Genomic sequence polymorphisms among Corvus kubaryi of Rota, Northern Mariana Islands, inferred from samples collected between 2014 and 2024
This study generated genetic polymorphism data at a genome scale by whole-genome shotgun DNA sequencing of Mariana Crow (Corvus Kubaryi). DNA was extracted from blood tissue originally collected nonlethally from field monitoring efforts, captive rearing, and carcasses, under permit of the US Fish and Wildlife Service. Sequencing libraries were generated for the Illumina sequencing platform for 277 DNA extractions (four pairs of which were later determined to be the same individuals), ultimately yielding 107,838 biallelic nucleotide polymorphisms for 259 individuals after data filtering (see process steps).
This data release consists of three files, a tab-delimited text file providing sample metadata (sample.metadata.txt) and two compressed text files describing inferred genotypes at each variable site in VCF4.2 format. One genotype file is for presumed autosomes (aga.autosome.vcf.gz), which are diploid in both males and females. The other genotype file is for genomic segments presumed to lie on the Z chromosome (aga.z.vcf.gz), which is diploid in males and haploid in females. Because the reference genome was derived from a male individual, the W chromosome is presumed to be unrepresented in this data set.
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Complete Metadata
| @type | dcat:Dataset |
|---|---|
| accessLevel | public |
| bureauCode |
[ "010:12" ] |
| contactPoint |
{ "fn": "Robert S. Cornman", "@type": "vcard:Contact", "hasEmail": "mailto:fortdatamanagement@usgs.gov" } |
| description | This study generated genetic polymorphism data at a genome scale by whole-genome shotgun DNA sequencing of Mariana Crow (Corvus Kubaryi). DNA was extracted from blood tissue originally collected nonlethally from field monitoring efforts, captive rearing, and carcasses, under permit of the US Fish and Wildlife Service. Sequencing libraries were generated for the Illumina sequencing platform for 277 DNA extractions (four pairs of which were later determined to be the same individuals), ultimately yielding 107,838 biallelic nucleotide polymorphisms for 259 individuals after data filtering (see process steps). This data release consists of three files, a tab-delimited text file providing sample metadata (sample.metadata.txt) and two compressed text files describing inferred genotypes at each variable site in VCF4.2 format. One genotype file is for presumed autosomes (aga.autosome.vcf.gz), which are diploid in both males and females. The other genotype file is for genomic segments presumed to lie on the Z chromosome (aga.z.vcf.gz), which is diploid in males and haploid in females. Because the reference genome was derived from a male individual, the W chromosome is presumed to be unrepresented in this data set. |
| distribution |
[ { "@type": "dcat:Distribution", "title": "Digital Data", "format": "XML", "accessURL": "https://doi.org/10.5066/P13M9MVV", "mediaType": "application/http", "description": "Landing page for access to the data" }, { "@type": "dcat:Distribution", "title": "Original Metadata", "format": "XML", "mediaType": "text/xml", "description": "The metadata original format", "downloadURL": "https://data.usgs.gov/datacatalog/metadata/USGS.68766f8ad4be020e2014bcd4.xml" } ] |
| identifier | http://datainventory.doi.gov/id/dataset/USGS_68766f8ad4be020e2014bcd4 |
| keyword |
[ "USGS:68766f8ad4be020e2014bcd4", "biota", "birds", "conservation genetics", "genetic diversity", "genetics", "wildlife", "wildlife population management" ] |
| modified | 2025-07-22T00:00:00Z |
| publisher |
{ "name": "U.S. Geological Survey", "@type": "org:Organization" } |
| spatial | 145.11360, 14.10661, 145.29213, 14.20382 |
| theme |
[ "geospatial" ] |
| title | Genomic sequence polymorphisms among Corvus kubaryi of Rota, Northern Mariana Islands, inferred from samples collected between 2014 and 2024 |
