)

1. Allahgholipoor M, Mohammad Salehi MS (2001) Identification of some characteristics of landrace rice cultivars in Guilan condition. Report of technical review of Rice Research Institute of Iran, Rasht, p. 62.
2. Aluko G, Martinez C, Tohme J, Castano C, Bergman C, Oard JH (2004) QTL mapping of grain quality traits from the interspecific cross "Oryza sativa L. and O. Glaberrima". Theor Appl Genet. 108: 1445-1452.
3. Bao JS, Corke H, Sun M (2006) Nucleotide diversity in starch synthase IIa and validation of single nucleotide polymorphisms in relation to starch gelatinization temperature and other physicochemical properties in rice (Oryza sativa L.). Theor Appl Genet 113: 1171-1183.
4. Bassam BJ, Caetano Anolles G, Gresshoff PM (1991) Fast and sensitive silver staining of DNA in polyacrylamide gels. Anal Biochem. 196: 80-83.
5. Bergman CJ, Delgado JT, McClung AM, Fjellstrom RG (2001) An improved method for using a microsatellite in the rice waxy gene to determine amylose class. Cereal Chem. 78(3): 257-260.
6. Bounphanousay C, Jaisil P, McNally KL, Sanitchon J, Sackville Hamilton NR (2008) Variation of microsatellite markers in a collection of Lao's black glutinous rice (Oryza sativa L.). Asian J Plant Sci. 7(2): 140-148.
7. Cagampang GB, Perez CM, Juliano BO (1973) A gel consistency test for the eating quality of rice. J Sci Food Agric. 24: 1589-1594.
8. Fan CC, Yu XQ, Xing YZ, Xu CG, Luo LJ, Zhang Q (2005) The main effects, epistatic effects and environmental interactions of QTLs on the cooking and eating quality of rice in a doubled-haploid line population. Theor Appl Genet. 110: 1445-1452.
9. Fitzgerald MA, McCouch SR, Hall RD (2008) Not just a grain of rice: The quest for quality. Trends Plant Sci. 14(3): 133-139.
10. Ghneim T, Posso D, Perez I, Torrealba G, Pieters AJ, Martinez CP, Tohme JM (2008) Assessment of genetic diversity in Venezuelan rice cultivars using simple sequence repeats markers. Electron J Biotechn. 11(5): 1-14.
11. He P, Li SG, Qian Q, Ma YQ, Li JZ, Wang WM, Chen Y, Zhu LH (1999) Genetic analysis of rice grain quality. Theor Appl Genet. 98: 502-508.
12. Juliano BO (1985) Rice chemistry and technology, American Association of Cereal Chemists, 2nd edn. Incorporated Saint Paul, Minnesota, USA.
13. Kennedy G, Burlingame B (2003) Analysis of food composition data on rice from a plant genetic resources perspective. Food Chem. 80: 589-596.
14. Kibria K, Nur F, Begum SN, Islam MM, Paul SK, Rahman KS, Azam SMM (2009) Molecular marker based genetic diversity analysis in aromatic rice genotypes using SSR and RAPD markers. Int J Sustain Crop Prod. 4(1): 23-34.
15. Kimura M, Crow JF (1964) The number of alleles that can be maintained in a finite population. Genetics. 49: 725-738.
16. Kumar A, Bimolata W, Laha GS, Sundaram RM, Ghazi IA (2011) Comparative analysis of the genomic regions flanking Xa21 locus in indica and japonica ssp. Of rice (Oryza sativa L.). Plant Omics J. 4(5): 239-249.
17. Kuroda Y, Sato YI, Bounphanousay C, Kono Y, Tanaka K (2007) Genetic structure of three Oryza AA genome species (O. rufipogon, O. nivara and O. sativa) as assessed by SSR analysis on the Vientiane Plain of Laos. Conserv Genet. 8: 149-158.
18. Lapitan VC, Brar DS, Abe T, Redona ED (2007) Assessment of genetic diversity of Philippine rice carrying good quality traits using SSR markers. Breeding Sci. 57: 263-270.
19. Lestari P, Ham TH, Lee HH, Woo MO, Jiang W, Chu SH, Kwon SW, Ma K, Lee JH, Cho YC, Koh HJ (2009) PCR marker-based evaluation of the eating quality of Japonica rice (Oryza sativa L.). J Agr Food Chem 57: 2754-2762.
20. Little RR, Hilder GB, Dawson EH (1958) Differential effect of dilute alkali on 25 varieties of milled white rice. Cereal Chem. 35: 111-126.
21. Lou J, Chen L, Yue G, Lou Q, Mei H, Xiong L, Luo L (2009) QTL mapping of grain quality traits in rice. J Cereal Sci. 50: 145-151.
22. Moumeni A, Yazdi Samadi B, Wu J, Leung H (2003) Genetic diversity and relatedness of selected Iranian rice cultivars and disease resistance donors assayed by simple sequence repeats and candidate defense gene markers. Euphytica. 131: 275-284.
23. Nasiri M, Bahrami M, Hoseini Emani SS, Eshraghi A, Pirdashti H, Nouri MZ, Soroush HR, Tavasoli Lahiji F, Osko T, Amani R, Azami GH, Salehi S (2004) Introduction of new rice cultivar, Shafagh. Seed and Plant 20(4): 529-535 (In Persian with English abstract).
24. Nei M (1973) Analysis of gene diversity in subdivided populations. Proc Natl Acad Sci USA 70: 3321-3323.
25. Ordonez SA, Silva J, Oard JH (2010) Association mapping of grain quality and flowering time in elite Japonica rice germplasm. J Cereal Sci. 1: 1-7.
26. Rohlf FJ (1998) NTSYS-pc: Numerical taxonomy and multivariate analysis system. Version 2.02. Exter software, Setauket, New York, NY, USA 223-270.
27. Saghai-Maroof MA, Soliman KM, Jorgensen RA, Allard RW (1984) Ribosomal DNA sepacer-length polymorphism in barley: Mendelian inheritance, chromosomal location, and population dynamics. Proc Natl Acad Sci USA. 81: 8014-8019.
28. Septiningsih EM, Trijatmiko KR, Moeljopawiro S, McCouch SR (2003) Identification of quantitative trait loci for grain quality in an advanced backcross population derived from the Oryza sativa variety IR64 and the wild relative O. rufipogon. Theor Appl Genet. 107: 1441-1433.
29. Shefatur Rahman M, Rezwan Molla Md, Samsul Alam Md, Rahman L (2009) DNA fingerprinting of rice (Oryza sativa L.) cultivars using microsatellite markers. Aust J Crop Sci. 3(3): 122-128.
30. Shu XL, Shen SQ, Bao JS, Wu DX, Nakamura Y, Shu QY (2006) Molecular and biochemical analysis of the gelatinization temperature characteristics of rice (Oryza sativa L.) starch granules. J Cereal Sci. 44: 40-48.
31. Sokal RR, Michener CD (1958) A statistical method for evaluating systematic relationships. Univ Kan Sci Bull. 38: 1409-1438.
32. Tan YF, Li JX, Yu SB, Xing YZ, Xu CG, Zhang Q (1999) The three important traits for cooking and eating quality of rice grains are controlled by a single locus in an elite rice hybrid, Shanyou 63. Theor Appl Genet. 99: 642-648.
33. Temnykh S, DeClerck G, Lukashova A, Lipovich L, Cartinhour S, McCouch S (2001) Computational and experimental analysis of microsatellites in rice (Oryza sativa L.): Frequency, length variation, transposon association and marker potential. Genome Res. 11: 1441-1452.
34. Webb BD (1980) Rice quality and grades. In: Luh BS (ed) Rice: Production and utilization. Avi Publication Company, Incorporated, Westport, Connecticut, USA pp. 543-565.
35. Yeh FC, Boyle TJB (1997) Population genetic analysis of codominant and dominant markers and quantitative traits. Belg J Bot. 129: 157.