Frontiers in Genetics (Oct 2022)

Population genetic characteristics of Hainan medaka with whole-genome resequencing

  • Zebin Yao,
  • Shuisheng Long,
  • Chun Wang,
  • Chengqin Huang,
  • Hairui Zhang,
  • Liao Jian,
  • Jingru Huang,
  • Yusong Guo,
  • Yusong Guo,
  • Yusong Guo,
  • Zhongdian Dong,
  • Zhongdian Dong,
  • Zhongdian Dong,
  • Zhongduo Wang,
  • Zhongduo Wang,
  • Zhongduo Wang

DOI
https://doi.org/10.3389/fgene.2022.946006
Journal volume & issue
Vol. 13

Abstract

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The DMY gene is deleted in all males of the Sanya population (SY-medaka) of the Hainan medaka, Oryzias curvinotus, as recently reported by us. However, due to limited knowledge regarding their population genetic background, it is difficult to explore the possible evolutionary pathway. Herein, we resequenced the whole genome of four populations, including SY-medaka. A total of 56 mitogenomes and 32,826,105 SNPs were identified. We found that the genetic differentiation is highest between SY-medaka and the other populations. The results of the population history of the O. curvinotus suggest that the SY-medaka has been in a bottleneck period recently. Further analysis shows that SY-medaka are the most strongly affected by environmental selection. Moreover, we screened some potential genomic regions, and the genes contained in these regions may explain the potential mechanism of the selection process of the SY-medaka. In conclusion, our study can provide new clues for the adaptation process of medaka in the new environment of Sanya.

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