DOI: 10.5061/dryad.3j9kd51cp
title: Data from: Genome-wide SNPs resolve spatiotemporal patterns of connectivity within striped marlin (Kajikia audax), a broadly distributed and highly migratory pelagic species

description: Genomic methodologies offer unprecedented opportunities for statistically
 robust studies of species broadly distributed in environments conducive to
 high gene flow, providing valuable information for wildlife conservation
 and management. Here, we sequence restriction site-associated DNA to
 characterize genome-wide single nucleotide polymorphisms (SNPs) in a
 broadly distributed and highly migratory large pelagic fish, striped
 marlin (Kajikia audax). Assessment of over 4,000 SNPs resolved
 spatiotemporal patterns of genetic connectivity throughout the species
 range in the Pacific and, for the first time, Indian oceans.
 Individual-based cluster analyses identified six genetically distinct
 populations corresponding with the western Indian, eastern Indian, western
 South Pacific, and eastern central Pacific oceans, as well as two
 populations in the North Pacific Ocean (FST = 0.0137–0.0819). FST outlier
 analyses identified a subset of SNPs (n = 59) putatively under the
 influence of natural selection, and capable of resolving populations
 separated by comparatively high degrees of genetic differentiation.
 Temporal collections available for some regions demonstrated the stability
 of allele frequencies over three to five generations of striped marlin.
 Relative migration rates reflected lower levels of genetic connectivity
 between Indian Ocean populations (mR ≤ 0.37) compared with most
 populations in the Pacific Ocean (mR ≥ 0.57), and highlight the importance
 of the western South Pacific in facilitating gene flow between ocean
 basins. Collectively, our results provide novel insights into rangewide
 population structure for striped marlin, and highlight substantial
 inconsistencies between genetically distinct populations and stocks
 currently recognized for fisheries management. More broadly, we
 demonstrate that species capable of long-distance dispersal in
 environments lacking obvious physical barriers to movement can display
 substantial population subdivision that persists over multiple
 generations, and that may be facilitated by both neutral and adaptive
 processes. Importantly, surveys of genome-wide markers enable inference of
 population-level relationships using sample sizes practical for large
 pelagic fishes of conservation concern.
description: <strong>kajikia_audax_quality_filtered_snps_full_dataset_genlight.rds</strong> This file comprises SNP genotype data (n = 4,206 loci) for striped marlin (<em>Kajikia audax</em>) in RDS format for the R statistical computing environment (https://www.r-project.org/). These data are referred to as the 'full dataset' in Mamoozadeh et al. XXXX (<em>Evolutionary Applications</em>). Data have been quality filtered to remove low quality SNPs.  This RDS file can be imported into R as a genlight object for the R package adegenet (https://github.com/thibautjombart/adegenet/wiki). To load data into R, use the following: install.packages('adegenet') data = readRDS('kajikia_audax_quality_filtered_snps_full_dataset_genlight.rds')