{"database":"biostudies-literature","file_versions":[],"scores":{"citationCount":0,"reanalysisCount":0,"viewCount":58,"searchCount":0},"additional":{"omics_type":["Unknown"],"volume":["21(1)"],"submitter":["Jansson E"],"funding":["Svenska Forskningsrådet Formas","Svenska Kulturfonden"],"pubmed_abstract":["<h4>Background</h4>Marine fish populations are often characterized by high levels of gene flow and correspondingly low genetic divergence. This presents a challenge to define management units. Goldsinny wrasse (Ctenolabrus rupestris) is a heavily exploited species due to its importance as a cleaner-fish in commercial salmonid aquaculture. However, at the present, the population genetic structure of this species is still largely unresolved. Here, full-genome sequencing was used to produce the first genomic reference for this species, to study population-genomic divergence among four geographically distinct populations, and, to identify informative SNP markers for future studies.<h4>Results</h4>After construction of a de novo assembly, the genome was estimated to be highly polymorphic and of ~600Mbp in size. 33,235 SNPs were thereafter selected to assess genomic diversity and differentiation among four populations collected from Scandinavia, Scotland, and Spain. Global F<sub>ST</sub> among these populations was 0.015-0.092. Approximately 4% of the investigated loci were identified as putative global outliers, and ~ 1% within Scandinavia. SNPs showing large divergence (F<sub>ST</sub> > 0.15) were picked as candidate diagnostic markers for population assignment. One hundred seventy-three of the most diagnostic SNPs between the two Scandinavian populations were validated by genotyping 47 individuals from each end of the species' Scandinavian distribution range. Sixty-nine of these SNPs were significantly (p < 0.05) differentiated (mean F<sub>ST_173_loci</sub> = 0.065, F<sub>ST_69_loci</sub> = 0.140). Using these validated SNPs, individuals were assigned with high probability (≥ 94%) to their populations of origin.<h4>Conclusions</h4>Goldsinny wrasse displays a highly polymorphic genome, and substantial population genomic structure. Diversifying selection likely affects population structuring globally and within Scandinavia. The diagnostic loci identified now provide a promising and cost-efficient tool to investigate goldsinny wrasse populations further."],"journal":["BMC genetics"],"pagination":["118"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC7547435"],"repository":["biostudies-literature"],"pubmed_title":["Genome wide analysis reveals genetic divergence between Goldsinny wrasse populations."],"pmcid":["PMC7547435"],"pubmed_authors":["Glover KA","Malde K","Dahle G","Jansson E","Besnier F","Andre C"],"view_count":["58"],"additional_accession":[]},"is_claimable":false,"name":"Genome wide analysis reveals genetic divergence between Goldsinny wrasse populations.","description":"<h4>Background</h4>Marine fish populations are often characterized by high levels of gene flow and correspondingly low genetic divergence. This presents a challenge to define management units. Goldsinny wrasse (Ctenolabrus rupestris) is a heavily exploited species due to its importance as a cleaner-fish in commercial salmonid aquaculture. However, at the present, the population genetic structure of this species is still largely unresolved. Here, full-genome sequencing was used to produce the first genomic reference for this species, to study population-genomic divergence among four geographically distinct populations, and, to identify informative SNP markers for future studies.<h4>Results</h4>After construction of a de novo assembly, the genome was estimated to be highly polymorphic and of ~600Mbp in size. 33,235 SNPs were thereafter selected to assess genomic diversity and differentiation among four populations collected from Scandinavia, Scotland, and Spain. Global F<sub>ST</sub> among these populations was 0.015-0.092. Approximately 4% of the investigated loci were identified as putative global outliers, and ~ 1% within Scandinavia. SNPs showing large divergence (F<sub>ST</sub> > 0.15) were picked as candidate diagnostic markers for population assignment. One hundred seventy-three of the most diagnostic SNPs between the two Scandinavian populations were validated by genotyping 47 individuals from each end of the species' Scandinavian distribution range. Sixty-nine of these SNPs were significantly (p < 0.05) differentiated (mean F<sub>ST_173_loci</sub> = 0.065, F<sub>ST_69_loci</sub> = 0.140). Using these validated SNPs, individuals were assigned with high probability (≥ 94%) to their populations of origin.<h4>Conclusions</h4>Goldsinny wrasse displays a highly polymorphic genome, and substantial population genomic structure. Diversifying selection likely affects population structuring globally and within Scandinavia. The diagnostic loci identified now provide a promising and cost-efficient tool to investigate goldsinny wrasse populations further.","dates":{"release":"2020-01-01T00:00:00Z","publication":"2020 Oct","modification":"2024-11-09T10:23:33.486Z","creation":"2020-10-29T10:29:31Z"},"accession":"S-EPMC7547435","cross_references":{"pubmed":["33036553"],"doi":["10.1186/s12863-020-00921-8"]}}