Identification of a large dataset of SNPs in hair-fin anchovy (Setipinna tenuifilis) based on RAD-seq

Y Peng; J S Li; K Zhang; Y F Liu; X P Li; H Zhang; L Gong; L Q Liu; Z M Lü; B J Liu

doi:10.1111/age.13062

Identification of a large dataset of SNPs in hair-fin anchovy (Setipinna tenuifilis) based on RAD-seq

Anim Genet. 2021 Jun;52(3):371-374. doi: 10.1111/age.13062. Epub 2021 Apr 11.

Authors

Y Peng^{1

2}, J S Li^{1

2}, K Zhang^{1

2}, Y F Liu^{1

2}, X P Li^{1

2}, H Zhang³, L Gong^{1

2}, L Q Liu^{1

2}, Z M Lü^{1

2}, B J Liu^{1

2

3}

Affiliations

¹ National Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, Zhejiang Ocean University, No.1 Haidanan road, Zhoushan, 316022, China.
² National Engineering Research Center for Facilitated Marine Aquaculture, Marine Science and Technology College, Zhejiang Ocean University, No.1 Haidanan road, Zhoushan, 316022, China.
³ Key Laboratory of Tropical Marine Bio-resources and Ecology, Chinese Academy of Sciences, Beijing, China.

PMID: 33840129
DOI: 10.1111/age.13062

Abstract

Hair-fin anchovy (Setipinna tenuifilis) is an economically important fish distributed in the West Indian Ocean and the Northwest Pacific Ocean. In this study, 154 individuals in eight populations of S. tenuifilis were sequenced and 850 million raw reads were obtained using restriction site-associated DNA sequencing (RAD-seq). First, we identified 14 012 044 hypothetical SNP markers. A dataset of 199 903 high-quality SNPs was collected after further screening. These SNPs have a strong ability to test the genetic diversity between the eight populations. The differentiation and genetic law between samples were explored based on SNPs in populations of S. tenuifilis. The results of this study will provide data for protecting the genetic resources of the species.

Keywords: RAD-seq; SNP; genetic differentiation; hair-fin anchovy (Setipinna tenuifilis).

MeSH terms

Animals
China
Datasets as Topic
Fishes / genetics*
Genetics, Population*
Pacific Ocean
Polymorphism, Single Nucleotide*
Sequence Analysis, DNA

Abstract

MeSH terms

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