RT Journal Article
SR Electronic
T1 Analysis of the Genetic Structure and Diversity of Upland Cotton Groups in Different Planting Areas Based on SNP Markers
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2021.06.11.448075
DO 10.1101/2021.06.11.448075
A1 Jungduo Wang
A1 Zeliang Zhang
A1 Zhaolong Gong
A1 Yajun Liang
A1 Xiantao Ai
A1 Zhiwei Sang
A1 Jiangping Guo
A1 Xueyuan Li
A1 Juyun Zheng
YR 2021
UL http://biorxiv.org/content/early/2021/06/12/2021.06.11.448075.abstract
AB Genetic diversity, kinship and population genetic structure analyses of Gossypium hirsutum germplasm can provide a better understanding of the origin and evolution of G. hirsutum biodiversity. In this study, 1313331 SNP molecular markers were used to construct a phylogenetic tree of each sample using MEGAX, to perform population structure analysis by ADMIXTURE software and principal component analysis (PCA) by EIGENSOFT software, and to estimate relatedness using SPAGeDi. ADMIXTURE software divided the experimental cotton population into 16 subgroups, and the Gossypium hirsutum samples could be roughly clustered according to source place, but there were some overlapping characteristics among samples. The experimental cotton population was divided into six groups according to source to calculate the genetic diversity index (H), and the obtained value (0.306) was close to that for germplasm collected by others in China. Cluster 4 had a relatively high genetic diversity level (0.390). The degrees of genetic differentiation within the experimental cotton population groups were low (the population differentiation indexes ranged from 0.02368 to 0.10664). The genetic distance among cotton accessions varied from 0.000332651 to 0.562664014, with an average of 0.25240429. The results of this study may provide a basis for mining elite alleles and using them for subsequent association analysis.Competing Interest StatementThe authors have declared no competing interest.