SSR Marker-based Genetic Diversity Analysis of Tidal and Flood Prone Areas in Rice ( Oryza sativa L.)

A. Masuduzzaman, M. Haque, M. Ahmed, A. Mohapatra
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引用次数: 7

Abstract

One hundred and sixty rice varieties from the tidal and flood prone areas of south and south East Asian countries were analyzed. Samples sizes were: 50 varieties from Bangladesh (deepwater, tidal and flood prone rice and modern varieties), 14 varieties from India (flood prone rice), 16 varieties from Sri Lanka (flood prone rice), 7 varieties from Vietnam (tidal varieties), 69 varieties from Indonesia (tidal varieties) and 4 check varieties from IRRI. All 30 primer pairs created polymorphic bands among the 160 rice varieties from flood and tidal prone areas, which indicated that the microsatellites used were suitable for diversity analysis. A total of 337 alleles were detected with an average of 11 alleles per locus and the number of alleles per locus varied from 4 to 21. The highest PIC values were observed for the primer of RM474 (0.91), followed by RM5 (0.82), RM484 (0.81), RM214 (0.81), and RM19 (0.79). Cluster analysis divided the genotypes into four main clusters and six sub-clusters based on geographical origins and ecotypes. Microsatellite clustering (over 30 polymorphic loci) and submergence screening data indicated greater genetic diversity among 160 genotypes for molecular loci and for submergence tolerance. Tolerant genotypes in Cluster-1 are expected to have different tolerance genes. Finding relationship between tolerance and country of origin, highly tolerant varieties (FR13A and FR43B) were found from east India. Genetic diversity analysis among flood prone rice will be useful for identifying the varieties having maximum diversity with submergence tolerance and selected varieties will be useful for further studies.
基于SSR标记的水稻潮洪易发区遗传多样性分析
对来自南亚和东南亚国家潮汐和洪水易发地区的160个水稻品种进行了分析。样本数量为:孟加拉国50个品种(深水、潮汐和洪涝易发水稻和现代品种)、印度14个品种(洪涝易发水稻)、斯里兰卡16个品种(洪涝易发水稻)、越南7个品种(潮汐易发水稻)、印度尼西亚69个品种(潮汐易发水稻)和国际水稻研究所4个对照品种。30对引物在洪潮易发地区的160个水稻品种中均形成多态性条带,表明微卫星可以用于多样性分析。共检测到337个等位基因,平均每个位点11个,每个位点的等位基因数从4个到21个不等。引物中PIC值最高的是RM474(0.91),其次是RM5(0.82)、RM484(0.81)、RM214(0.81)和RM19(0.79)。聚类分析根据地理来源和生态型将其分为4个主聚类和6个亚聚类。微卫星聚类(超过30个多态性位点)和淹水筛选数据表明,160个基因型在分子位点和淹水耐受性方面具有更大的遗传多样性。Cluster-1中的耐受基因型可能具有不同的耐受基因。发现耐受性与原产国之间的关系,在印度东部发现了高耐受性品种(FR13A和FR43B)。易涝水稻的遗传多样性分析将有助于鉴定耐淹多样性最大的品种,并为今后的研究提供参考。
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