Abstract
Sweet potato, Ipomoea batatas (L.) Lam., is an important food crop that is cultivated worldwide. However, no genome-wide assessment of the genetic diversity of sweet potato has been reported to date. In the present study, the population structure and genetic diversity of 197 sweet potato accessions most of which were from China were assessed using 62,363 SNPs. A model-based structure analysis divided the accessions into three groups: group 1, group 2 and group 3. The genetic relationships among the accessions were evaluated using a phylogenetic tree, which clustered all the accessions into three major groups. A principal component analysis (PCA) showed that the accessions were distributed according to their population structure. The mean genetic distance among accessions ranged from 0.290 for group 1 to 0.311 for group 3, and the mean polymorphic information content (PIC) ranged from 0.232 for group 1 to 0.251 for group 3. The mean minor allele frequency (MAF) ranged from 0.207 for group 1 to 0.222 for group 3. Analysis of molecular variance (AMOVA) showed that the maximum diversity was within accessions (89.569%). Using CoreHunter software, a core set of 39 accessions was obtained, which accounted for approximately 19.8% of the total collection. The core germplasm set of sweet potato developed will be a valuable resource for future sweet potato improvement strategies.
Highlights
Sweet potato (Ipomoea batatas (L.) Lam.) is a crop of considerable economic and social importance in developing countries [1]
A core germplasm set for sweet potato
This study presents a comprehensive view of the genome-wide variation among 197 sweet potato accessions, most of which are from China, and provides a core germplasm set representing the maximum diversity of the total collection
Summary
Sweet potato (Ipomoea batatas (L.) Lam.) is a crop of considerable economic and social importance in developing countries [1]. Because of its high productivity and abundant protein, calorie and vitamin contents, it plays a key role in alleviating hunger and malnutrition in PLOS ONE | DOI:10.1371/journal.pone.0172066. A core germplasm set for sweet potato. System (CARS-11-C-15), Characteristic Discipline of Hubei Academy of Agricultural Sciences (2015TSXK06), National Natural Science Foundation of China Grant (31301377), Innovation and Application of Major Crops Germplasm Resources Introduced from Africa and Southeast Asia (2016ABA087). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript
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