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138 results for “Idaho”
Ecological memory effects on plants and soils in early post-fire steppe, Barton Ecological Research Area, Pocatello, Idaho, 2021
In many regions of the world, wildfires are becoming more frequent due to the invasion of exotic grasses that are highly flammable and often replace native plants as burned landscapes regrow. To prevent invasive species from dominating post-burn landscapes, land managers are increasingly applying seeds of native plants to suppress invasive plants and encourage ecosystem recovery. However, there is still much to learn about the ability of seeded species to establish and suppress flammable invaders. It is also unclear how previous human-caused landscape changes, such as nitrogen pollution or the removal of shrubs (a common practice in western USA rangelands), affect the success of native seed additions and plant recovery from fire. This study addresses these issues by building on a long-term experiment investigating the legacy effects of past nitrogen pollution and shrub removal in a highly invaded sagebrush steppe ecosystem at Idaho State University’s Barton Ecological Research Area in Pocatello, ID. This experiment burned in a wildfire in August, 2020, providing a unique opportunity to evaluate how a history of nitrogen pollution and shrub removal influences plant recovery from wildfire. We developed three native seed mixes intended to suppress invasive plants, particularly flammable annual grasses, and in April, 2021, we sowed the experimental mixes into research plots within the original experiment. To measure the initial effects of the experimental seed additions and the legacy effects of previous nitrogen pollution and shrub removal, we collected the data provided here during the summer of 2021, the first growing season following the wildfire. We established 240 monitoring quadrats (1 m²) within the original experiment, dividing the quadrats between areas where shrubs had formerly been (evidenced by stumps) and intershrub areas. At a microhabitat scale, the presence of shrubs alters soil properties and can create legacy effects after shrub death, and we were int
Idaho Motus Prioritization Tool Data
Addressing survival and movement of priority migratory avian species of concern along the Pacific Flyway is paramount for their conservation. Yet, the migratory life stage is understudied in many avian species. The Motus radiotelemetry receiver network is an established system for tracking survival and movement of avian species. This network is an international collaborative that successfully identifies stopover site duration, connected migratory routes, post-fledging dispersal and survival, and adult survival and fidelity on a landscape-scale; parameters that cannot be easily estimated using non-tagged birds. While the Motus network is highly connected in eastern North America, the western part of the continent is lagging in coverage and connectivity, limiting the ability to obtain sample sizes large enough to robustly model demographic parameters from tagged birds. Thus, the expansion of the Motus network is a high priority for Pacific Flyway State Agencies. To date, no method exists for determining priority locations for new Motus receiving stations. With collaborations from States and the Canadian Province of British Columbia, we used eBird citizen scientist data to prioritize strategic locations for new Motus receiving stations throughout the Pacific Flyway. We model priority species’ co-occupancy of varying abundance states (i.e., absent, present, abundant, abundant in multiple weeks) with spatially varying Landsat (red and near infrared), water, land cover types, and weather covariates while accounting for variable detection with temporally varying survey effort covariates. Using occupancy model predictions, we identify high-use areas of the Pacific Flyway for establishing new Motus receiving towers that have high probabilities of intercepting high presence and /or abundance of multiple species of interest in a series of predictive occupancy maps. This package contains all the necessary files to recreate the data analysis, print out maps based on predictions
Landslides from Space - Elk City, Idaho USA (18th February 2016)
<p>On 18th February 2016 an instable hillside collapsed and burried the State Highway 14 on a length of about 150 metres. Through this landslide residents of the remote village Elk City were trapped and the power supply was cut off.</p> <p>The pre-event acquisition is from 22nd September 2015 (Sentinel-2) and the post-event acquisition is from 28th June 2016 (Sentinel-2).<br> <br> <em>Contains modified Copernicus Sentinel data (2015-2016)</em></p> <p> </p> <p> </p> <p> </p>
Data from: Development of Single Nucleotide Polymorphism (SNP) Panel for determination of environmental influence on genome for wild Columbia River redband trout (Oncorhynchus mykiss gairdnerii) in Southwest Idaho streams
<p>DNA were derived from fin tissue samples taken from individual trout captured from Little Jacks Creek, Big Jacks Creek , and Duncan Creek of the Owyhee mountains and Keithly Creek and Upper Mann Creek in the Hitt mountains of Western Idaho, United States. Fin tissues were collected from individual trout from each stream during monthly sampling events in June through October 2020. </p> <p><em>DNA Extraction:</em> Extraction of DNA from caudal fin tissues were performed using Quick-DNA Miniprep Plus purification kits (Zymo Research Inc.©). Small sections of fin tissue (≤ 25 mg) were collected from each sample. This was mixed with a digesting solution comprised of ultra-pure water, solid tissue buffer (Zymo Research Inc.©) and proteinase K. All tissues were digested in sealed microcentrifuge tubes for at minimum 3 h at 55°C in a water bath. We then aliquoted 100 µL of digestion supernatant and combined with 200 µL of genomic binding buffer (Zymo Research Inc.©). DNA was eluted in 50, 75, and 100 µL of elution buffer to determine which volume provided sufficient DNA concentration for genotyping. After it was determined all quantities produced suitable concentrations, going forward, 50 µL of elution buffer used.</p> <p><em>Genotyping:</em> Following extraction, genotyping-in-thousands sequencing took place at the Hagerman National Fish Hatchery’s genetics research facility with the assistance of the Columbia River Intertribal Fish Commission (CRTFC). Genotyping protocols were as described in Campbell et al. (2015) and summarized below. First, samples were prepared for amplification via PCR by combining DNA extracts with a Qiagen Plus multiplex master mix and a species-specific pooled primer mix. This step added the Illumina sequencing primer sites to amplicons. Following the creation of the PCR cocktail, thermocycling was conducted for amplification. Amplified samples were then diluted 20-fold. Diluted samples were transferred to new 96-well PCR plates where two genetic indexes and barcodes provides a unique set of tagging primers to each well and plate. Tagged plates then underwent a second PCR step. After the second PCR, all DNA were transferred to Charm Biotech normalization plates where DNA was bound to wells, washed, and finally eluted. After normalization, all DNA was pooled together and a purification step using magnetized beads in two steps to selectively remove fragments of DNA that are both too large and too small for sequencing. Following purification, each plate was quantified via qPCR using Life Technologies QuantStudio 6 Flex Instrument (Life Technologies). Finally, sequencing was performed using an Illumina HiSeq 1500 instrument.</p> <p><strong>Ancillary peer-reviewed manuscripts:</strong><br> <em>Genotyping protocols</em><br> Campbell NR, Harmon SA, Narum SR. 2015. Genotyping-in-Thousands by sequencing (GT-seq): A cost effective SNP genotyping method based on custom amplicon sequencing. Mol Ecol Resour, 15: 855-867. https://doi.org/10.1111/1755-0998.12357<br> <em>SNP loci reference</em><br> Collins EE, Hargrove JS, Delomas TA, Narum SR. 2020. Distribution of genetic variation underlying adult migration timing in steelhead of the Columbia River basin. Ecology and Evolution, 10(17): 9486-9502. https://doi.org/10.1002/ece3.6641 </p> <p><strong>Data Use</strong>:<br> <em>License</em>: <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY 4.0</a> <br> <em>Recommended Citation</em>: Wooding AP, Narum SR, Pradhan DS. 2022. Data from: Development of Single Nucleotide Polymorphism (SNP) Panel for determination of environmental influence on genome for wild Columbia River redband trout (Oncorhynchus mykiss gairdnerii) in Southwest Idaho streams (0.1) [Data set]. Zenodo. https://doi.org/10.5281/zenodo.7055582</p> <p>Funding for this project is provided by US National Science Foundation and Idaho EPSCoR through award: OIA-1757324 </p>
Metal and nutrient content from submerged aquatic macrophytes collected from Southern Coeur d'Alene Lake, Idaho (USA) in August 2018.
<p>This repository contains data and R scripts used to produce the analyses reported in the manuscript listed below. See the Readme.txt and metadata.csv files for more explanation. The .R file can be used to unbundle the .tar.gz file via the packrat library. The data and script files are contained in the .tar.gz file. </p> <p>Scofield, B.D., Fields, S.F. & Chess, D.W. Aquatic macrophytes show distinct spatial trends in contaminant metal and nutrient concentrations in Coeur d’Alene Lake, USA. <em>Environ Sci Pollut Res</em> (2023). <a href="https://doi.org/10.1007/s11356-023-27211-x">https://doi.org/10.1007/s11356-023-27211-x</a></p>
Dataset from University of Idaho 2004, master's thesis [Littoral ecology of epilithic algae in the Rocky Reach Pool, Mid-Columbia River (Washington State) - The effects of reservoir fluctuations.]
(Abstract from thesis) Epilithic algae, water column physical/chemical properties, and sediments were examined in the impounded Mid-Columbia River including the Rocky Reach Reservoir. Primary objectives included determination of the effects reservoir drawdown has on epilithic algae and potential nutrient enrichment via sediment. Epilithic algae were analyzed by pigment concentration, gravimetrically, and species composition. Reservoir elevation fluctuated at higher rates at tailrace sites (0.41-0.25 m/hr) compared to the forebay site (0.06-0.08 m/hr). Littoral exposure times were also greater at tailrace sites (mean of 8 hrs compared to 0 hr at the forebay site). Mean epilithic algae monochromatic chlorophyll a over all sampling periods at mainstem sites was 76.7 ± 4.8 mg/m2 (95 % C.I.). Epilithic algae monochromatic chlorophyll a in the zone of water fluctuation (0-1 m) was less at Wells tailrace (38.8 mg/m2) compared to Rocky Reach forebay (141.3 mg/m2) during summer, 2000 and 2001. Mean epilithic biofilm ash-free oven-dry weight over all sampling periods at mainstem sites was 25.6 ± 1.5 g/m2 (95 % C.I.). Mean autotrophic index across all mainstem locations was 439 indicating a large heterotrophic component within the epilithic biofilms. Epilithic algae communities were dominated by diatoms (50.2 %) and cyanobacteria (35.9 %), with some green algae (13.8 %). Canonical correlation analysis indicated that temperature, depth, site, and the water elevation change rate were important controllers of epilithic algae chlorophyll pigments. Mean textural characteristics of dredged sediment were 51.1 % sand, 43.2 % silt, and 5.7 % clay. Mean organic matter content in this sediment was 4.1 %. The mean seston sedimentation rate across mainstem locations was 11.3 g m-2 d-1 and organic matter comprised 14.7 % of the material collected from the water column.
Patch-level rates of nitrogen fixation and denitrification and environmental covariates from seven streams in Idaho and Michigan
We hypothesized that environmental variation at the patch scale (1 - 10’s m) would facilitate the co-occurrence of N2 fixation and denitrification through the formation of hot spots in streams. We measured rates of N2 fixation and denitrification and relative abundances of the genes nifH and nirS in patches determined by channel geomorphic units and substrate type in 4 Idaho and 3 Michigan streams encompassing a gradient of N and P concentrations. This data package includes patch-level measurements of N2 fixation and denitrification rates, relative gene abundances of nifH and nirS, and environmental covariates (nutrient concentrations, water temperature, surface and subsurface dissolved oxygen concentrations, organic matter content) that were used to explore the factors that could predict process rates and relative gene abundances across patches and streams.
Water quality and stage in Gibson Jack Creek, SE Idaho, March-October 2020
Diel dissolved organic matter (DOM) variation can be used to understand hydrological and biogeochemical controls on organic matter cycling. We collected high-frequency fluorescent DOM data, and additional high-frequency data that could be used to parse controls, including stage, specific conductivity, water and air temperature, dissolved oxygen, and light availability at three locations in a non-perennial reach in Gibson Jack Creek, in southeastern Idaho. Weekly grab samples were collected for water chemistry throughout the study period. Data were collected from March 2020 through October 2020.
Stream Metabolism in Marsh Creek, Idaho, USA 2016-2017
Most research on stream metabolism uses a single reach to characterize a stream. We aimed to characterize variation in stream metabolism rates and the controls on metabolism along a 75-km agricultural stream. We continuously measured dissolved oxygen, discharge, conductivity, temperature, light, and turbidity using a variety of sensors deployed at 6 locations along Marsh Creek, a stream in southeastern Idaho. Monthly grab samples were collected for water chemistry throughout the study period, and aquatic vegetation was surveyed from May through September. Data were collected from October 2016 through October 2017.
FIGURE 1 in Kootenaia burkei, a new genus and species of slug from northern Idaho, United States (Gastropoda: Pulmonata: Arionidae)
FIGURE 1: Relief map of Idaho showing the localities of Kootenaia burkei new species. 1) Little Bumblebee Creek, Shoshone County (type locality), 2) Trestle Creek, Bonner County, 3) Beauty Creek, Kootenai County, 4) Heyburn State Park, Benewah County, and 5) East side of Harrison, Kootenai County. For detailed locality information see the Appendix. The lower photograph shows paratype CM 66247.
FIGURE 3 in Kootenaia burkei, a new genus and species of slug from northern Idaho, United States (Gastropoda: Pulmonata: Arionidae)
FIGURE 3. Eggs of Kootenaia burkei photographed on 10 September 2003, 62 days after being laid in the laboratory.
Text-fig. 1. Locality map with the approximate extent of Clarkia Lake during Miocene times in what is today northern Idaho, USA. Black dots mark three of the localities yielding the Miocene Clarkia flora; the fossil leaf of Nymphaea sp. described here comes from locality P-33. Other symbols: Dashed lines for county boundaries; a thin dotted line for Idaho State Hwy 3; a triangle for the local peak of Bechtel Butte; and a star for the town of Clarkia. Inset: Location of the map in northern Idaho. Abbreviations: WA – Washington state, OR – Oregon, ID – Idaho, MT – Montana. Map redrawn from Ladderud et al. (2015). in First Water Lily, A Leaf Of Nymphaea Sp., From The Miocene Clarkia Flora, Northern Idaho, Usa: Occurrence, Taphonomic Observations, Floristic Implications
Text-fig. 1. Locality map with the approximate extent of Clarkia Lake during Miocene times in what is today northern Idaho, USA. Black dots mark three of the localities yielding the Miocene Clarkia flora; the fossil leaf of Nymphaea sp. described here comes from locality P-33. Other symbols: Dashed lines for county boundaries; a thin dotted line for Idaho State Hwy 3; a triangle for the local peak of Bechtel Butte; and a star for the town of Clarkia. Inset: Location of the map in northern Idaho. Abbreviations: WA – Washington state, OR – Oregon, ID – Idaho, MT – Montana. Map redrawn from Ladderud et al. (2015).
Text-fig. 2. Nymphaea sp. from the Miocene Clarkia Lake flora, Locality P-33. a: Photograph of the fossil leaf. b: Sketch of leaf showing the salient features of shape, basal lobes and margin, eccentric insertion point of the abaxial petiole, and primary actinodromous venation. Dashed lines represent torn edge of lamina; dotted line is outline of right basal lobe. Line drawing by P. Martin Sander. Scale bar applies to both photo and drawing. in First Water Lily, A Leaf Of Nymphaea Sp., From The Miocene Clarkia Flora, Northern Idaho, Usa: Occurrence, Taphonomic Observations, Floristic Implications
Text-fig. 2. Nymphaea sp. from the Miocene Clarkia Lake flora, Locality P-33. a: Photograph of the fossil leaf. b: Sketch of leaf showing the salient features of shape, basal lobes and margin, eccentric insertion point of the abaxial petiole, and primary actinodromous venation. Dashed lines represent torn edge of lamina; dotted line is outline of right basal lobe. Line drawing by P. Martin Sander. Scale bar applies to both photo and drawing.
Fig. 8 in An Early Triassic gladius associated with soft tissue remains from Idaho, USA-a squid-like coleoid cephalopod at the onset of Mesozoic Era
Fig. 8. Coleoid cephalopod Idahoteuthis parisiana Doguzhaeva and Brayard gen. et sp. nov. (holotype, UBGD 30545); middle Olenekian, Early Triassic; Idaho, USA. A. Canalicular cartilage of fin-supported structure. B–D. Cartilaginous mantle band-shape structure on dorsal side showing a canalicular type of cartilage.
Fig. 7 in An Early Triassic gladius associated with soft tissue remains from Idaho, USA-a squid-like coleoid cephalopod at the onset of Mesozoic Era
Fig. 7. Coleoid cephalopod Idahoteuthis parisiana Doguzhaeva and Brayard gen. et sp. nov. (holotype, UBGD 30545); middle Olenekian, Early Triassic; Idaho, USA; cartilaginous mantle band-shape structure on the dorsal side of soft body. Overview (A) and detail of analicular cartilage (B). Abbreviation: dcm, dorsal cartilaginous mantle.
Fig. 9 in An Early Triassic gladius associated with soft tissue remains from Idaho, USA-a squid-like coleoid cephalopod at the onset of Mesozoic Era
Fig. 9. Coleoid cephalopod Idahoteuthis parisiana Doguzhaeva and Brayard gen. et sp. nov. (holotype, UBGD 30545); middle Olenekian, Early Triassic; Idaho, USA; globular ultrastructure of non-biomineralized structures. A. Sheet-like patch of flooded ink (top) and soft tissue debris (bottom); a site of the geochemical analysis is marked with a square. B. Undetermined long soft tissue piece showing a micro-granular ultrastructure on the dorsal side of the soft body. C. Micro-laminated ultrastructure of the gladius. D. Undetermined non-biomineralized micro-laminated fragment from the stomach. E. A linear fragment of soft tissue on dorsal side of the body. F. Micro-globular ultrastructure. Abbreviations: i, ink sheet-like patch; sbt, soft body tissues; std, soft tissue debris.
Fig. 6 in An Early Triassic gladius associated with soft tissue remains from Idaho, USA-a squid-like coleoid cephalopod at the onset of Mesozoic Era
Fig. 6. Coleoid cephalopod Idahoteuthis parisiana Doguzhaeva and Brayard gen. et sp. nov. (holotype, UBGD 30545); middle Olenekian, Early Triassic; Idaho, USA; views on the canalicular structure of fin-supported cartilages (A–D).
Fig. 1. A in An Early Triassic gladius associated with soft tissue remains from Idaho, USA-a squid-like coleoid cephalopod at the onset of Mesozoic Era
Fig. 1. A. Palaeogeographic map of the western USA basin during the Early Triassic. B. Present-day location of the studied exposure. C. Synthetic stratigraphical and lithological succession of the Bear Lake area (after Romano et al. 2013) with position of the studied specimen. Ammonoid zonation after Jenks et al. (2013) and Jattiot et al. (2016). Stratigraphy follows the main units defined by Kummel (1954). Radiometric ages after Galfetti et al. (2007) and Burgess et al. (2014). Abbreviations: LL, Lower Limestone; LS,Lower Shale; ML, Middle Limestone; MS, Middle Shale; UCS, Upper Calcareous Siltstone.
Fig. 4 in An Early Triassic gladius associated with soft tissue remains from Idaho, USA-a squid-like coleoid cephalopod at the onset of Mesozoic Era
Fig. 4. Coleoid cephalopod Idahoteuthis parisiana Doguzhaeva and Brayard gen. et sp. nov. (holotype, UBGD 30545); middle Olenekian, Early Triassic; Idaho, USA; arm-hooks in the stomach. A. A well exposed arm-hook with deformed shaft and a broken distal end of the basement, tip not exposed; another arm-hook less visible and fractured. B. Three deformed arm-hooks. C. A deformed arm-hook showing a depression along the compressed shaft. Abbreviations: h, arm-hook; i, ink sheet-like patch.
Fig. 5 in An Early Triassic gladius associated with soft tissue remains from Idaho, USA-a squid-like coleoid cephalopod at the onset of Mesozoic Era
Fig. 5. Coleoid cephalopod Idahoteuthis parisiana Doguzhaeva and Brayard gen. et sp. nov. (holotype, UBGD 30545); middle Olenekian, Early Triassic; Idaho, USA; fin-supported cartilages. The surfaces of fractured cartilages (A–C), outer surface (D). Abbreviation: f, fin.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.