Population Genomics Reveals the Underlying Structure of the Small Pelagic European Sardine and Suggests Low Connectivity within Macaronesia
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Population Genomics Reveals the Underlying Structure of the Small Pelagic European Sardine and Suggests Low Connectivity within Macaronesia. / da Fonseca, Rute R.; Campos, Paula F.; Rey-Iglesia, Alba; Barroso, Gustavo V.; Bergeron, Lucie A.; Nande, Manuel; Tuya, Fernando; Abidli, Sami; Pérez, Montse; Riveiro, Isabel; Carrera, Pablo; Jurado-Ruzafa, Alba; Santamaría, M. Teresa G.; Faria, Rui; Machado, André M.; Fonseca, Miguel M.; Froufe, Elsa; Castro, L. Filipe C.
In: Genes, Vol. 15, No. 2, 170, 2024.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - Population Genomics Reveals the Underlying Structure of the Small Pelagic European Sardine and Suggests Low Connectivity within Macaronesia
AU - da Fonseca, Rute R.
AU - Campos, Paula F.
AU - Rey-Iglesia, Alba
AU - Barroso, Gustavo V.
AU - Bergeron, Lucie A.
AU - Nande, Manuel
AU - Tuya, Fernando
AU - Abidli, Sami
AU - Pérez, Montse
AU - Riveiro, Isabel
AU - Carrera, Pablo
AU - Jurado-Ruzafa, Alba
AU - Santamaría, M. Teresa G.
AU - Faria, Rui
AU - Machado, André M.
AU - Fonseca, Miguel M.
AU - Froufe, Elsa
AU - Castro, L. Filipe C.
PY - 2024
Y1 - 2024
N2 - The European sardine (Sardina pilchardus, Walbaum 1792) is indisputably a commercially important species. Previous studies using uneven sampling or a limited number of makers have presented sometimes conflicting evidence of the genetic structure of S. pilchardus populations. Here, we show that whole genome data from 108 individuals from 16 sampling areas across 5000 km of the species' distribution range (from the Eastern Mediterranean to the archipelago of Azores) support at least three genetic clusters. One includes individuals from Azores and Madeira, with evidence of substructure separating these two archipelagos in the Atlantic. Another cluster broadly corresponds to the center of the distribution, including the sampling sites around Iberia, separated by the Almeria-Oran front from the third cluster that includes all of the Mediterranean samples, except those from the Alboran Sea. Individuals from the Canary Islands appear to belong to the Mediterranean cluster. This suggests at least two important geographical barriers to gene flow, even though these do not seem complete, with many individuals from around Iberia and the Mediterranean showing some patterns compatible with admixture with other genetic clusters. Genomic regions corresponding to the top outliers of genetic differentiation are located in areas of low recombination indicative that genetic architecture also has a role in shaping population structure. These regions include genes related to otolith formation, a calcium carbonate structure in the inner ear previously used to distinguish S. pilchardus populations. Our results provide a baseline for further characterization of physical and genetic barriers that divide European sardine populations, and information for transnational stock management of this highly exploited species towards sustainable fisheries.
AB - The European sardine (Sardina pilchardus, Walbaum 1792) is indisputably a commercially important species. Previous studies using uneven sampling or a limited number of makers have presented sometimes conflicting evidence of the genetic structure of S. pilchardus populations. Here, we show that whole genome data from 108 individuals from 16 sampling areas across 5000 km of the species' distribution range (from the Eastern Mediterranean to the archipelago of Azores) support at least three genetic clusters. One includes individuals from Azores and Madeira, with evidence of substructure separating these two archipelagos in the Atlantic. Another cluster broadly corresponds to the center of the distribution, including the sampling sites around Iberia, separated by the Almeria-Oran front from the third cluster that includes all of the Mediterranean samples, except those from the Alboran Sea. Individuals from the Canary Islands appear to belong to the Mediterranean cluster. This suggests at least two important geographical barriers to gene flow, even though these do not seem complete, with many individuals from around Iberia and the Mediterranean showing some patterns compatible with admixture with other genetic clusters. Genomic regions corresponding to the top outliers of genetic differentiation are located in areas of low recombination indicative that genetic architecture also has a role in shaping population structure. These regions include genes related to otolith formation, a calcium carbonate structure in the inner ear previously used to distinguish S. pilchardus populations. Our results provide a baseline for further characterization of physical and genetic barriers that divide European sardine populations, and information for transnational stock management of this highly exploited species towards sustainable fisheries.
KW - Humans
KW - Animals
KW - Metagenomics
KW - Fishes/genetics
KW - Portugal
KW - Genome/genetics
KW - Spain
U2 - 10.3390/genes15020170
DO - 10.3390/genes15020170
M3 - Journal article
C2 - 38397160
VL - 15
JO - Genes
JF - Genes
SN - 2073-4425
IS - 2
M1 - 170
ER -
ID: 384561945