Microsatellite Analysis of Genetic Variation and Population Genetic Differentiation in Autotetraploid and Diploid Rice |
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Authors: | Li Luan Xing Wang Wen-Bo Long Yu-Hua Liu Sheng-Bin Tu Zhan-Peng Zhao Fan-Lun Kong Mao-Qun Yu |
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Institution: | (1) Department of Agriculture, Chengdu Institute of Biology, Chinese Academy of Sciences, P.O. Box 416, Chengdu, 610041, P.R. China;(2) Department of Biology, Sichuan University, Chengdu, 610041, P.R. China |
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Abstract: | Genetic diversity and population genetic structure of autotetraploid and diploid populations of rice collected from Chengdu
Institute of Biology, Chinese Academy of Sciences, were studied based on 36 microsatellite loci. Among 50 varieties, a moderate
to high level of genetic diversity was observed at the population level, with the number of alleles per locus (A
e) ranging from 2 to 6 (mean 3.028) and polymorphism information content ranging from 0.04 to 0.76 (mean 0.366). The expected
heterozygosity (H
e) varied from 0.04 to 0.76 (mean 0.370) and Shannon’s index (I) from 0.098 to 1.613 (mean 0.649). The autotetraploid populations showed slightly higher levels of A
e, H
e, and I than the diploid populations. Rare alleles were observed at most of the simple sequence repeat loci in one or more of the
50 accessions, and a core fingerprint database of the autotetraploid and diploid rice was constructed. The F-statistics showed genetic variability mainly among autotetraploid populations rather than diploid populations (F
st = 0.066). Cluster analysis of the 50 accessions showed four major groups. Group I contained all of the autotetraploid and
diploid indica maintainer lines and an autotetraploid and its original diploid indica male sterile lines. Group II contained only the original IR accessions. Group III was more diverse than either Group II or
Group IV, comprising both autotetraploid and diploid indica restoring lines. Group IV included a japonica cluster of the autotetraploid and diploid rices. Furthermore, genetic differences at the single-locus and two-locus levels,
as well as components due to allelic and gametic differentiation, were revealed between autotetraploid and diploid varieties.
This analysis indicated that the gene pools of diploid and autotetraploid rice were somewhat dissimilar, as variation exists
that distinguishes autotetraploid from diploid rices. Using this variation, we can breed new autotetraploid varieties with
some important agricultural characters that were not found in the original diploid rice varieties. |
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Keywords: | Autotetraploid Diploid rice Microsatellite (SSR) Genetic variation Population |
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