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72 results for “Columbia River”
GTDB-Tk Phylogenetic Information for 102 MAGs from Columbia River hyporheic sediments
<p>These are the phylogenetic analyses output for the GTDB-Tk that was run on the 102 MAGs from the Columbia River Hyporheic Zone. They form part of supplementary material from publication titled "<strong>Microbial genome-resolved metaproteomic analyses frame intertwined carbon and nitrogen cycles in river hyporheic sediments". </strong></p>
Modeled microbial respiration in the hyporheic zones within the Columbia River Basin
<p><strong>This data includes inputs and outputs of a coupled carbon-nitrogen river corridor model (RCM) for the Columbia River Basin and sensitivity results with varying substrate concentrations. The detailed descriptions of the individual files are included in the readme.txt file. </strong></p>
Combined effects of stream hydrology and land use on basin-scale hyporheic zone denitrification in the Columbia River Basin
<p><strong>This data includes inputs and outputs of a coupled carbon-nitrogen river corridor model (RCM) for the Columbia River Basin and sensitivity results with varying substrate concentrations, and random forest model results with key model inputs/watershed/stream variables. The detailed descriptions of the individual files are included in the readme.txt file. </strong></p>
Hydrologic Response of the Columbia River System to Climate Change
<p>Hydrologic projections for the Columbia River Basin and coastal drainages in the Pacific Northwest, United States.</p> <p>See http://www.hydro.washington.edu/CRCC/ for more information.</p> <p> </p>
NMR data for Columbia River Sediments
<p>Columbia River Sediments NMR data files, including 1D and 2D XX.fid files, as well as mnova files. Link to manuscript will be made available upon publication. </p>
Viral metagenome assembled genomes (vMAGs) from Columbia River hyporheic sediments
<p>Fasta file containing 111 viral metagenome assembled genomes (vMAGs) from publication to be submitted titled "<strong>Microbial genome-resolved metaproteomic analyses frame intertwined carbon and nitrogen cycles in river hyporheic sediments". </strong></p>
Metagenome assembled genome (MAG) annotations for Columbia River sediment bacteria and archaea
<p>Excel spreadsheet containing all annotations for metagenome assembled genomes (MAGs) that form part of a publication to be submitted titled: "<strong>Microbial genome-resolved metaproteomic analyses frame intertwined carbon and nitrogen cycles in river hyporheic sediments". </strong></p>
Forestry influences on salmonid habitat in the North Thompson River Watershed, British Columbia
<p>Freshwater ecosystems that support juvenile salmonids can be degraded by human pressures such as forestry. Forestry activities can alter water temperatures and the delivery and storage of water, nutrients, wood, and sediment in streams, resulting in changes to the habitat, growth, and survival of juvenile salmon. Previous research on forestry impacts on habitat has focused on small, intensively monitored coastal systems. Here we examined forestry impacts, watershed characteristics, physical habitat, and stream temperature for 28 midsized tributaries of the North Thompson River to examine relationships between forestry and juvenile coho stream habitat in interior watersheds. Forest harvest had a positive correlation to maximum summer stream temperature. Streams with 35% of the riparian area harvested since 1970 had maximum summer temperatures 3.7°C higher on average than those with 5% harvested. Stream gradient explained most of the variation in physical habitat and had negative correlations to pool cover, pool depth, and fine sediment cover. Taken together, these results indicate that watershed characteristics drive physical habitat, but forestry harvest can be a primary driver of water temperatures.</p>
Dataset for manuscript "Contributions of Atmospheric Rivers to the Hydroclimatology of British Columbia's Nechako River Basin"
<p>This dataset is the foundation of the findings presented in the "Contributions of Atmospheric Rivers to the Hydroclimatology of British Columbia's Nechako River Basin".</p>
Habitat Suitability Analysis of Larval Pacific Lamprey Habitat in the Columbia River Estuary
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Forestry influences on salmonid habitat in the North Thompson River Watershed, British Columbia
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Aerial photos and colony counts of nesting colonial waterbirds in the Columbia River Basin, 2024
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Genotype and phenotype data for Columbia River steelhead.
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Data from: Overlap of spatial and temporal spawning distributions of spring and summer Chinook Salmon results in hybridization in the upper Columbia River
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Factors affecting the survival of Chinook salmon (Oncorhynchus tshawytscha) embryos in upper and middle Columbia River watersheds, Washington State, USA
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Visual and genetic stock identification of a test fishery to forecast Columbia River spring chinook salmon stocks 2 weeks into the future
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Data from: Distribution of genetic variation underlying adult migration timing in steelhead of the Columbia River basin
<p>Fish migrations are energetically costly, especially when moving between fresh and saltwater, but are a viable strategy for Pacific salmon and trout (<i>Oncorhynchus </i>spp<i>.</i>) due to the advantageous resources available at various life stages. Anadromous steelhead (<i>O. mykiss</i>) migrate vast distances and exhibit variation for migration phenotypes that have a genetic basis at candidate genes known as <i>greb1L</i> and <i>rock1</i>. We examined the distribution of genetic variation at 13 candidate markers spanning <i>greb1L</i>, intergenic, and<i> rock1</i> regions versus 246 neutral markers for 113 populations (n = 9,471) of steelhead from inland and coastal lineages in the Columbia River. Patterns of population structure with neutral markers reflected genetic similarity by geographic region as demonstrated in previous studies, but candidate markers clustered populations by predominate genetic variation associated with migration timing. Mature alleles for late migration had the highest frequency overall in steelhead populations throughout the Columbia River, with only 9 of 113 populations that had a higher frequency of premature alleles for early migration. While a single haplotype block was evident for the coastal lineage, we identified multiple haplotype blocks for the inland lineage. The inland lineage had one haplotype block that corresponded to candidate markers within the <i>greb1L</i> gene and immediately upstream in the intergenic region, and the second block only contained candidate markers from the intergenic region. Haplotype frequencies had similar patterns of geographic distribution as single markers, but there were distinct differences in frequency between the two haplotype blocks for the inland lineage. Redundancy analyses were used to model environmental effects on allelic frequencies of candidate markers and significant variables were migration distance, temperature, isothermality, and annual precipitation. This study improves our understanding of the spatial distribution of genetic variation underlying migration timing in steelhead as well as associated environmental factors and has direct conservation and management implications.</p>
Data from: Population structure of sea-type and lake-type sockeye salmon and kokanee in the Fraser River and Columbia River drainages
Population structure of three ecotypes of Oncorhynchus nerka (sea-type Sockeye Salmon, lake-type Sockeye Salmon, and Kokanee) in the Fraser River and Columbia River drainages was examined with microsatellite variation, with the main focus as to whether Kokanee population structure within the Fraser River drainage suggested either a monophyletic or polyphyletic origin of the ecotype within the drainage. Variation at 14 microsatellite loci was surveyed for sea-type and lake-type Sockeye Salmon and Kokanee sampled from 121 populations in the two river drainages. An index of genetic differentiation, FST, over all populations and loci was 0.087, with individual locus values ranging from 0.031 to 0.172. Standardized to an ecotype sample size of 275 individuals, the least genetically diverse ecotype was sea-type Sockeye Salmon with 203 alleles, whereas Kokanee displayed the greatest number of alleles (260 alleles), with lake-type Sockeye Salmon intermediate (241 alleles). Kokanee populations from the Columbia River drainage (Okanagan Lake, Kootenay Lake), the South Thompson River (a major Fraser River tributary) drainage populations, and the mid-Fraser River populations all clustered together in a neighbor-joining analysis, indicative of a monophyletic origin of the Kokanee ecotype in these regions, likely reflecting the origin of salmon radiating from a refuge after the last glaciation period. However, upstream of the mid-Fraser River populations, there were closer relationships between the lake-type Sockeye Salmon ecotype and the Kokanee ecotype, indicative of the Kokanee ecotype evolving independently from the lake-type Sockeye Salmon ecotype in parallel radiation. Kokanee population structure within the entire Fraser River drainage suggested a polyphyletic origin of the ecotype within the drainage. Studies employing geographically restricted population sampling may not outline accurately the phylogenetic history of salmonid ecotypes.
SELFE sediment model benchmark in the Columbia River estuary.
<p>SELFE sediment model benchmark in the Columbia River estuary.</p> <p>This is an archive of the set of SELFE simulations used to benchmark a sediment module against idealized test cases and a realistic scenario in the Columbia River estuary.<br /> Each test is contained in a directory and includes model input files, the binary used, and scripts used for post-processing.<br /> The simulations, data, and analysis were used for the manuscript "Benchmarking an unstructured-grid sediment model in an energetic estuary" by JE Lopez and AM Baptista.</p> <p>The archive consists of data collected from CMOP research cruises and we would like to acknowledge the contributions of Jim Carlson, John Dunlap, Avery Snyder, Keaton Snyder, and Nate Lauffenburger (University of Washington) and Daryl Swensen and Byron Crump (Oregon State University) in the collection of this data.</p>
FIGURE 2 in Cottus schitsuumsh, a new species of sculpin (Scorpaeniformes: Cottidae) in the Columbia River basin, Idaho-Montana, USA
FIGURE 2. Outgroup-rooted neighbor-joining tree of Cottus from all available haplotypes based on uncorrected p-distances for cytochrome c subunit 1 sequences. State and province abbreviations are given for North American samples, and river basins are noted for C. beldingii, C. confusus, and C. schitsuumsh in Idaho and Montana. Cottus poecilopus, C. reinii, those in the Cottopsis clade (Kinziger et al. 2005), and the outgroup Leptocottus armatus are not shown.
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