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Genetic Diversity and Population Structure of Coffee Germplasm Collections in China Revealed by ISSR Markers

文献类型： 外文期刊

作者： Yan, Lin 1 ; Ogutu, Collins 2 ; Huang, Lifang 1 ; Wang, Xiaoyang 1 ; Zhou, Hua 4 ; Lv, Yulan 5 ; Long, Yuzhou 1 ; Dong, Y 1 ;

作者机构： 1.Chinese Acad Trop Agr Sci, Key Lab Genet Resources Utilizat Spice & Beverage, Hainan Prov Key Lab Genet Improvement & Qual Regu, Minist Agr China,Spice & Beverage Res Inst, Wanning 571533, Hainan, Peoples R China

2.Chinese Acad Sci, CAS Key Lab Plant Germplasm Enhancement & Special, Wuhan Bot Garden, Innovat Acad Seed Design, Wuhan 430074, Hubei, Peoples R China

3.Univ Chinese Acad Sci, 19A Yuquanlu, Beijing 100049, Peoples R China

4.Dehong Trop Agr Inst Yunnan, Ruili 678600, Yunnan, Peoples R China

5.Yunnan Acad Agr Sci, Trop & Subtrop Econ Crops Res Inst, Baoshan 678025, Yunnan, Peoples R China

6.Chinese Acad Sci, Sino African Joint Res Ctr, Wuhan 430074, Hubei, Peoples R China

关键词： Population genetic analysis; C. arabica; C. canephora; C. liberica; Selection; Genetic differentiation

期刊名称：PLANT MOLECULAR BIOLOGY REPORTER （ 影响因子：1.595； 五年影响因子：2.042 ）

ISSN： 0735-9640

年卷期： 2019 年 37 卷 3 期

页码：

收录情况： SCI

摘要： Population genetics analysis is crucial for understanding the degree of linkage disequilibrium in a germplasm collection for association mapping and breeding strategies. Here, we report population structure patterns and genetic differentiation of coffee germplasm collections in China using 19 ISSR markers. A total of 129 unique alleles were detected, with an average of 6.8 alleles per ISSR. The estimated average Nei's gene diversity (H-e) index for all tested accessions was 0.49. A clustering pattern correlating with predefined species origin, rather than isolation by distance, was observed for all the tested accessions. C. arabica is highly differentiated from C. liberica and C. canephora, with F-st values of 0.33 and 0.21, respectively. By contrast, C. liberica and C. excelsa Chevalier showed a close genetic association, with the F-st value of 0.04. Significant differentiation was also detected within C. arabica accessions, which were separated in three genetic subgroups supported by pairwise (F-st) index and Nei's standard genetic distance tests. The F-st outlier test for deviation from expected distribution between F-st and expected heterozygosity identified five putative ISSRs under selection, with two, UBC864 and UBC842, showing signals of positive selection. Our study provides useful information for identifying core collections for genetics studies, breeding programs, and development of future germplasm management strategies.

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