Robert S Cornman

Sample collection information, single nucleotide polymorphism, and microsatellite data for white-tailed ptarmigan across the species range generated in the Molecular Ecology Lab during 2016

This data release comprises a dataset that contains sample collection information and microsatellite genotypes, and another dataset that contains single nucleotide polymorphism (SNP) genotypes with sample collection information for populations of white-tailed ptarmigan across the species' range. There is also an additional file (accession numbers.xlsx) linking samples to accession numbers in Genbank. This data was collected in order to address the following: The delineation of intraspecific units that are evolutionarily and demographically distinct is an important step in the development of species-specific management plans. Neutral genetic variation has served as the primary data source for delineating units for...

Categories: Data; Tags: Alaska, Alberta, British Columbia, Colorado, Microsatellites, All tags... Montana, Mt. Evans, New Mexico, Rocky Mountain National Park, USGS Science Data Catalog (SDC), Utah, Vancouver, Washington, Yukon Territory, biological population management, biota, genetic diversity, Fewer tags

Genomic variation in the genus Pimephales: raw sequence data and single-nucleotide polymorphisms

The fathead minnow (Pimephales promelas) is a key model of vertebrate toxicity. Standardized tests of toxicity in fathead minnow have been developed to support regulatory science, and much is known about the response of the species to various environmental pollutants. However, there is little data on genetic variation within the species, despite the potential influence of genetic background on toxicological outcomes. Furthermore, the phylogenetic relationships among Pimephales species are not fully established and rates of evolutionary divergence within the species and genus have not been investigated. This study examined patterns of genetic variation across the genome within a single wild population of fathead...

Tags: Boone County, Castor River, Colorado, Genetics, Missouri, All tags... New Mexico, San Juan River, Spring River, USGS Science Data Catalog (SDC), Utah, environment, fish, genetics, utilitiesCommunication, Fewer tags

A reference genome assembly for the endangered Aga or Mariana Crow (Corvus kubaryi)

The Aga, also known as the Mariana Crow, is an endangered endemic crow of the Northern Mariana Islands, a Commonwealth of the United States of America. The only known population currently extant is on the island of Rota and has been in decline over the past two decades. Unknown pathogens are among the factors that may be contributing to this decline. To support metagenomic and transcriptomic analysis of potential disease agents, a reference genome was generated and gene features comprehensively annotated. The methods used and data availability are described. This data release consists of: 1. Gene annotations for the endangered Aga or Mariana Crow, including summary statistics, that are available from the National...

Tags: Genetics, Northern Mariana Islands, Rota, USGS Science Data Catalog (SDC), biota, All tags... birds, genetics, Fewer tags

Whole genome sequencing of three North American large-bodied birds

The data release details the samples, methods, and raw data used to generate high-quality genome assemblies for greater sage-grouse (Centrocercus urophasianus), white-tailed ptarmigan (Lagopus leucura), and trumpeter swan (Cygnus buccinator). The raw data have been deposited in the Sequence Read Archive (SRA) of the National Center for Biotechnology Information (NCBI), the authoritative repository for public biological sequence data, and are not included in this data release. Instead, the accessions that link to those data via the NCBI portal (www.ncbi.nlm.nih.gov) are provided herein. The release consists of a single file, sample.metadata.txt, which maps NCBI accessions to the samples sequenced and the different...

Tags: Ecology, Genetics, North America, USGS Science Data Catalog (SDC), Wildlife Biology, All tags... biota, genetic diversity, genetics, ornithology, Fewer tags

Rusty Patched Bumble Bee Pollen Metagenome

The rusty-patched bumble bee (Bombus affinis) is a listed species under the Endangered Species Act of the United States. While understood to be a highly generalist forager, little is known on the role that limited floral resources or shifting floral community composition could have played in B. affinis decline. Determining which floral species provide suitable B. affinis forage could assist conservation efforts where B. affinis persists, identify floral species for restoration efforts, or highlight regions to search for cryptic populations.

Categories: Data; Tags: Bombus affinis, Ecology, Environmental Health, Genetics, ITS2 Metagenome, All tags... Massachusetts, Michigan, Minnesota, New Jersey, New York, Pennsylvania, USGS Science Data Catalog (SDC), Wildlife Biology, Wisconsin, biota, bumblebee, museum specimen, pollen, Fewer tags