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California Harmful Algal Bloom Monitoring and Alert Program Data (Darwin Core Archive format)
The Harmful Algal Bloom Monitoring and Alert Program (HABMAP) was formed in 2008 and provides updates on current algal blooms and facilitates information exchange among scientists, federal and state managers, and the general public in California. A major component of this program is regional HAB monitoring with support from the Southern California Coastal Ocean Observing System (SCCOOS) and the Central and Northern California Ocean Observing System (CeNCOOS). Water samples and net tows are collected once per week at piers to monitor for HAB species, the neurotoxin domoic acid, and water quality data including temperature, chlorophyll-a, and nutrients. The sampling stations represented in this dataset include Santa Cruz Wharf, Monterey Wharf, Cal Poly Pier, Stearns Wharf, Santa Monica Pier, Newport Beach Pier, and Scripps Pier. These data are consolidated and reformatted into Darwin Core Archive (DwC-A) format from the level 1 site-specific datasets hosted on the SCCOOS ERDDAP server: (https://erddap.sccoos.org/erddap/tabledap/index.html?page=1).
Interagency Ecological Program and US Fish and Wildlife Service: Enhanced Delta Smelt Monitoring Program Experimental Larval Survey Data 2018-2019
The United States Fish and Wildlife Service’s (USFWS) Experimental Larval Survey was designed and implemented by the Enhanced Delta Smelt Monitoring Program to assess alternative sampling methods for monitoring the larval life stages of the federally endangered Delta Smelt (Hypomesus transpacificus) within the San Francisco Estuary, California, USA. From 2018 to 2019, four different sampling methods (Beach Seine, Manta Trawl Net, 20-mm Surface Trawl Net, 20-mm Midwater Trawl Net) nested in time and space were used to estimate the occupancy rate, relative density, and size distribution of larval Delta Smelt across sampling methods and water depth strata within the San Francisco Estuary. For more information on the Lodi USFWS Office and the Enhanced Delta Smelt Monitoring Program: https://www.fws.gov/lodi/.
Baltimore Ecosystem Study: Long-Term Monitoring of Riparian Water Table Depth and Groundwater Chemistry
Long-term monitoring of riparian water tables and groundwater chemistry began in 2000 along four first or second order steams in and around the Gwynns Falls watershed in Baltimore City and County, MD. One site (Oregon Ridge) is in the completely forested Pond Branch catchment that serves as a ""reference"" study area for the Baltimore LTER (BES). Two sites (Glyndon, Gwynbrook) were in suburban areas of the watershed; one just upstream from the Glyndon BES long-term stream monitoring site in the headwaters of the Gwynns Falls, and one along a tributary that enters the Gwynns Falls just above the Gwynnbrook BES long-term stream monitoring site farther downstream. The final, urban site (Cahill) was along a tributary to the Gwynns Falls in Leakin Park in the urban core of the watershed. Water table data and more detailed descriptions of soils, vegetation, stream channel properties and microbial processes at these sites can be found in Groffman et al. (2002, Environmental Science and Technology 36:4547-4552) and Gift et al. (2010, Restoration Ecology 18:113-120).
Permafrost thaw monitoring in Denali National Park: Thermokarst transect surveys 2013-2023
This dataset contains variables measured at thawed, ice-rich permafrost sites in Denali National Park and Preserve. Transects were established at seven sites in the Toklat river basin in 2013 to understand how ecosystem characteristics changed following permafrost thaw. Transects were co-located with known thaw subsidence (thermokarst) or erosional features and run from outside (relatively undisturbed tundra) through the feature. These data represent a long-term monitoring project of permafrost and ecosystem characteristics, surveyed initially in 2013 and re-surveyed 10 years later in 2023.
Long-term monitoring of wet, dry, and bulk atmospheric deposition in central Arizona-Phoenix, ongoing since 1999
The aims of this study are to examine (1) the magnitude and spatial variability in the concentration and flux of wet deposited major ions (NO3-N, NH4-N, DOC, PO4-P, Cl, SO4, H+, Ca, Mg, Na, K) across the greater Phoenix metropolitan area, including the developed urban core and outlying desert, and (2) patterns of coarse dry particulate deposition across stated area and provide some minimum estimates on levels of dry deposition of these ions. This study was designed particularly to answer the question: 'To what extent are concentrations and fluxes of these ions enhanced at sites within the urban core relative to undeveloped desert sites upwind and downwind of the city?'. At the outset, the project featured eight wet-dry collectors positioned spatially so as to form a transect running approximately west-to-east across the central Arizona region from outlying desert to the west, upwind of the prevailing synoptic wind direction, through agriculture to urban core sites, and, finally, to two downwind sites in the desert to the east and northeast. As much as possible, these collectors were co-located with Maricopa County or Arizona Department of Environmental Quality monitoring stations. Monitoring at most sampling locations ran from 1999 through the mid-2000s when sampling was discontinued at several sites. Sampling continued at the Lost Dutchman State Park, also a Desert Fertilization experiment site with a focus on atmospheric deposition, through 2016. Sampling continues at a site on the Arizona State University Tempe campus that was added to the program in 2009.
Long-term monitoring of macroinvertebrates in Sycamore Creek, Arizona, USA (2010-2019)
## overview The primary objective of this project is to understand how long-term climate variability and change influence the structure and function of desert streams via effects on hydrologic disturbance regimes. Climate and hydrology are intimately linked in arid landscapes; for this reason, desert streams are particularly well suited for both observing and understanding the consequences of climate variability and directional change. Researchers try to (1) determine how climate variability and change over multiple years influence stream biogeomorphic structure (i.e., prevalence and persistence of wetland and gravel-bed ecosystem states) via their influence on factors that control vegetation biomass, and (2) compare interannual variability in within-year successional patterns in ecosystem processes and community structure of primary producers and consumers of two contrasting reach types (wetland and gravel-bed stream reaches). ## research objectives This dataset was collected to understand two questions: (1) how does inter- and intra-annual variability and directional change in winter precipitation and hence streamflow extremes influence macroinvertebrate community structure, and (2) how do these patterns differ in wetland- and gravel-dominated reaches.
Long-term monitoring of streamwater chemistry in Sycamore Creek, Arizona, USA (2010-2014)
The primary objective of this project is to understand how long-term climate variability and change influence the structure and function of desert streams via effects on hydrologic disturbance regimes. Climate and hydrology are intimately linked in arid landscapes; for this reason, desert streams are particularly well suited for both observing and understanding the consequences of climate variability and directional change. Researchers try to (1) determine how climate variability and change over multiple years influence stream biogeomorphic structure (i.e., prevalence and persistence of wetland and gravel-bed ecosystem states) via their influence on factors that control vegetation biomass, and (2) compare interannual variability in within-year successional patterns in ecosystem processes and community structure of primary producers and consumers of two contrasting reach types (wetland and gravel-bed stream reaches). This specific dataset was collected to monitor long-term changes in dissolved nutrient concentrations (N, P, C) by sampling surface water within gravel and wetland dominated reaches during baseflow.
Water-quality monitoring in Tempe Town Lake, Tempe, Arizona, USA (2005-2021)
Constructed in 1997, the Tempe Town Lake is a small man-made reservoir that transforms a section of the typically-dry Salt River bed into a 224-acre lake in the heart of Tempe, Arizona. To accommodate the river when it flows, the lake features hydraulically-operated steel gates that allow water to pass through the system unimpeded. The lake has been a remarkable success as a community amenity and as a driver of economic growth in the area around the lake. The lake provides an ideal model system for the many artificial lakes constructed in arid-land cities owing to management decisions, such as draining, that affect their operation and ecology. At the same time, dramatic shifts in hydrology and chemistry when the lake is transformed to a flowing river and back into a lake during and after floods, provide opportunities to study the system's dynamic evolution to new limnological steady states. The CAP LTER has been measuring water quality, including temperature, pH, conductivity, and dissolved oxygen, dissolved organic carbon (DOC), and total dissolved nitrogen (TDN), in the lake since 2005.
Long-term monitoring of floodwater chemistry in Sycamore Creek, Arizona, USA (2010-2021)
The primary objective of this project is to understand how long-term climate variability and change influence the structure and function of desert streams via effects on hydrologic disturbance regimes. Climate and hydrology are intimately linked in arid landscapes; for this reason, desert streams are particularly well suited for both observing and understanding the consequences of climate variability and directional change. Researchers try to (1) determine how climate variability and change over multiple years influence stream biogeomorphic structure (i.e., prevalence and persistence of wetland and gravel-bed ecosystem states) via their influence on factors that control vegetation biomass, and (2) compare interannual variability in within-year successional patterns in ecosystem processes and community structure of primary producers and consumers of two contrasting reach types (wetland and gravel-bed stream reaches). These data were collected to understand how climate change alters flood-mediated delivery of the limiting resource, nitrogen. Specifically, how does the amount of winter rainfall and the number, timing, and intensity of winter and monsoon floods alter N delivery. Previous research indicates that nitrogen is a limiting element in Sycamore Creek, and that pulses of nitrogen enter the system from the landscape during winter rains and summer monsoons. Nitrogen in high concentrations can be a pollutant so consideration of downstream export is a consideration. Researchers collected water samples during storms to compare inter- and inter-annual variability in storm dynamics, and to examine the pulse of various nutrients associated with these events.
Monthly monitoring of Fluorescence, UV, Humic and non-Humic Carbon, Carbohydrates, and DOC for Shark River Slough, Taylor Slough, and Florida Bay, Everglades National Park (FCE LTER) for January 2002 to August 2004
A better understanding of the biogeochemical cycling of nutrients in the Florida Coastal Everglades is a key issue regarding the restoration of the Everglades, which is expected to change the water quality throughout South Florida. In addition to rain, the main freshwater supply to Florida Bay will be derived from Taylor Slough and the C-111 Basin in the north-east section of the Bay. While it is known that these areas deliver significant amounts of nitrogen to the Bay, a significant portion of this nitrogen is in its dissolved organic form (DON). The sources, environmental fate and bioavailability to microorganisms of this DON are however, not known. Preliminary data suggest that although proteins have been detected in canal samples, labile dissolved organic matter (DOM) components were found to increase in abundance in the freshwater marshes compared to their levels in the adjacent canal waters. Leaching experiments of biomass showed the presence of such labile DOM. However, this DOM was found to be susceptible to both biodegradation and photodecomposition. In this study we will focus on the determination of the molecular characteristics of both DOM and DON and assess the bioavailability of these materials in transects ranging from the C-111 canal and Taylor Slough to the central part of Florida Bay. Relevant water quality and spectroscopic parameters will be monitored at 11 sites on a monthly basis, while six of these sites will be sampled biannually for DOM and DON chemical characterization and bioavailability studies. Advanced analytical techniques such as pyrolysis-GC/MS, FTIR, 13C- and 15N-NMR, gel electrophoresis and LC/MS will be used in the molecular characterization effort. We envisage that this study will allow for a better assessment of the sources of DON and its bioavailability in this system.
Abiotic monitoring of physical characteristics in porewaters and surface waters of mangrove forests from the Shark River Slough and Taylor Slough, Everglades National Park (FCE LTER), South Florida, USA, December 2000 - ongoing
Data on porewater salinity, temperature, conductivity, pH and redox have been collected to help explain patterns found in porewater nutrient concentrations that were sampled in the same plots. See knb-lter-fce.1171 (https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-fce&identifier=1171) for related porewater-nutrient-concentration data.
Monitoring of nutrient and sulfide concentrations in porewaters of mangrove forests from the Shark River Slough and Taylor Slough, Everglades National Park (FCE LTER), Florida, USA, December 2000 - ongoing
To monitor soil chemistry in the mangrove sites SRS4, SRS5, SRS6, and SRS7, and TS/Ph6b, TS/Ph7b and TS/Ph8, porewater concentrations of sulfide, PO4, NH4, NO2 and NO3 have been analyzed. See also related porewater-physical-characteristics data package knb-lter-fce.1169 (https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-fce&identifier=1169).
Monthly monitoring fluorescence data for Shark River Slough and Taylor Slough, Everglades National Park, Florida, USA (FCE LTER) for 2012 - 2020
Dissolved organic matter plays an important role in biogeochemical processes in aquatic environments such as elemental cycling, microbial loop energetics, and the transport of materials across landscapes. Since most of N (> 90%) and P (around 90%) is in the organic form in the oligotrophic subtropical Florida Coastal Everglades (FCE), study of the source and dynamics of dissolved organic matter (DOM) in the ecosystem is crucial for the better understanding of the biogeochemical cycling of nutrients. FCE are composed of estuaries with distinct regions with different biogeochemical processes. Freshwater marsh primarily receives terrestrial input and local autochthonous vegetation production. Mangrove ecotone, nevertheless, is affected by the tidal contributions from Florida Bay and local mangrove production. Florida Bay (FB) is a wedge-shaped shallow oligotrophic estuary which lays south of the Everglades, the bottom of which is covered with a dense biomass of seagrass. The sources of both freshwater and nutrients in FCE are difficult to quantify, owing to the non-point source nature of runoff from the Everglades and the dendritic cross channels in the mangroves. Furthermore, the combination of multiple DOM sources (freshwater marsh vegetation, mangroves, phytoplankton, seagrass, etc.), and the potential seasonal variability of their relative contribution, along with the history of (photo)chemical and microbial diagenetic processing, and complex advective circulation, makes the study of DOM dynamics in FCE particularly difficult using standard schemes of estuarine ecology. Quantitative information of DOM is very useful to investigate the biogeochemical cycling of DOM to a certain degree, however, qualitative information is necessary to better understand the source and dynamics of DOM. Since fluorescence spectroscopic techniques are very sensitive, quick and simple, they have been applied to investigate the fate of DOM in estuaries.Monthly fluorescence monitoring data
Spring 2003 crab population monitoring: mid-marsh and creekbank abundance based on crab hole counts at GCE marsh, monitoring sites 1-10
This data set is the Spring 2003 estimate of crab densities at the GCE-LTER marsh sites used for population monitoring. Crab abundance was determined by counting the number of crab holes within a 625 cm^2 quadrat and converting the counts to number per square meter. Counts were made in the mid-marsh and creekbank zones (n = 4 per zone) at all sites. This method does not differentiate which species made a particular hole and therefore only estimates total crab abundance. Plugged holes were excluded from the counts. Mean density across all sites and zones was 264 m^-2 (+/- 215 s.d.).
Mollusc population abundance monitoring: Fall 2000 mid-marsh and creekbank infaunal and epifaunal mollusc abundance based on collections from GCE marsh, monitoring sites 1-10
This data set is the Fall 2000 estimate of infaunal and epifaunal mollusc abundance at the GCE-LTER marsh sites used for population monitoring. Species abundance was determined by hand-collecting all the infaunal and epifaunal molluscs from within quadrats of known area in mid-marsh and creekbank zones (n = 4 quadrats per zone) at all sites. The molluscs were returned to the lab, fixed in fomalin, transferred to and preserved in ethanol, counted and measured (size data is reported separately). The counts were converted to number per square meter. Gastropod species are listed first, followed by bivalve species. Size distribution data for these collections may be found in the GCE-LTER data set INV-GCEM-0305a2.
Mollusc population size distribution monitoring: Fall 2000 mid-marsh and creekbank infaunal and epifaunal mollusc size distributions based on collections from GCE marsh, monitoring sites 1-10
This data set is the Fall 2000 report of infaunal and epifaunal mollusc species' size distributions at the GCE-LTER marsh sites used for population monitoring. Infaunal and epifaunal molluscs were hand-collected from within quadrats of known area from mid-marsh and creekbank zones (n = 4 quadrats per zone) at all sites. The molluscs were returned to the lab, fixed in fomalin, transferred to and preserved in ethanol, measured and counted (count data is reported separately). Length of each measurable individual was determined using calipers or small etched rulers under a stereomicroscope. Species abundance and density data for these collections may be found in the GCE-LTER data set INV-GCEM-0305a1. Numbers of individuals of each species in the abundance data file may not correspond exactly to the numbers of individuals in the size data file because some individuals may not have been measureable.
Mollusc population abundance monitoring: Spring 2001 mid-marsh and creekbank infaunal and epifaunal mollusc abundance based on collections from GCE marsh, monitoring sites 1-10
This data set is the Spring 2001 estimate of infaunal and epifaunal mollusc abundance at the GCE-LTER marsh sites used for population monitoring. Species abundance was determined by hand-collecting all the infaunal and epifaunal molluscs from within quadrats of known area in mid-marsh and creekbank zones (n = 4 quadrats per zone) at all sites. The molluscs were returned to the lab, fixed in fomalin, transferred to and preserved in ethanol, counted and measured (size data is reported separately). The counts were converted to number per square meter. Gastropod species are listed first, followed by bivalve species. Size distribution data for these collections may be found in the GCE-LTER data set INV-GCEM-0305b2.
Mollusc population size distribution monitoring: Spring 2001 mid-marsh and creekbank infaunal and epifaunal mollusc size distributions based on collections from GCE marsh, monitoring sites 1-10
This data set is the Spring 2001 report of infaunal and epifaunal mollusc species size distributions at the GCE-LTER marsh sites used for population monitoring. Infaunal and epifaunal molluscs were hand-collected from within quadrats of known area from mid-marsh and creekbank zones (n = 4 quadrats per zone) at all sites. The molluscs were returned to the lab, fixed in fomalin, transferred to and preserved in ethanol, measured and counted (count data is reported separately). Length of each measurable individual was determined using calipers or small etched rulers under a stereomicroscope. Species abundance and density data for these collections may be found in the GCE-LTER data set INV-GCEM-0305b1. Numbers of individuals of each species in the abundance data file may not correspond exactly to the numbers of individuals in the size data file because some individuals may not have been measureable.
Fall 2003 grasshopper monitoring -- mid-marsh grasshopper abundance and species diversity at eight GCE LTER sampling sites
Grasshopper abundance and species diversity were investigated at eight sampling sites within the Georgia Coastal Ecosystems (GCE) LTER study area in August 2003. Visual surveys were conducted along 8 2m by 10m transects randomly allocated within the mid-marsh zone at each site. All grasshoppers observed within each transect were counted and identified to species, if possible. This survey was conducted as part of the GCE invertebrate monitoring program, and will be performed annually to assess long-term changes in relative species abundances across the GCE study area.
Fall 2003 plant monitoring survey -- shoot height and flowering status of plants in permanent plots at GCE sampling sites 1-10
A quadrat survey was conducted in October 2003 to measure the species and size distribution of plants at 10 GCE LTER sampling sites. The quadrats were established as permanent plots at GCE sampling sites in October 2000 by placing wooden stakes at random locations across two nominal zones at each site, designated based on marsh structure (creekbank and high marsh). Several new plots were also added in October 2001, 2002 and 2003 to replace those lost due to catastrophic wrack disturbance or creek bank erosion. The plots were visually surveyed and the species, shoot height, and flowering status was recorded individually for each shoot over 10 cm in height present in each plot. Observations from plots exhibiting signs of disturbance were noted in the data set. This survey will be repeated annually to assess changes in plant distribution and biomass in relation to environmental changes documented by other GCE LTER monitoring efforts.
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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.