中国西南地区甘薯主要育种亲本的遗传多样性及群体结构分析

doi:10.3864/j.issn.0578-1752.2016.03.017

Abstract

Abstract: 【Objective】 To provide a reference for the conservation and application of breeding parentallines resource, as well as molecular assistant selection (MAS) in sweet potato (Ipomoea batatas), a comprehensive analysis of genetic diversity and population structure analysis of the main sweetpotato breeding parentallines in southwest China was performed. 【Method】 Genetic diversity of 82 main sweet potato breeding parents in southwest China was evaluated by using 61 sample sequence repeats (SSR) markers, 13 agronomic traits and 6 quality traits. The Nei72 genetic distance matrices of 82 tested sweet potato breeding parents were generated based on SSR markers while quality trait and agronomy trait were assessed using NTSYS-pc version 2.10. The mean genetic distance of the tested sweet potato breeding parents based on SSR marker, quality trait and agronomy trait were generated by using Mega version 6.06. Mantel test among genetic distance matrices generated based on SSR marker, quality trait and agronomic trait were conducted by using NTSYS-pc version 2.10. The unweighted pair group method with arithmetic mean (UPGMA) cluster analysis of 82 sweetpotato breeding parents based on quality trait, Neighbor-Joining (NJ) cluster analysis based on SSR marker and UPGMA cluster analysis based on agronomy trait were performed by using Mega version 6.06. Meanwhile, the population structure of 82 sweet potato genotypes was determined based on polymeric data generated by SSR markers using STRUCTURE version 2.4.【Result】 405 polymorphic loci were detected using 61 SSR markers with a mean of 6.64 alleles per primer pair. The number of polymorphic loci obtained from each primer pair ranged from 1 to 17. The SSR marker, quality trait and agronomic trait-based mean Nei’s genetic diversity of tested sweet potato breeding parents was 0.35, 0.22 and 0.03, respectively The tested 82 sweet potato genotypes could be divided into 7 subgroups based on NJ clustering using SSR markers. This same sweet potato collection could be divided into 1 major subgroup and 3 minor subgroups based on UPGMA method using either agronomic or quality traits, but the results showed differentiation. Among the tested sweet potato breeding parents, the genotypes with different original resources could be clustered into the same subgroups in the cluster analysis based on SSR marker, quality trait and agronomic trait, indicating there was no significant genetic differentiation among the tested sweet potato genotypes from different original resources. Mantel test detected little correlation among genetic distance matrices generated by using SSR marker, quality trait and agronomic trait (r=0.016), and a negative correlation (r=-0.041) was detected between genetic distance matrices generated by using quality and agronomic trait. The maximum ad hoc quantity ΔK was observed for K=3 in population structure analysis, indicating that the entire collection could be divided into three subpopulations. Using a membership probability threshold of ≥0.60, 53 genotypes (accounting for 64.6% of the tested genotypes) were assigned to the three subpopulations, and 29 (account for 35.4% of tested breeding parents) were retained in the admixed group (AD). The assignment of 82 sweetpotato genotypes determined by structure analysis was similar but not fully consistent with the assignment pattern of NJ clustering based on SSR marker. 【Conclusion】 Our results demonstrated that a wide genetic diversity at the genomic level was found among the tested main sweet potato breeding parental lines in southwest China. Genetic differentiation could be found in their quality traits, but little differentiation could be found in their agronomic traits. Furthermore, there exists a strong limitation in studying genetic diversity by using a single marker system or trait, and comprehensive analysis systems, combining molecular markers and various phenotypic traits should be given priority in further studies of genetic relationships and population structure of sweet potato breeding parental lines.

Key words: sweetpotato, genetic diversity, population structure, agronomic trait, SSR, quality trait

LUO Kai, LU Hui-xiang, WU Zheng-dan, WU Xue-li, YIN Wang, TANG Dao-bin, WANG Ji-chun, ZHANG Kai. Genetic Diversity and Population Structure Analysis of Main Sweet Potato Breeding Parents in Southwest China[J].Scientia Agricultura Sinica, 2016, 49(3): 593-608.

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Genetic Diversity and Population Structure Analysis of Main Sweet Potato Breeding Parents in Southwest China

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