Skip to main content
U.S. flag

An official website of the United States government

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you’ve safely connected to the .gov website. Share sensitive information only on official, secure websites.

Skip to content

Carex specuicola genomic data for the southern Colorado Plateau Desert

Metadata Updated: July 6, 2024

These data were compiled to investigate the demographic and phylogeographic of Carex specuicola. Objectives of our study were to understand the demographic and dispersal history of Carex specuicola across hanging gardens, the hybridization history between Carex specuicola and Carex utahensis, and the population structure of Carex specuicola across its distribution. The data release consists of three tab delimited text files that may be used to infer population structure and diversity (CASP.stru), relationships among sampling localities Carex.phylip), or genetic diversity statistics and demographic history (Carex.snps.vcf). These data represent genetic variation on an individual (.stru and .vcf) or sampling locality (.phylip) level. The .vcf file contains all of the information contained in the other files, but the file structures vary based on the programs used for analysis. These files may be opened and edited in a text editor program, such as Notepad ++ (PC) or BBEdit (Mac). The .vcf file can be loaded into the Stacks population program (Catchen et al. 2013) to calculate genetic diversity statistics. The .phylip file can be uploaded to phyML to generate a tree-based visualization of relationships (http://www.atgc-montpellier.fr/phyml/). The .stru file can be used in the STRUCTURE program (Falush et al. 2007) to estimate population structure. These data were collected in 2020 using leaf samples collected from hanging gardens in the Four Corners region of Arizona and Utah. These data were collected by U.S. Geological Survey and Deaver Herbarium researchers who visited hanging garden sites and sampled leaf tissues from individual plants.

Access & Use Information

Public: This dataset is intended for public access and use. License: No license information was provided. If this work was prepared by an officer or employee of the United States government as part of that person's official duties it is considered a U.S. Government Work.

Downloads & Resources

Dates

Metadata Created Date June 1, 2023
Metadata Updated Date July 6, 2024

Metadata Source

Harvested from DOI EDI

Additional Metadata

Resource Type Dataset
Metadata Created Date June 1, 2023
Metadata Updated Date July 6, 2024
Publisher U.S. Geological Survey
Maintainer
@Id http://datainventory.doi.gov/id/dataset/c51d890eb4103d3a5f0b58747c878f68
Identifier USGS:62f2e3f8d34eacf5397319f8
Data Last Modified 20220916
Category geospatial
Public Access Level public
Bureau Code 010:12
Metadata Context https://project-open-data.cio.gov/v1.1/schema/catalog.jsonld
Metadata Catalog ID https://datainventory.doi.gov/data.json
Schema Version https://project-open-data.cio.gov/v1.1/schema
Catalog Describedby https://project-open-data.cio.gov/v1.1/schema/catalog.json
Harvest Object Id 53f91a47-c645-48b8-9e3a-c86dd0016999
Harvest Source Id 52bfcc16-6e15-478f-809a-b1bc76f1aeda
Harvest Source Title DOI EDI
Metadata Type geospatial
Old Spatial -111.1,35.9,-109.2,37.6
Publisher Hierarchy White House > U.S. Department of the Interior > U.S. Geological Survey
Source Datajson Identifier True
Source Hash 71ecf2d5898552e45405552da3caf8bff3a01b29865829ef20be2f14171b0d0b
Source Schema Version 1.1
Spatial {"type": "Polygon", "coordinates": -111.1, 35.9, -111.1, 37.6, -109.2, 37.6, -109.2, 35.9, -111.1, 35.9}

Didn't find what you're looking for? Suggest a dataset here.