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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.
Lake Sinai Viruses (LSV) are common ribonucleic acid (RNA) viruses of honey bees (Apis mellifera) that frequently reach high abundance but are not linked to overt disease. LSVs are genetically heterogeneous and collectively widespread, but despite frequent detection in surveys, the ecological and geographic factors structuring their distribution in A. mellifera are not understood. Even less is known about their distribution in other species. Better understanding of LSV prevalence and ecology have been hampered by high sequence diversity within the LSV clade. We developed a new genetic assay that detects all currently known lineages. We also performed pilot metagenetic sequencing to quantify the diversity of LSV...
To identify potential biomarkers of salt stress in the freshwater mussel Elliptio complanata, we examined transcriptional responses of the common mussel Elliptio complanata to controlled NaCl exposures. The data set is a table of counts, with the rows being the transcripts detected in the samples in the experiment and the columns identifying the samples. Four mussles were exposed to normal freshwater and four mussels were exposed to high salinity (two ppt), for a period of seven days.
The files in this data release are the processed DNA consensus sequence alignment files for the chelonid herpesvirus 5 (ChHV-5) genome plus 66 open reading frames representing protien-coding genes. DNA was extracted from tumor biopsies from green sea turtles (Chelonias mydas) with fibropapillomatosis sampled from Florida and Hawaii coastal waters. We used high-throughput short-read sequencing (Illumina MiSeq and Ion Torrent Personal Genome Machine) of long-range PCR products amplified from tumor tissue using primers designed from the single available ChHV5 reference genome from a Hawaii green sea turtle. The raw sequence data is available at the NCBI Sequence Read Archive under bioproject number PRJNA360405, including...
This dataset contains the invertebrates (identified to Order and Family) present in Cactus Wren nestling fecal samples and found using DNA sequencing (metabarcoding) methods. Nestling fecal samples were collected from one or more handled nestlings per territory collected between April and July of 2015 through 2019 in San Diego, California. The steps to process these data are detailed in the Data Quality section. These data support the following publication: Lynn, S., Houston, A., and Kus, B.E., 2022, Distribution and demography of Coastal Cactus Wrens in Southern California, 2015–19: U.S. Geological Survey Open-File Report 2022-1044, 44 p., https://doi.org/10.3133/ofr20221044.
Categories: Data;
Tags: DNA sequencing,
Genetics,
San Diego County, California,
USGS Science Data Catalog (SDC),
Wildlife Biology,
This study generated genetic 'barcode' data using high-throughput sequencing to characterize pollen collected by the endangered rusty-patched bumblebee, Bombus affinis. Pollen samples were associated with a single Bombus affinis colony within a structure in Red Wing, Minnesota, USA, as previously described by Boone et al. (2022). This data release consists of two tab-delimited files: 1) sample.metadata.txt includes sample identifiers and accessions assigned by the National Center for Biotechnology Information (NCBI), the authoritative repository for publicly funded genetic data in the United States. These accessions can be used individually to obtain raw sequencing data or sample information at www.ncbi.nih.nlm.gov....
In 2016, a multidisciplinary team from the U.S. Geological Survey Wyoming-Montana Water Science Center, National Park Service, The Centers for Disease Control and Prevention, and Montana State University’s Department of Microbiology and Immunology in cooperation with the Teton Conservation District, initiated a small study to document the presence or absence of Naegleria fowleri at several hot springs in Grand Teton National Park/John D. Rockefeller, Jr. Memorial Parkway. Over four sampling events in 2016-2017, Naegleria fowleri was detected in several of the Grand Teton National Park/John D. Rockefeller, Jr. Memorial Parkway hot springs for the first time. Additionally, the team found that the prevalence of Naegleria...
Categories: Data;
Tags: Aquatic Biology,
Ecology,
Environmental Health,
Grand Teton National Park, Wyoming,
Hot Springs,
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