DOI: 10.5061/dryad.4177rd5
title: Data from: A genome-wide approach to the phylogeography of the mussel Mytilus galloprovincialis in the Adriatic and the Black Seas

description: Connectivity between populations shapes the genetic structure of species
 being crucial for an effective management of environmental resources.
 Genetic approaches can provide indirect measures of connectivity, allowing
 the identification of genetically differentiated - unconnected -
 populations. In this study, we applied a 2b-RAD approach based on hundreds
 of polymorphic loci to provide the first detailed insight into the
 population genomics of the Mediterranean mussel Mytilus galloprovincialis
 in part of its native geographical range. We sampled 19 localities within
 the Mediterranean and Black Seas, and analyzed a total of 478 samples. We
 detected strong differences between the two seas, whereas no differences
 were found between samples from the Western and Central Mediterranean and
 within Western Mediterranean samples. In the Central Mediterranean a
 significant differentiation emerged comparing Central Adriatic samples
 with those from South Adriatic and Ionian Seas. Furthermore, an
 East-to-West genetic structuring was found in the Central Adriatic Sea,
 which was not present in the Southern Adriatic and Ionian Seas. These
 results possibly reflect the local oceanography, with a Middle Adriatic
 gyre unable to prevent genetic differentiation in this species, and a
 Southern Adriatic gyre that effectively mixes propagules in Southern
 areas. In the Black Sea, no signal of genetic structure was found,
 although samples were spaced at similar distances as in the
 Adriatic-Ionian area. Genetic connectivity patterns of M.
 galloprovincialis reveal peculiar species-specific features respect to
 other species with similar larval duration, suggesting caution in using
 genetic connectivity data of single species in defining conservation
 units. We recommend of using genetic connectivity data of many species
 representing a variety of life history traits, and we call for new
 investigations using high resolution population genomics, particularly in
 the Black Sea, to understand if areas separated by hundreds of kilometers
 can be considered genetically connected as mussels’ data suggest. This
 information will be critical to ensure “a well-connected system of
 protected areas” according to Aichi Target 11 of the Convention on
 Biological Diversity.
description: OverallDatasetGeneralInfoTab delimited text file containing general information about 2bRAD SNPs of the Overall dataset (Mediterranean+Black Sea). The file is organized with a first raw containing the headers followed by rows containing loci. Headers are: - Catalog ID: locus ID in the Stacks catalogue; - Genepop File ID: locus ID in the accompanying genepop file (same as before but with the SNP position embedded in the name); - Consensus sequence: the reference sequence for the locus. - Num SNPs: Number of SNPs detected at the locus; - SNPs: position and alleles for all the SNPs detected at the locus; - Num Alleles: total number of alleles for the locus; - Selected SNP: position used for population analyses; - Alleles in GENEPOP file: correspondence with the alleles in the accompanying genepop file.OverallDatasetGenepopText file (genepop input format) containing the genotypes used for population genomics analysis for the overall dataset (Mediterranean + Black Sea). The file contains the genotypes of 461 individuals from 19 population samples. The population order is OTH-A, KAP, BOK, KOR, TRE, TOG, OTR, POC, TUN, FRN, KAR, TAR, COS, KAL, ROK, SIL, SIN, BAT, RUS.AdriaticDatasetGeneralInfoTab delimited text file containing general information about 2bRAD SNPs of the Adriatic dataset. The file is organized with a first raw containing the headers followed by rows containing loci. Headers are: - Catalog ID: locus ID in the Stacks catalogue; - Genepop File ID: locus ID in the accompanying genepop file (same as before but with the SNP position embedded in the name); - Consensus sequence: the reference sequence for the locus. - Num SNPs: Number of SNPs detected at the locus; - SNPs: position and alleles for all the SNPs detected at the locus; - Num Alleles: total number of alleles for the locus; - Selected SNP: position used for population analyses; - Alleles in GENEPOP file: correspondence with the alleles in the accompanying genepop file.AdriaticDatasetGenepopText file (genepop input format) containing the genotypes used for population genomics analysis for the Adriatic dataset. The file contains the genotypes of 201 individuals from 8 population samples. The population order is OTH-A, KAP, BOK, KOR, TRE, TOG, OTR, POC.BlackSeaDatasetGeneralInfoTab delimited text file containing general information about 2bRAD SNPs of the Black Sea dataset. The file is organized with a first raw containing the headers followed by rows containing loci. Headers are: - Catalog ID: locus ID in the Stacks catalogue; - Genepop File ID: locus ID in the accompanying genepop file (same as before but with the SNP position embedded in the name); - Consensus sequence: the reference sequence for the locus. - Num SNPs: Number of SNPs detected at the locus; - SNPs: position and alleles for all the SNPs detected at the locus; - Num Alleles: total number of alleles for the locus; - Selected SNP: position used for population analyses; - Alleles in GENEPOP file: correspondence with the alleles in the accompanying genepop file.BlackSeaDatasetGenepopText file (genepop input format) containing the genotypes used for population genomics analysis for the Black Sea dataset. The file contains the genotypes of 228 individuals from 9 population samples. The population order is KAR, TAR, COS, KAL, ROK, SIL, SIN, BAT, RUS.