Scientia Agricultura Sinica ›› 2014, Vol. 47 ›› Issue (1): 11-23.doi: 10.3864/j.issn.0578-1752.2014.01.002

• CROP GENETICS & BREEDING·GERMPLASM RESOURCES·MOLECULAR GENETICS • Previous Articles     Next Articles

Genetic Diversity of the Main Chinese Three-Line Hybrid Rice Parents Based on Functional Genetic Markers Related to Yield

 ZHANG  Tao-1, 3 , YANG  Jiao-2, JIANG  Kai-Feng-1, 3 , CAO  Ying-Jiang-1, YANG  Li-1, 3 , YANG  Qian-Hua-1, WAN  Xian-Qi-1, YOU  Shu-Mei-1, LUO  Jing-1, GAO  Lei-1, LI  Zhao-Xiang-1, ZHENG  Jia-Kui-1, 2 , 3   

  1. 1.Rice and Sorghum Research Institute, Sichuan Academy of Agricultural Sciences/Key Laboratory of Southwest Rice Biology and Genetic Breeding, Ministry of Agriculture, Deyang 618000, Sichuan;
    2.Bioengineering College, Chongqing University, Chongqing 400044;
    3.Luzhou Branch of National Rice Improvement Center, Luzhou 646100, Sichuan
  • Received:2013-06-27 Online:2014-01-01 Published:2013-09-27

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Abstract: 【Objective】 The objective of this study is to analyze the genetic diversity of the three-line hybrid rice parents based on functional genetic markers. 【Method】 Genetic diversity of 76 three-line hybrid rice parents was analyzed by 44 functional gene markers involved in QTL loci, or fine mapping, or been cloned which linked closely to rice yield trait, and these genes have been considerably reported by literature. At the same time, the genetic diversity of the above materials mentioned was also studied by 29 SSR markers with higher polymorphism, clear band pattern, reproducible, and covered in 12 chromosomes of three-line hybrid rice parents. According to claim of POPGEN32 analysis software, the PCR gel electrophoresis product data matrix was transformed into the genotype data, and the alleles (Na), effective number of alleles (Ne), percentage of polymorphic loci (P), and Nei’s genetic diversity index (He) were calculated. This study further evaluated the genetic diversity of all parents according to the deduced information of POPGEN32 analysis software. Besides, this study also calculated the genetic differentiation coefficient (Fst), Nei’s genetic distance (D), and further checked out the genetic structure and genetic relationship. NTSYS-pc2.10e software was used to calculate the genetic similarity coefficient (GS), and cluster analysis was made according to GS group and using the non-weighted average method (UPGMA), and the genetic dendrogram was mapped. 【Result】Of which 37 functional gene markers showed polymorphism and 86 total alleles loci were detected; the percentage of polymorphic loci (p) was 84.09%. While the number of effective alleles(ne) was 62.95, which accounted for 73.2%, Nei’s genetic diversity index(he) ranged from 0.049 to 0.831, and 0.650 in avarage. The genetic similarity (GS) of 76 varieties ranged from 0.323 to 0.973, and 0.650 in average. UPGMA cluster analysis showed that 76 accessions could be classified into two distinct classes of maintainer lines and restoring lines, at similarity coefficient of 0.618. The coefficient of genetic differentiation(gst) was 0.151, belonging to high variation level, and the Nei’s genetic distance (GD) was 0.185. The genetic distance within the groups was relatively small, relatively large among the taxa. A total of 72 alleles loci were detected by 29 SSR markers. UPGMA cluster analysis showed that the 76 accessions cannot be classified into two distinct classes of maintainer lines and restoring lines. Part maintainer lines clustered in a group of restoring lines, some restoring lines clustered in the maintainer line group. 【Conclusion】 The studies suggested that the functional gene markers had a high DNA polymorphisms detection efficiency, and can be used as a useful tool for their accuracy and reliability of measuring genetic diversity. The backbone parents in research showed nearer genetic relationship, higher homology sort of genetic basis. However, there still showed higher genetic differentiation between maintainer line and restoring line, suggesting that there was a higher space of using heterosis breeding in the yield of rice parents.

Key words: rice , functional gene , cluster analysis , genetic diversity

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