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United States Department of Agriculture

Agricultural Research Service

Title: Molecular Characterization of Rice Recombinant Inbred Line Population Derived from a Japonica-Indica Cross

Authors
item Liu, G - UA RREC
item Bernhardt, J - UA RREC
item JIA, MELISSA
item Wamishe, Y - UA RREC
item JIA, YULIN

Submitted to: Rice Technical Working Group Meeting Proceedings
Publication Type: Abstract Only
Publication Acceptance Date: January 1, 2006
Publication Date: February 15, 2006
Citation: Liu, G., Bernhardt, J., Jia, M.H., Wamishe, Y., Jia, Y. 2006. Molecular characterization of rice recombinant inbred line population derived from a japonica-indica cross. Rice Technical Working Group Meeting Proceedings, Houston, Texas, February 29-March 2, 2006. 2006. CDROM.

Technical Abstract: Recombinant inbred line (RIL) populations of rice represent a permanent genetic source usable for the construction of molecular genetic linkage maps and map-based identification of quantitative trait loci (QTL). The objective of this study was to characterize a population of 269 F10-11 RILs from a cross between Kaybonnet lpa1-1 (KBNTlpa) and Zhe733 using 109 polymorphic simple sequence repeat (SSR) markers. SSR markers (107) were mapped on 12 rice chromosomes representing a total of 1016.3 cM of genetic map. Ten markers (9.2%) on chromosomes 3, 6, 7 and 11 favored ('2 = 34.0–189.7, P ' 0.01) Zhe733 alleles and three markers (2.7%) on chromosome 6 favored ('2 = 37.7–46.6, P ' 0.01) KBNTlpa alleles. Twenty-six RILs (10.2%) were skewed ('2 > 15.7, P ' 0.01) towards Zhe733. The average frequencies of overall genome heterozygous and non-parental alleles per RIL were 1.3% (0.0%-38.9%) and 0.4% (0.0%-15.0%), respectively. Thirteen heterozygous RILs at more than 5 marker loci and nine RILs with more than 5 non-parental alleles were identified representing 5.1% and 3.5% of the population, respectively, consisting of 255 RILs. Two hundred and thirty-five RILs were clustered into seven sub-groups based on Nei’s (1972) genetic distance. These results demonstrate that the KBNTlpa'Zhe733 F10-11 RIL population is an excellent mapping population characterized by low frequencies of heterozygosity and non-parental alleles, and by low percentages of skewed markers and RILs.

Last Modified: 7/25/2014
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