Parallel polygenic urban adaptation despite high gene flow in a coastal marine invertebrate

The file stored here is the vcf file containing whole genome sequencing data for Pacific purple sea urchin (Strongylocentrotus purpuratus)  samples.  We collected tissue samples from 209 urchins across 19 sites in Los Angeles, San Diego and Victoria, B.C..
, Collections & Sample Processing: A paired urban/nonurban site design was implemented across three Eastern Pacific coastal cities: Victoria B.C., Los Angeles, CA and San Diego, CA. These three cities are all within the range of S. purpuratus and have distinct outflow of wastewater output in areas where urchin populations have been identified. Urban sites were on average 4.3km (range: 1.04km to 8.48km) from an urban outflow site, while nonurban sites were over double this distance, with sample sites an average of 29km (range: 17.48km to 78.77km) away from an outflow site. The Mussel Watch program has classified 87 intertidal sites based on surrounding land use and found drastic differences in pollutant concentrations between low, mixed and urban development sites. Victoria, B.C. provides a geographically distinct city in order to disentangle other environmental variables such as temperature, salinity and pH . We collected tissue samples from 209 urchins across 19 sites in Los Angeles,..., # Parallel polygenic urban adaptation despite high gene flow in a coastal marine invertebrate

Dataset DOI: [10.5061/dryad.4xgxd25ph](https://doi.org/10.5061/dryad.4xgxd25ph)

## Description of the data and file structure

### Files and variables

#### File: 5.ubanurchinfull_fullyfiltered10.recode.vcf

**Description:** VCF containing filtered genomic data for urban and nonurban urchin samples. Downstream filtering was done using vcftools to discard SNPs with minor allele frequency less than 0.05, SNPs with <70% of individuals genotyped, and genotype quality <10. Samples with low coverage were filtered out, leaving 183 samples total that were spread across the three regions and urban/nonurban sampling sites.

## Access information

Other publicly accessible locations of the data:

* [https://github.com/mlarmstrong/urbanurchins](https://github.com/mlarmstrong/urbanurchins)

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