Filtered SNP VCFFinal set of filtered SNPsSNP.FINAL.recode.vcfSNP filtering stepsThis file outlines the exact steps to filter variant calls into a final SNP data set. Lines are commented and file is executable.Filter_Script.shTotalRawVariants.vcfCompressed VCF of all raw variant calls. Gunzip this file to follow the filtering protocol.List of loci visually identified as artifacts.These loci were visually inspected and determined to be artifactual. They were removed from all analyses.visualistFB_filters_BheadBash script used to automate part of the SNP filtering process.Population Map for IndividualsThis file lists the putative population of each individual based on collection locality.pop_map.sharkSampleCollectionInfoSpreadsheet with Sample_Name, Collection Date, Location Code, Locality, Sex, Weight (kg), and Total Length (cm) for each individual used in the study.OutlierHapsOutlier haplotype genotypes in Genepop format.NeutralHapsNeutral haplotype-based genotypes in Genepop format.HaplotypeListAligned haplotype list for mtDNA sequences.HaplistNov21.hapSample Collection information with mtDNA haplotypesSpreadsheet with Sample_Name, Collection Date, Location Code, Locality, Sex, Weight (kg), Total Length (cm), and mtDNA haplotype for each individual used in the study.SampleCollectionInfo.xlsxReference fasta fileSet of reference sequences generated by the custom dDocent codereference.fasta

Sex-biased dispersal is expected to homogenize nuclear genetic variation relative to variation in genetic material inherited through the philopatric sex. When site fidelity occurs across a heterogeneous environment, local selective regimes may alter this pattern. We assessed spatial patterns of variation in nuclear-encoded, single nucleotide polymorphisms (SNPs) and sequences of the mitochondrial control region in bonnethead sharks (Sphyrna tiburo), a species thought to exhibit female philopatry, collected from summer habitats used for gestation. Geographic patterns of mtDNA haplotypes and putatively neutral SNPs confirmed female philopatry and male-mediated gene flow along the northeastern coast of the Gulf of Mexico. A total of 30 outlier SNP loci were identified; alleles at over half of these loci exhibited signatures of latitude-associated selection. Our results indicate that in species with sex-biased dispersal, philopatry can facilitate sorting of locally adaptive variation, with the dispersing sex facilitating movement of potentially adaptive variation among locations and environments.