Weak range-wide population structure in the blackfin tuna (Thunnus atlanticus) revealed by analysis of genome-wide SNPs
Type | Article | ||||||||||||
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Date | 2023-05 | ||||||||||||
Language | English | ||||||||||||
Author(s) | Dimens Pavel1, Reynal Lionel2, Pau Cedric2, Arocha Freddy3, Hazin Fabio4, Roque Pollyana4, Cummings Nancie J5, Franks James S6, Jones Kenneth L7, Saillant Eric A1 | ||||||||||||
Affiliation(s) | 1 : School of Ocean Science and Engineering, The University of Southern Mississippi , Ocean Springs, MS 39564 , USA 2 : IFREMER Délégation de Martinique , 97231 Le Robert, La Martinique , France 3 : Instituto Oceanográfico de Venezuela, Universidad de Oriente , Cumana 6101 , Venezuela 4 : Fisheries & Aquaculture Department, Universidade Federal Rural de Pernambuco , Dom Manoel de Medeiros, s/n. Recife 52171-900 , Brazil 5 : Southeast Fisheries Center, 75 Virginia Beach Dr. , Key Biscayne, FL 33149 , USA 6 : Center for Fisheries Research and Development, The University of Southern Mississippi , Ocean Springs, MS 39564 , USA 7 : Department of Cell Biology, University of Oklahoma Health Sciences Center , 975 NE 10th St., BRC 458, Oklahoma City, OK 73104 , USA |
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Source | Ices Journal Of Marine Science (1054-3139) (Oxford University Press (OUP)), 2023-05 , Vol. 80 , N. 4 , P. 941-952 | ||||||||||||
DOI | 10.1093/icesjms/fsad012 | ||||||||||||
Keyword(s) | blackfin tuna, double-digest RAD sequencing, population genetics, single nucleotide polymorphism, stock structure, Thunnus atlanticus | ||||||||||||
Abstract | Blackfin tuna (Thunnus atlanticus) is a small tuna distributed in the western Atlantic Ocean where it is exploited by growing recreational and commercial regional fisheries. In this work, genome-wide genetic variation was analysed to investigate the occurrence of stock subdivision. A de novo assembly of the blackfin tuna genome was generated using Illumina paired-end sequencing data and applied as a reference for population genomic analysis of specimens from nine localities (average sample size per locality n = 72) spanning most of the blackfin tuna distribution range. A total of 2139 single-nucleotide polymorphisms were discovered and genotyped using the double-digest restriction associated DNA sequencing. Pairwise exact homogeneity tests were significant in 24 out of 36 population pairs and significant spatial autocorrelation of genotypes was observed for specimens collected within 2250 km of each other. However, divergence among locality samples was very low (pairwise FST range 0.0002–0.0025) and significant temporal variations were detected in localities sampled multiple times. Approaches to detect cryptic groups de novo were unsuccessful. Additional sampling is warranted to determine if multiple stocks need to be defined for management and assess temporal and spatial patterns of gene flow connecting them. |
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