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730 results for “Trout”
North Temperate Lakes LTER: High Frequency Water Temperature Data - Trout Lake Buoy 2004 - current
The instrumented buoy on Trout Lake is equipped with a thermistor chain that measures water temperature from thermistors placed throughout the water column. From 2004 to mid-summer 2006, thermistors were placed every 0.5-1m from the surface through 14m, and every 2 to 4m from 14m to the bottom of the water column at 31m. The surface temperature sensors are attached to floats so that they are as close to the surface as feasible. In July 2006, a new thermistor chain was deployed with sensors placed every meter from the surface through a depth of 19 meters. This configuration lasted through 2008 and was used again 2012-2014. In the period 2009-2011, thermistors were place every meter down to 20m and then every two meters to a final depth of 32m. From 2015 to present, thermistors are spaced 0.25 meters from the surface to 1m, 0.5 meters down to 4 meters depth, and 1m spacing to 14 meters. Four more thermistors are at depths of 16, 20, 25 and 30 meters. Sampling frequency was 10 minutes in 2004-2005 and again 2007-2010. It was 2 minutes in 2006. Since 2011, sampling frequency has been every minute. Hourly and daily averages are also provided. Number of sites: 1.
North Temperate Lakes LTER: High Frequency Meteorological and Dissolved Oxygen Data - Trout Lake Buoy 2004 - current
The instrumented buoy on Trout Lake is equipped with a dissolved oxygen sensor, a thermistor chain, and meteorological sensors that provide fundamental information on lake thermal structure, weather conditions, and lake metabolism. Data are usually collected every 10 minutes with occasional periods of 2 minute data for short periods to answer specific questions. The D-Opto dissolved oxygen sensor is 0.5m from the lake surface. Meteorological sensors measure wind speed, wind direction, relative humidity, air temperature, photosynthetically active radiation (PAR), and barometric pressure. Starting in 2005, thermistors were placed every 0.5-1m from the surface through 14m and every 2 to 4m from 14m to the bottom of the water column at 31m. In July 2006, a new thermistor chain was deployed with thermistors placed every meter from the surface through a depth of 19 meters. After correcting for flux to or from the atmosphere and vertical mixing within the water column, high frequency measurements of dissolved gases such as carbon dioxide and oxygen can be used to estimate gross primary productivity, respiration, and net ecosystem productivity, the basic components of whole lake metabolism. Data are averaged to daily values from one minute samples for years 2005 - 2006. Daily values are computed from high resolution data starting in year 2007. Data are averaged to hourly values from one minute samples for years 2005 - 2008, Hourly values are computed from high resolution data starting in year 2009. Hourly and daily values may not be current with high resolution data in the current year. Sampling Frequency: varies for instantaneous sample. averaged to hourly and daily values from one minute samples. Times are Central Standard Time (CST). Number of sites: 1
North Temperate Lakes LTER: Ice Duration - Trout Lake Area 1981 - current
Data includes day of freeze-up and thaw dates of seven northern primary lakes (Allequash, Big Muskellunge, Crystal, Sparkling, Trout, Crystal Bog, and Trout Bog). Observations are made approximately every other day during times of freeze and thaw. A lake is considered ice covered when the sampling station (the deepest part of the lake) is ice covered. The lake is considered thawed when it is possible to drive a boat from the boat landing to the sampling station without encountering ice. The ice duration is the number of days during the winter season that the lake surface was frozen. This is calculated using the average date of ‘lastopen’ and ‘ice_on’ for freeze-up, and the average date of ‘lastice’ and ‘ice_off’ for the thaw. The average is rounded forward. A few early years do not have all four dates so duration in those cases use whatever dates are available. The ‘comments’ column notes the dates when multiple freeze/thaws occurred during the winter. Sampling Frequency: annually. Number of sites: 7.
North Temperate Lakes LTER: Chlorophyll - Trout Lake Area 1981 - current
Chlorophyll and phaeopigments are measured at our permanent sampling station in the deepest part of each lake. A profile of chlorophyll samples is collected from the seven primary study lakes: Allequash, Big Muskellunge, Crystal, Sparkling, and Trout lakes and bog lakes 27-02 (Crystal Bog), and 12-15 (Trout Bog) and analyzed spectrophotometrically. Sampling Frequency: fortnightly during ice-free season - every 6 weeks during ice-covered season Number of sites: 7
North Temperate Lakes LTER: Zooplankton - Trout Lake Area 1982 - current
Zooplankton samples are collected from the seven primary northern lakes (Allequash, Big Muskellunge, Crystal, Sparkling, and Trout lakes and bog lakes 27-02 [Crystal Bog], and 12-15 [Trout Bog]) at two to nine depths using a 2m long Schindler Patalas trap (53um mesh) and with vertical tows using a Wisconsin net (20cm diameter, 80um mesh). Zooplankton samples are preserved in buffered formalin (until 2001) or 95% ethanol (2001 onwards). Subsamples of the individual Schindler trap samples are combined to create a hypsometrically pooled sample which is counted for copepods, cladocerans, and rotifers. Data are summed over sex and stage to provide a lake-wide estimate of organisms per liter for each species. A minimum of 5 samples per lake-year are counted. The data set also contains length measurements for copepods and cladocerans. The Wisconsin net sample and the pooled sample are archived in the UW Zoology museum. Each year one complete set of Schindler Patalas depth samples collected in August is also archived. From 1981 to August 1986 - used a 0.5m high Schindler Patalas trap. Sampling Frequency: every two weeks during ice-free season, every 5 weeks during ice-cover. Number of sites: 7
North Temperate Lakes LTER: Sediment Deposition - Trout Lake Area 1986 - current
Settling particulate matter is collected using sediment traps deployed in the hypolimnion at the deepest part of the lake. Duplicate traps are set at one station in Trout, Sparkling and Crystal lakes. Traps are deployed during the ice-free period for four-week intervals. Mass deposition rates are calculated from the dry-weight of material collected, and mass flux is reported as mg per meter-squared per day. Sampling Frequency: every four weeks during ice-free season. Number of sites: 3.
North Temperate Lakes LTER: High Frequency Meteorological and Metabolism Data - Trout Bog Buoy 2003 - present
The instrumented buoy on Trout Bog is equipped with a dissolved oxygen sensor, a thermistor chain, light sensor, and in the past, meteorological sensors that provide fundamental information on lake thermal structure and lake metabolism. A surface buoy was used from 2003 - 2014, which included a met station (air temp and winds). Since then, only a subsurface buoy as been used (no met station), and includes frequent over-winter deployments under the ice. The thermistor chain data is included in a separate dataset (knb-lter-ntl.70). Hourly and daily averages are provided for the met data, while hourly averages are provided for the dissolved oxygen and light data. To accommodate the under-ice deployments, sensor depths vary somewhat year-to-year. Light data is collected with HOBO pendant light and temperature sensors. The make of the dissolved oxygen sensor has changed over the years: Greenspan DO (2003-2005), D-Opto (2006-2014), and PME miniDOT (2015-present).
North Temperate Lakes LTER: High Frequency Water Temperature Data - Trout Bog Buoy 2003 - current
The instrumented buoy on Trout Bog is equipped with a thermistor chain that measures water temperature from depths ranging from the surface to 7m placed every 0.5-1m throughout the water column. From the initial deployment in 2003 through 2014, a surface buoy was used in the open water season. Since 2015, a subsurface buoy has been used, including under-ice deployments during the winter. Recorded depths can vary slightly depending on specifics of the year's deployment hardware. The sampling frequency:varies for instantaneous samples. Prior to 2011, the sample frequency was every 10 minutes, with some short periods of 2 minutes in 2003. Beginning in 2011, the sample frequency has been one per minute. Hourly and daily averages are also provided. Number of sites: 1.
North Temperate Lakes LTER: Color - Trout Lake Area 1989 - current
Color is measured four times per year in the seven northern study lakes (Allequash, Big Muskellunge, Crystal, Sparkling, and Trout lakes, unnamed lakes 27-02 [Crystal Bog] and 12-15 [Trout Bog]) on water samples that are filtered in the field through 0.45 micron capsule filters (0.45 um nuclepore membrane filters before 2015). A spectrophotometer is used to quantify color in the lab as absorbance units, at 1nm intervals between the wavelengths of 200 and 800 nm. All values are in absorbance units and are given as measurements at the path length of the employed cuvette and should be divided by the cuvette length for a comparable value at a pathlength of 1 cm. Sampling Frequency: 4 times annually. Number of sites: 7.
Dataset and supplementary files - Behavioral response of chub (Squalius cephalus), barbel (Barbus barbus) and brown trout (Salmo trutta) to pulsed direct current electric fields and resulting optimal waveform for use at electrified bar racks
<p><strong>Behavior Library.zip: </strong>For each species and behavior observed during the experiments an exemplary video is provided. </p><p><strong>Behavior_all.pdf: </strong>Additional plots showing the thresholds for the first time each individual behavior was observed for all fish species and tested waveforms</p><p><strong>Species.pdf: </strong>Additional plot allowing direct comparison of observed thresholds for the tested species when subjected to different waveforms. </p><p><strong>data.csv:</strong> All data necessary to reevaluate the conducted experiments. The dataset consists of</p><ul><li>Experiment ID</li><li>waveform - indicating the set of electrical parameters used</li><li>fish species and fish id </li><li>behavior - observed behavior</li><li>time from and time to - time in s after the start of the experiment that a behavior was started and ended respectively</li><li>type - point or interval referring to whether a behavior is considered instantaneous or continuous</li><li>voltage - applied voltage at the start of the given behavior</li><li>experiment_timestamp - date and time of the start of the experiment</li><li>breathing rate start - breathing rate at the start of the experiment</li><li>water conductivity - water conductivity at a reference temperature of 25°C [muS/cm]</li><li>water temperature [°C]</li><li>breathing rate end - breathing rate at the end of the experiment</li><li>meta behavior - assigned category of meta behavior based on the observe behavior category</li><li>standard length, total length and height - standard length, total length and height of the tested fish in [mm]</li><li>volume - calculated fish volume based on the measured length and height and an assumed elliptical form of the fish</li><li>Fangdatum - Date of catch</li><li>t.Pulse - pulse length of the tested waveform [ms]</li><li>Frequency - Frequency of the tested waveform</li><li>N.Pulses.Group - Number of pulses per group of pulses for the waveform pattern</li><li>t.Gap - time between two pulses within a group of pulses [ms]</li><li>DutyCycle - Percentage of time current is flowing for a given waveform. Calculated based on the waveform parameters</li><li>usage - first, second or third time a fish was used in the experiments. </li><li>field strength - field strength at the time of this behavior calculated based on the applied voltage</li><li>c_w ambient water conductivity [muS/cm]</li><li>p_d - power density calculated based on the field strength and the ambient water conductivity</li><li>p_t - power transferred to the fish calculated based on the field strength, the ambient water conductivity and an assumed conductivity of the fish of 115 muS/cm</li></ul><p> </p><p> </p>
Underlying data - Digital Twin for Rainbow Trout (Oncorhynchus mykiss) land-based aquaculture
<p>Datasets for replicating Figures 5, 6, 7 and 8 of the article "Digital twins for land-based aquaculture: a case study for rainbow trout (<em>Oncorhynchus mykiss</em>)", by Adriano C. Lima, Edouard Royer, Matteo Bolzonella, and Roberto Pastres.</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>
Brook trout (Salvelinus fontinalis) cyt b qPCR data from Hidden Lake (Banff National Park, Canada) over two rotenone applications between 2018 and 2020.
Water samples were taken in Hidden Lake at five different time points around two rotenone applications: (i) five weeks prior to the first rotenone application, on July 12 2018; (ii) approximately three weeks after the first application of rotenone, on 7 September 2018; (iii) approximately 10 months after the first rotenone application, on 10 July 2019; and (iv) one year after the final rotenone treatment, on 19 August 2020. For each time point, four pelagic and four littoral water samples were taken from Hidden Lake, as well as 8 to 13 water samples from Hidden Creek and Coral Creek for a total of 16 to 21 samples per time point. Quantitative PCR (qPCR) method was used to produce brook trout (Salvelinus fontinalis) cytochrome b copy number for each sample. The objective of this study was use eDNA to assess the efficacy of invasive brook trout removal using rotenone.
SBC LTER: Land: Hydrology: Santa Barbara County Flood Control District - Precipitation at Trout Club (TroutClub242)
Precipitation was collected by the Santa Barbara County Flood Control District at Trout Club (TroutClub242) in the Santa Barbara coastal area. Data are reported hourly, and times reflect the end of the each 1-hour interval. For more information, see https://www.countyofsb.org/pwd/hydrology.sbc
Video S4 - Angling for Restored Native Cutthroat Trout
<p><strong>Video S4.</strong> Yellowstone cutthroat trout recovery results in large adults returning to tributaries of the upper Yellowstone River to spawn. Sustained gillnetting suppression of invasive lake trout is allowing for a recovery of native Yellowstone cutthroat trout. Although abundances remain below target levels, the relative weights (condition) of cutthroat trout have increased, large individuals (400+ mm) are more prevalent, and individual weights have more than doubled over the past four decades. Cutthroat trout from Yellowstone Lake make long-distance (> 40 km) spawning migrations upstream from Yellowstone National Park and into the remote headwaters of the upper Yellowstone River in the Bridger-Teton Wilderness, Wyoming, USA. Here, Liz Storer, Wyoming Storer Foundation and Jason Burckhardt, Wyoming Game and Fish Department are fly-fishing for the migratory cutthroat trout in Atlantic Creek during early July, 2019. The cutthroat trout transport lake-derived nutrients into these remote headwaters in U.S. Forest Service lands, highlighting the importance of large, unfragmented, highly protected watersheds such as those of Greater Yellowstone. Partnerships with the Storer Foundation, the Wyoming Game and Fish Department, and numerous others developed over the past 25 years were the driving force behind the initial recovery of cutthroat trout and restoration of this ecosystem.</p>
Video S1 - Native Cutthroat Trout and the Yellowstone Lake Ecosystem
<p><strong>Video S1.</strong> The Yellowstone Lake ecosystem in Yellowstone National Park. Following glacial recession, cutthroat trout evolved as the sole salmonid and dominant fish within Yellowstone Lake and its connected river network. Yellowstone Lake is a large aquatic system on the Yellowstone Plateau (2,357 m in elevation) with a highly protected watershed (> 3200 km2) located within Yellowstone National Park and the Bridger-Teton Wilderness of Wyoming, USA. Powerboat access is limited to only two locations, and most of the shoreline lies in protected (federally proposed) wilderness. Thermal structure of the lake is typically unstable with a weak and variable thermocline at a depth of 12–15 m during July-September. Surface water temperatures rarely exceed 18°C. The lake freezes over by late December and can remain frozen until late May or early June. In winter, ice about 1 m thick covers much of the lake except where shallow water covers active hot springs. During spring (May-July), cutthroat trout spawn in tributaries around Yellowstone Lake, where they are important prey for grizzly bears, black bears, river otters, and numerous avian predators.</p>
Data from: Sex-specific effects of inbreeding in juvenile brown trout
<p>Inbreeding depression, i.e., the reduction of health and vigour in individuals with high inbreeding coefficients, is expected to increase with environmental, social, or physiological stress. It has therefore been predicted that sexual selection and the associated stress usually lead to higher inbreeding depression in males than in females. However, sex-specific differences in life history may reverse that pattern during certain developmental stages. In some salmonids, for example, female juveniles start developing their gonads earlier than males who instead grow faster. We tested whether the sexes are differently affected by inbreeding during that time. To study the effects of inbreeding coefficients that may be typical for natural populations of brown trout (<em>Salmo trutta</em>), and also to control for potentially confounding maternal or paternal effects, we sampled males and females from the wild, used their gametes in a block-wise full-factorial breeding design to produce 60 full-sib families, released the offspring as yolk-sac larvae into the wild, sampled them 6 months later, identified their genetic sex, and used microsatellites to assign them to their parents. We used whole-genome resequencing to calculate the kinship coefficients for each breeding pair and hence the expected average inbreeding coefficient per family. Juvenile growth could be predicted from these expected inbreeding coefficients and the genetic sex: Females reached lower body sizes with increasing inbreeding coefficient, while no such link could be found in males. This sex-specific inbreeding depression led to the overall pattern that females were on average smaller than males by the end of their first summer.</p>
F I G U R E 1 in Differences in growth between offspring of anadromous and freshwater brown trout Salmo trutta
F I G U R E 1 The River Imsa (1) in southwestern Norway where the anadromous Salmo trutta spawned. (A) The location of the fish trap where the anadromous fish were sampled. (B) The location of the upstream impassable waterfall, built between 1993 and 1995. (C) The brook, Fossbekk, where the resident fish spawned
F I G U R E 4 in Differences in growth between offspring of anadromous and freshwater brown trout Salmo trutta
F I G U R E 4 Mean growth per day (Ω, Equation 1, ±S.D.) at 18.3 C and 14.9 C of juvenile age 0 offspring of (a) 7.1 C and (b) 4.4 C incubated freshwater resident Salmo trutta (1, solid line) and anadromous (3, broken line), and hybrids between freshwater resident and anadromous (2, dotted line) S. trutta of the River Imsa, Norway
FIGURE 3 in Body shape and robustness response to water flow during development of brown trout Salmo trutta parr
FIGURE 3 Mass–standard length (M–LS) relationships (MLR) determined for exercised () and control () Salmo trutta cohorts over 0–32 weeks from treatment initiation. Each cohort included LS00 individuals (n = 6) as a common origin
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