Harbison's dun skipper (Euphyes vestris harbisoni) single nucleotide polymorphism genotype data from southern California

This dataset contains genotypes from 148 Harbison's dun skipper (Euphyes vestris harbisoni) collected in San Diego and Orange County, California (USA). Genomic markers were generated using the 2RAD restriction-associated DNA sequencing protocol, aligned to a reference genome of Euphyes dion (genome assembly GCA_018251475.1) and analyzed using Stacks v2.53. The genotypes for all samples are provided in a VCF file with 1335 independent loci. A companion file is provided with sample names and collection information. These files may be opened and edited in a text editor program, such as Notepad (PC). The .vcf file can be loaded into the Stacks population program to calculate genetic diversity statistics, or loaded into R, using vcfR for further analysis.

Data and Resources

Field Value
accessLevel public
bureauCode {010:12}
catalog_@context https://project-open-data.cio.gov/v1.1/schema/catalog.jsonld
catalog_@id https://ddi.doi.gov/usgs-data.json
catalog_conformsTo https://project-open-data.cio.gov/v1.1/schema
catalog_describedBy https://project-open-data.cio.gov/v1.1/schema/catalog.json
identifier http://datainventory.doi.gov/id/dataset/usgs-6838c049d4be025925747095
metadata_type geospatial
modified 2025-06-23T00:00:00Z
old-spatial -117.5106, 32.6945, -116.6936, 33.6070
publisher U.S. Geological Survey
resource-type Dataset
source_datajson_identifier true
source_hash ffe0ee97e7bdbbedac238366a0c67dee493d4bb7a4dda3e5be6477244eb36d45
source_schema_version 1.1
spatial {"type": "Polygon", "coordinates": [[[-117.5106, 32.6945], [-117.5106, 33.6070], [ -116.6936, 33.6070], [ -116.6936, 32.6945], [-117.5106, 32.6945]]]}
theme {geospatial}
Groups
  • AmeriGEOSS
  • National Provider
  • North America
Tags
  • AmeriGEO
  • AmeriGEOSS
  • CKAN
  • GEO
  • GEOSS
  • National
  • North America
  • United States
  • biological-population-management
  • biota
  • dna-sequencing
  • genetics
  • genotype
  • orange-county
  • polymerase-chain-reaction
  • population-and-community-ecology
  • san-diego-county
  • usgs-6838c049d4be025925747095
  • wildlife-population-management
isopen False
license_id notspecified
license_title License not specified
maintainer U.S. Geological Survey, Western Ecological Research Center
maintainer_email gs-b-werc_data_management@usgs.gov
metadata_created 2025-09-24T18:06:46.710264
metadata_modified 2025-09-24T18:06:46.710273
notes This dataset contains genotypes from 148 Harbison's dun skipper (Euphyes vestris harbisoni) collected in San Diego and Orange County, California (USA). Genomic markers were generated using the 2RAD restriction-associated DNA sequencing protocol, aligned to a reference genome of Euphyes dion (genome assembly GCA_018251475.1) and analyzed using Stacks v2.53. The genotypes for all samples are provided in a VCF file with 1335 independent loci. A companion file is provided with sample names and collection information. These files may be opened and edited in a text editor program, such as Notepad (PC). The .vcf file can be loaded into the Stacks population program to calculate genetic diversity statistics, or loaded into R, using vcfR for further analysis.
num_resources 1
num_tags 19
title Harbison's dun skipper (Euphyes vestris harbisoni) single nucleotide polymorphism genotype data from southern California