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2,367 results for “aquatic”
Landscape Position Project at North Temperate Lakes LTER: Aquatic Macrophytesn 1998 - 1999
Submersed and floating macrophytes were surveyed along transects running perpendicular to shore at two sites representative of muck (organic) and sand substrate macrophyte communities. Data were collected by Karen A. Wilson as part of her PhD work in Northern Wisconsin, (Vilas and Onieda Counties) during July and August of 1998 and 1999. Details of field collections can be found in Wilson, K.A. 2002. Impacts of the invasive rusty crayfish (Orconectes rusticus) in northern Wisconsin lakes. Ph.D. Dissertation. University of Wisconsin, Madison. Number of sites: 30 lakes; 2 sites per lake
Survey of pond habitats and aquatic diversity of Madison, Wisconsin from May to Aug 2019 and 2020 Data Set
1) Urbanization may lead to changes in local richness (alpha diversity) or in community composition (beta diversity), although the direction of change can be challenging to predict. For instance, introduced species may offset the loss of native specialist taxa, leading to no change in alpha diversity in urban areas, but decreased beta diversity (i.e., more homogenous community structure). Alternatively, because urban areas can have low connectivity and high environmental heterogeneity between sites, they may support distinct communities from one another over small geographic distances. 2) Wetlands and ponds provide critical ecosystem services and support diverse communities, making them important systems in which to understand consequences of urbanization. To determine how urban development shapes pond community structure, we surveyed 68 ponds around Madison, Wisconsin, USA, which were classified as urban, greenspace, or rural based on surrounding land use. We evaluated the influence of local abiotic factors, presence of nonnative fishes, and landscape characteristics on alpha diversity of aquatic plants, macroinvertebrates, and vertebrates. We also analyzed whether surrounding land cover was associated with changes in community composition and/or the presence of specific taxa. 3) We found a 23% decrease in mean richness (alpha diversity) from rural to urban pond sites, and a 15% decrease in richness from rural to urban greenspace pond sites. Among landscape factors, observed pond richness was negatively correlated with adjacent developed land and mowed lawns, as well as greater distances to other waterbodies. Among pond level factors, habitat complexity was associated with increased richness, while the presence of invasive fish was associated with decreased richness. 4) Beta diversity was relatively high for all ponds due to turnover in composition between sites. Urban ponds supported more introduced species, lacked a subset of native species found in rural ponds,
Using the Tea Bag Index to unravel how interactions between an antibiotic (Trimethoprim) and endocrine disruptor (17a-estradiol) affect aquatic microbial activity: Supporting Dataset 1
<p>The constant release of complex mixture of pharmaceuticals, including antimicrobials and endocrine disruptors, into the aquatic environment. These have the potential to affect aquatic microbial metabolism and alter biogeochemical cycling of carbon and nutrients. We used the Tea Bag Index (TBI) for decomposition within a series of contaminant exposure experiments to test how interactions between an antibiotic (trimethoprim) and endocrine disruptor (17a-estradiol) affects microbial activity in an aquatic system. The TBI is a citizen science tool used to test microbial activity by measuring the differential degradation of green and rooibos tea as proxies for labile and recalcitrant organic matter decomposition. Here we present the raw data on pharmaceutical exposures and the mass loss of the Rooibos and Green tea bags within the experiment. From Tea Bag mass loss we then calculated the Stabilisation Factor (S) and Initial Decomposition Rate of the labile organic matter fraction.</p>
Curated mode-of-action data and effect concentrations for chemicals relevant for the aquatic environment
<p>Chemicals in the aquatic environment can be harmful to organisms and ecosystems. Knowledge on effect concentrations as well as on mechanisms and modes of interaction with biological molecules and signaling pathways is necessary to perform chemical risk assessment and identify toxic compounds. To this end, we developed criteria and a pipeline for harvesting and summarizing effect concentrations from the US ECOTOX database for the three aquatic species groups algae, crustaceans, and fish and researched the modes of action of more than 3,300 environmentally relevant chemicals in literature and databases. We provide a curated dataset ready to be used for risk assessment based on monitoring data and the first comprehensive collection and categorization of modes of action of environmental chemicals. Authorities, regulators, and scientists can use this data for the grouping of chemicals, the establishment of meaningful assessment groups, and the development of <em>in vitro</em> and <em>in silico</em> approaches for chemical testing and assessment.</p> <p> </p> <p> </p>
Data belonging to: Teurlincx, S., Verhofstad, M. J., Bakker, E. S., & Declerck, S. A. (2018). Managing successional stage heterogeneity to maximize landscape-wide biodiversity of aquatic vegetation in ditch networks. Frontiers in plant science, 9, 1013.
<p>Data belonging to the paper Teurlincx, S., Verhofstad, M. J., Bakker, E. S., & Declerck, S. A. (2018). Managing successional stage heterogeneity to maximize landscape-wide biodiversity of aquatic vegetation in ditch networks. Frontiers in plant science, 9, 1013.</p> <p>Data includes analysis scripts (R Language) and all used data files. Data is composed of location information of the different sites, environmental conditions on site and vegetation composition.</p>
Generalization of a density-dependent ecosystem function in dominant aquatic macroinvertebrates
<div> <div> <p>This Zenodo record contains the supporting data and code for the publication 'Generalization of a density-dependent ecosystem function in dominant aquatic macroinvertebrates', published in Oikos (<a title="DOI to publication" href="https://doi.org/10.1111/oik.10774">https://doi.org/10.1111/oik.10774</a>). The data are described in detail in the corresponding publication. The data archive contains a ReadMe file, two text files with the empirical data, and a corresponding R script for analysis. All required data to reproduce the full analysis from the original publication are provided.</p> <p>In order to reproduce the analysis and figures, run <code>DensityDependenceAnalysis20240319.R</code>. Make sure that your working directory is the actual folder containing the data files <code>Data_Field.txt</code> and <code>Data_Lab.txt</code>. If run in Rstudio, this should happen automatically. Else this is easily achieved by (re)starting R (or R Studio) by double-clicking the R script file from the folder. The script will produce all the figures from the paper, organized in a folder <code>AnalysisYYYYMMDD</code> and two subfolders <code>CheckFigs</code> and <code>SuppFigs</code>. Figures are prepared as pixel graphics (PNG).</p> </div> </div>
Aquatic Mollusca (Gastropoda and Bivalvia) from the Malaysian Borneo: The inconsistency records
<p>This data set contains the available taxonomic inconsistencies of aquatic Mollusca (Gastropoda and Bivalvia) reported from Malaysian Borneo (East Malaysia) comprised of two provinces namely Sarawak and Sabah along with the federal territory of Labuan. </p>
Water chemistry and aquatic vegetation data from Les Cheneaux Islands, Northern Lake Huron, Michigan, USA, 2016-2018
Remote sensing approaches that could identify species of submerged aquatic vegetation (SAV) and measure their extent in lake littoral zones would greatly enhance their study and management, especially if they can provide faster or more accurate results than traditional field methods. Remote sensing with multispectral sensors can provide this capability, but SAV identification with this technology must address the challenges of light extinction in aquatic environments where chlorophyll, dissolved organic carbon, and suspended minerals can affect water clarity and the strength of the sensed light signal. Here, we present environmental data collected to support a study using an unmanned aerial system (UAS)-enabled methodology to identify the extent of the invasive SAV species Myriophyllum spicatum (Eurasian watermilfoil, or EWM) in the Les Cheneaux Islands area of northwestern Lake Huron, Michigan, USA. Data collected includes water chemistry (nitrogen, phosphorus, carbon, suspended solids, chlorophyll a), light profiles, and submerged aquatic vegetation characteristics including cover, species dominance using aquatic vegetation survey methods (AVAS), and biomass.
Interlaboratory testing of CuSO4 toxicity in the “Standardized Aquatic Microcosm” protocol consisting of multiple phytoplankton and animals in a chemically defined medium.
Four different laboratories conducted a total of ten experiments of the “Standardized Aquatic Microcosm” to test the reproducibility of results to control, low, medium, and high concentrations of CuSO4. In nine experiments, treatments consisted of six replicates of 0, 500, 1000, and 2000 ppb Cu++. One experiment, ME74, used 0, 127, 255, 509 ppb. The purpose was to test a chemically defined medium (thus negating differences due to local water supplies) and the same 10 species of phytoplankton and 5 animals, including Daphnia. Microbes were undefined. The protocol included the weekly re-introduction of small numbers of each species to allow potential recovery from toxicity. Control microcosms had a “spring algal bloom” terminated by zooplankton grazing and multiple competitive interactions. The copper inhibited some phytoplankton more than others and killed many grazers, especially Daphnia. The data set presented several interesting statistical properties that would yield new insights. (a) The results were very similar, but the timing varied— the higher the concentration of copper, the longer the inhibition and mortality of organisms, so those at 500 ppb recovered earlier, the 1000 ppb recovered later, and at 2000 ppb most never recovered. But if compared on each sampling day, e.g., 10, 14, … to 64, results appear highly variable. (b) In at least one experiment, the toxicity of copper was challenging to demonstrate statistically because high variability in the timing of recovery of the intermediate concentration increased pooled variances. (c) The elimination of highly-sensitive dominant organisms allowed less-sensitive organisms to increase in abundance. Within natural environments, the observation that some species increase in the presence of toxic substances has been used to discredit toxicity testing without considering the relative sensitivities of competing or predatory species. (d) The competitive interactions among organisms, e.g., cyanobacteria and green alga
General Lake Model-Aquatic EcoDynamics model parameter set for Falling Creek Reservoir, Vinton, Virginia, USA 2013-2019
The General Lake Model (GLM), an open-source, one-dimensional hydrodynamic model, was used to simulate physical, chemical, and biological variables in Falling Creek Reservoir, Vinton, Virginia, USA between 15 May 2013 and 31 December 2019. GLM (v.3.2.0a3) was coupled to the Aquatic EcoDynamics (AED) module library via the Framework for Aquatic Biogeochemical Modeling (FABM). GLM-AED requires three configuration files to run the model. First, the glm3.nml file configures lake metadata (including hypsometry), meteorological driver data, stream inflow and outflow driver data files, and physical response variables (mixing parameters and sediment heat zones). Second, the aed2_20220111_2DOCpools.nml file configures various biogeochemical modules for the simulation of oxygen, carbon, silica, nitrogen, phosphorus, organic matter, and phytoplankton. Third, the aed2_phyto_pars_4Jan2022.nml file configures all parameters pertaining to phytoplankton dynamics. Meteorological data, two surface stream inflow files, a submerged oxygenation inflow file, and outflow file used in this calibration are also included.
Submersed Aquatic Vegetation community multi-year data from the Sacramento - San Joaquin Delta in California
Since 2007, field data have been collected in the Sacramento - San Joaquin Delta in northern California for the purpose of training and validating invasive species maps derived from remote sensing imagery over the Delta. The field crew collected submersed aquatic vegetation (SAV) species location data. For each point they noted attributes such as species name(s), location, cover estimates, and patch size. In addition, a thatching rake tethered to a rope was thrown off the side of the boat and pulled back out of the water; Secchi depth was measured using a Secchi disk and depth to the SAV mat was estimated by the field crew. Points were collected in patches larger than 9 square meters (3 m x 3 m). Point locations were measured using high precision (sub-meter accuracy) Trimble DGPS units (Trimble Navigation Limited, Sunnyvale, California) with Wide Area Augmentation System (WAAS) differential correction. All data points were exported as ArcGIS shapefiles and projected to UTM Zone 10N, Datum WGS-84 however this dataset includes the Latitude and Longitude of each point in decimal degrees. The spatial and attribute data quality was checked by examining photos of the data points and confirming the identify of the documented species.
Submersed aquatic vegetation community composition in the Sacramento-San Joaquin Delta integrated across four surveys
Submersed aquatic vegetation (SAV) has become widespread in the Sacramento-San Joaquin Delta (Delta), and the diverse SAV assemblage is dominated by non-native species. SAV negatively impacts this estuarine ecosystem by impeding flows needed for water delivery and flood control, degrading habitat needed by native species, increasing breeding habitat for disease-vectoring mosquitoes, harboring non-native predatory fish, and hindering water recreation. The goal of this published integrated dataset is to facilitate study of these impacts. This data set includes four surveys conducted in the region during 2008-2021. Two of these are short-term special studies that have been completed, and two are ongoing long-term annual surveys. The nearshore survey of SAV and largemouth bass was conducted by the University of California-Davis (UC-Davis) at sites across the Delta during 2008-2010. The Aquatic Weed Control Action was completed by the Department of Water Resources as part of the Delta Smelt Resiliency Strategy and included monthly surveys of four sites during 2017-2018. The ongoing survey of Franks Tract is conducted annually by the SePRO corporation and the Division of Boating and Waterways, and available data are from 2014-2021. The ongoing annual survey conducted by the UC-Davis Center for Spatial Technologies and Remote Sensing covers many areas of the Delta and spans 2007-2008 and 2014-2021. Additional data from these ongoing surveys and data from other surveys will be added in subsequent versions of this data set.
Density-dependent effects of exotic brook trout on aquatic communities in mountain lakes revealed by environmental DNA and morphological taxonomy
Invasion of non-native fishes threatens freshwater biodiversity worldwide. Yet, detailed estimates of population demography for invasive species, that estimate population size and body size of the invasive species, are rarely integrated in evaluating aquatic community responses. Our study capitalized on detailed brook trout population demographic data collected for a replicated whole lake ecosystem experiment involving experimental harvesting of exotic brook trout in nine mountain lakes. We applied environmental DNA (eDNA) metabarcoding and morphological taxonomy to examine the response of crustacean zooplankton and macroinvertebrate communities to gradients in brook trout effective density and lake elevation. Density-dependent effects of brook trout on crustacean zooplankton and macroinvertebrate communities were detected even decades after their first introductions (between 1926 and 1980). However, they were moderated by environmental factors such as elevation, lake maximum depth and dissolved organic carbon. Elevation was important in structuring crustacean zooplankton and macroinvertebrate community composition. While there were differences in explanatory variables when describing communities characterized by eDNA metabarcoding and morphological taxonomy, the principal environmental factors that structured the communities were similar. Our paper highlights persisting density-dependent impacts of exotic trout on invertebrate communities even decades after first introduction, and it considers the conservation implications for lake restoration.
Sampling sites where ecological indices were used to assess the impact of different environmental stressors in aquatic environments in Argentina
Dataset is a compilation of all sampling sites of articles where ecological indices were used to assess the impact of different environmental stressors in aquatic environments from Argentina. Points of this dataset were extracted from 78 papers published between 1996 and 2018. We selected articles that use ecological indices to analyze some local environmental problematics or stressors. Using the type of index from each article we performed the kml file, which contained the categorized sampling sites by different symbols according to the ecological index: physico-chemical, biological, geomorphological and multimetric. We carried out a map (shapefile) with all the sampling sites referenced to the ecoregions of Argentina proposed by Burkart (1999).
Comparison of terrestrial versus aquatic decomposition rates of logs at the Andrews Experimental Forest, 1985 to 2015
The data collected from this study describe the decomposition of small logs (20-30 cm diameter, 2 m length) in a stream channel to those on an adjacent upland site at the H. J. Andrews Experimental Forest. The stream is a 3rd order above the junction of Lookout Creek and Mack Creek. Three species of trees are being examined: Douglas-fir, western hemlock, and red alder. Data collection started in 1985 and is scheduled to continue to 2050. Periodically a subset of logs is resampled to determine changes in volume, bark cover, density, and nutrient stores. The last set of samples was collected in 2005. Logs ranging in diameter between 20 and 30 cm of a length of 2 m were cut out of live trees of the three species. Logs were placed by hand along a skid road at the terrestrial site. A cable system was used to place log randomly along a stream reach. The location of logs in the stream is noted when they are sampled. The length and diameter as well as bark cover of each sampled log is noted at the time of sampling (td01701). Six cross-sections are removed with a chainsaw. The thickness of the tissue types is noted (inner bark, outer bark, sapwood, and heartwood) and are described in td01702. Samples of each tissue type are taken to determine their moisture content (water mass/dry mass) and density (dry mass/green volume). Density is derived from dry mass and volume as determined via dimensional measurements. Dimensional data, volumes, masses, density, and moisture content are documented in the td01703 table. The volume of logs and tissue types, the total mass, and proportional mass of the tissue types as well as moisture contents is derived from the data in the other data tables and is stored in the td01704 table.
Aquatic and terrestrial insect activity phenology with trap collections at the Andrews Experimental Forest, 2009-2014
This study was designed to evaluate the influence of microclimatic heterogeneity, associated with complex terrain, on phenology and to evaluate potential trophic responses to scenarios of climate change, disturbance and land use. We focus on a simplified model trophic system involving vascular plants, terrestrial and aquatic insects, and migratory neotropical and resident birds. The model trophic system is interesting because the phenologies of different components in the model system are independent (cued by various abiotic drivers) and dependent (due to trophic interactions), potentially leading to complex system behaviors. Plant and poiklothermic animal (ex. invertebrates) phenologies are highly temperature dependent. Phenologies of terrestrial plants and invertebrates would therefore likely exhibit wide spatial and temporal variation across the landscape in response to temperature variation associated with elevational differences, cold air drainages patterns, and temperature inversions. Aquatic invertebrate phenologies are also tied to temperature, but stream temperatures are influenced by different factors than those driving air temperatures and they may be less sensitive to complex terrain. For the invertebrate part of this study, we are examining spring-time (April through June) flying (terrestrial and adult aquatic) insect activity and adult aquatic insect emergence across a range of sites in the HJ Andrews Experimental Forest. Flying insect activity will be assessed using malaise traps deployed at 16 sites ranging from 450m to over 1300m in elevation, and with a variety of forest stand ages and slope aspects. Emerging aquatic insects will be collected with emergence traps in six 1st to 2nd order streams ranging from 450m to 1000m in elevation, and differing in water source (spring vs run-off) and surrounding forest age. Insects from malaise traps will be identified to varying levels from order to genus, depending on the group and available keys. Adult aquat
Aquatic vertebrate populations in streams throughout the HJ Andrews Experimental Forest, 2013 to present
This multi-year study quantifies the distribution and density of aquatic vertebrates throughout Lookout Creek stream network, including Mack, McRae and Upper Lookout Creeks. We are examining how predictable and consistent the densities and sizes of cutthroat trout and coastal giant salamanders are throughout the network and whether they fluctuate synchronously with vertebrates sizes and densities in Mack Creek that have been measured since 1987 (AS006). We are also examining biomass and condition of individuals across sites. Density and developmental stage of coastal tailed frog tadpoles are noted. We use electroshocking in discrete blocked reaches (depletion and mark-recapture methodologies) to collect individuals that are then weighed, measured and released. Site specific characteristics are measured at each sampling event, including wetted widths and water depths. Broader landscape metrics, including stream gradient and watershed area, were calculated for sites.
Consequences of non-random tree species loss on litter mass loss, nutrient dynamics, carbon cycling, and decomposer communities across a terrestrial-aquatic interface at Coweeta Hydrologic Lab, Otto, NC
Although litter decomposition is a fundamental ecological process, most of our understanding comes from studies of single-species decay. Recently, litter-mixing studies have tested whether monoculture data can be applied to mixed-litter systems. These studies have mainly attempted to detect non-additive effects of litter mixing, which address potential consequences of random species loss. The focus is not on which species are lost, but the decline in diversity per se. Under global change, species loss is likely to be non-random, with some species more vulnerable to extinction than others. Under such scenarios, the effects of individual species (additivity) as well as of species interactions (non-additivity) on decomposition rates are of interest. To examine potential impacts of non-random species loss on ecosystems, we studied additive and non-additive effects of litter mixing on decomposition. A full-factorial litterbag experiment was conducted using four deciduous leaf species, from which mass loss and nitrogen content were measured. Data were analysed using a statistical approach that first looks for additive identity effects based on the presence or absence of species and then significant species interactions occurring beyond those. It partitions non-additive effects into those caused by richness and or composition.
Long-Term Aquatic Faunal Sampling via Throw Trap in Shark River Slough, Everglades, Florida, USA, 1978 – 2021
Long-term monitoring of fish communities in the Everglades using 1-m2 throw traps started in 1978 and is ongoing. Data represent the number of individuals per species collected per throw trap (i.e., individuals per square meter). From 1978-1995 sampling occurred five times per year, referred to as periods, at one plot per site and the number of throws was determined by estimates of inter-sample variance. In 1996, the spatial extent of monitoring was expanded to include additional sites and multiple plots per site. At each plot 5-7 throw trap samples were collected with sampling location within a plot being drawn from a random number table. Days since dry (DSD) are calculated as the number of days since depth was last < 5 cm using the Everglades Depth Estimation Network and in situ depth measurements. Statistical comparisons of community composition can be found in FCE1258_community_change.Rmd
Stomach contents and stable isotopes from the aquatic food web in Everglades National Park, Florida, USA, 2018-2019
Stable isotope samples were collected among habitats and between seasons at multiple sites in both Shark River Slough and Taylor Slough of Everglades National Park to represent as much of the aquatic food web as possible. Stomach contents were also recorded for many of the collected vertebrate samples. Sampling occurred between October 2018 and April 2019. These data are a follow up study to the FCE1263 data package (https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-fce&identifier=1263) following the invasion of several fishes, most notably the African Jewelfish (Rubricatochromis letourneuxi), although there are some differences in habitats sampled and overall spatial coverage. R code for analyses associated with these data are available at https://github.com/pjflood/diet_and_pond_enrichment. Data collection is complete.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
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.