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Diatom composition and environmental data from the Greater Everglades, Florida, USA (2013-2020)
Environmental and diatom data were collected from sites in the Big Cypress National Preserve (BICY) by the South Florida/Caribbean Inventory and Monitoring Network of the National Park Service and from sites in the Everglades Protection Area (EPA) as part of the Monitoring and Assessment Program of the Comprehensive Everglades Restoration Plan. Samples from years 2012, 2013, 2019, 2019, and 2020 are included in this dataset. Environmental data include drier variables that have been found to influence diatom assemblage composition in the greater Everglades ecosystem, including periphyton mat total phosphorus (a proxy for phosphorus in the environment), water column pH, water column conductivity, water depth, days since last dry, and hydroperiod. Diatom data include diatom species composition as percent relative abundances. Code included is pertinent to the methods described in "Robust species optima estimates from non-uniformly sampled environmental gradients" by Solomon et al. 2025, Journal of Paleolimnology.
Geographic coordinates, soil properties, plant species composition and vegetation survey data in the study on tidal marshes of the Ogeechee, Altamaha and Satilla estuaries in Georgia, USA
We examined patterns of habitat function (plant species richness), productivity (plant aboveground biomass and total C), and nutrient stocks (N and P in aboveground plant biomass and soil) in tidal marshes of the Satilla, Altamaha, and Ogeechee Estuaries in Georgia, USA. We worked at two sites within each salinity zone (fresh, brackish, and saline) in each estuary, sampling a transect from the creekbank to the marsh platform. Site-scale and plot-scale species richness decreased from fresh to saline sites. Standing crop biomass and total carbon stocks were greatest at brackish sites, followed by freshwater then saline sites.
CBS05 Estimates of vegetation structure and composition collected on Konza Prairie watersheds and on the nearby Rannell’s Preserve
Data set includes estimates of vegetation structure and composition collected during ~monthly sampling events on Konza Prairie watersheds and on the nearby Rannell’s Preserve. Vegetation data were collected from three (prior to 2017) or 10 randomly-selected locations on each watershed; two from outside the 10-ha plot (see project abstract) and one inside the plot. We sampled vegetation on each watershed once a month, during May, June, and July. Additional vegetation data were collected from bird nest sites within ~3 days of nests failing. We used 5 sets of Daubenmire frame measures to determine percent cover of major plant functional groups (at the center of the plot and 5 m from center at the 4 cardinal directions). We estimated visual obstruction by placing a Robel Pole in the middle, and 5 m from the middle of the plot in each of the 4 cardinal directions. For each pole placement, we stood 4 m away with eye 1 m above the ground in each of 4 directions, and counting the highest 5-cm segment not completely obscured by vegetation. At nests, we also estimated the slope and aspect in the center of each plot.
SIC01 Isotopic composition of select archived soil cores from Konza Prairie
The concentration and isotopic composition of soil carbon and nitrogen were measured from select archived soil cores originally collected for the NSC01 dataset using an isotope ratio mass spectrometer coupled with an elemental analyzer. These soil cores were collected from the lowlands (25 cm depth) of four experimental watersheds in 1982, 1987, 2002, 2010, and 2015. The four experimental watersheds are 001d, n01b, 020b, and n20b.
BGPVC Plant species composition in the Belowground Plot Experiment at Konza Prairie
Two permanent plant composition plots were marked with conduit in each of the 64 plots. Canopy cover was recorded in a 5 m2circular area surrounding each of the plots. At approximately 5-year intervals, coverage is assessed in late July, using visual estimates of cover by species, based on a modified Daubenmire scale. In 1989, sampling was done once in early July after mowing using one 10 m2 plot placed randomly in the approximate center of each plot. In 1994, plant composition sampling was done in early June in the unmowed plots; sampling in the mowed plots occurred in August. In 1999, two permanent conduits were placed in each plot, and sampling was conducted in June, before mowing, and again in August using 5 m2 plot sizes. In 2005 and afterward, sampling was reduced to one time in late July. Sampling occurred once every five years until 2015. Plots have been sampled annually since 2016. Two of the long-term unburned plots in a wildfire in 1994 and 1995. Those plots and years of the fire are indicated on the linked plot map. The mowing treatment was discontinued after 2002 due to invasion of the mowed plots by old world bluestem grasses. Data users should check for exotic species impacts on specific mowed subplots prior to this. In addition, fertilization in all plots ceased in 2017 as part of recovery from chronic N enrichment experiment.
BMS01 Mycorrhizae spore density and composition in the Belowground Plot Experiment at Konza Prairie
Spore densities of 14 groups (13 species + unknown) were measured the 64 belowground plots (record type 1). Effects of burning, mowing, and N + P additions on spore densities (an index of AM fungi infection rates). Community indices and percent root colonization (record type 2). Effects of burning, mowing, and N + P additions on mycorrhizal community composition and root colonization.
BNS01 Nematodes density and composition in the Belowground Plot Experiment at Konza Prairie
The effects of burning, mowing, and nitrogen (N) and phosphorus (P) fertilization on the trophic structure of a tallgrass prairie nematode community were examined in a long-term field experiment established in 1986. Nematode densities and trophic composition were determined in October of 1987, 1989, and 1994 following 2, 4, and 9 years of treatment, respectively.
CGR05 Effects of fire frequency on composition of grasshopper assemblages (1983)
Sweep samples were taken for grasshoppers (Acrididae) at two sites for each of 14 Konza Prairie LTER watersheds. Samples are taken in late July to early August. At each site on each occasion, 10 sets of 20 sweeps (200 sweeps total) are taken. Stored data include for each site on each occasion: total number of each species (all instars combined) collected and total number for each instar for each species (200 sweeps combined).
PBG01 Plant species composition in the Patch Burning-grazing Experiment at Konza Prairie
‘PBG’ datasets are associated with a long-term, large-scale study that is addressing the effects of fire-grazing interactions in the context of a Patch-Burn Grazing management system designed to promote grassland heterogeneity. Effects of patch-burn grazing management on plant and animal diversity and the nature and variety of wildlife habitat are being assessed in two replicate management units, each consisting of three pastures (watersheds) designated C03A/C03B/C03C and C3SA/C3SB/C3SC. In each patch-burn grazing unit, one watershed is burned and two that are left unburned in a given year. The burning treatments are rotated annually so that each pasture is burned every third year. Each patch-burn grazing unit is paired with an annually-burned pasture for comparison with traditional grazing systems (C01A and C1SB). All grazing units are stocked with cow/calf pairs from approximately 1 May until 1 Oct at a stocking density equal to 3.2 ha per cow/calf. To examine the impact of patch burning and grazing in all 8 units, we monitor changes in plant species composition, residual biomass, grassland bird populations, insect populations, small mammal populations, soil nutrients, and stream water quality1(1C3SA/C3SB/C3SC unit only). The KSU Department of Animal Science monitors cattle performance, including weight gain and body condition to assess the economic feasibility of using patch-burn management on a widespread basis.
PVC01 Plant species composition on selected watersheds at Konza Prairie
Canopy coverage and frequency of plant species were estimated visually in 20 circular 10 sq m plots. Six treatments were sampled, three ungrazed and three to be grazed (in the future) by native grazers (bison). In each case, one of the three watersheds was unburned, another burned annually in April, and the third burned every four years in April. In each treatment two soils were sampled: a lower slope deep fertile non-rocky soil (Tully silty clay loam) and a shallow rocky soil (Florence cherty silt loam) on level to gently sloping ridges.
PVC02 Plant species composition on selected watersheds at Konza Prairie
Canopy coverage of all vascular plant species were estimated in 20 circular 10 sq m plots for each of the topographic positions within each included watershed at Konza Prairie.
VIR01 Effects of invertebate and vertebrate herbivory on tallgrass prairie plant community composition and biomass, Konza Prairie LTER
The effects of herbivores and their interactions with nutrient availability on primary production and plant community composition in grassland systems is expected to vary with herbivore type. Although nutrient additions are known to affect plant species diversity and primary productivity, the role of herbivores in mediating the strength of these effects also remains unclear. Herbivores may alter plant responses to nutrient additions in several ways. First, herbivores can alter the plant community response to nutrient additions by either selectively feeding on particular groups of species (e.g. grasses versus forbs) or by generally opening up space, allowing for species turnover and immigration. Second, feeding by herbivores may reduce the production response to nutrient additions if the plants cannot compensate for tissue lost to herbivory. As the functional effects of vertebrate and invertebrate herbivores on plant community composition and production may vary, the interactive effects of vertebrate versus invertebrate herbivores with nutrient additions may also vary. Here we are experimentally assessing the independent and interactive effects of removing vertebrate and invertebrate herbivores on aboveground biomass and plant community composition in native tallgrass prairie. Further, we are examining whether the removal of vertebrate and invertebrate herbivores interacts with nutrient availability. By doing this, we address three related questions: 1) what is the relative strength of the effects of invertebrate versus vertebrate herbivory in a grassland system; 2) how does herbivory (invertebrate and/or vertebrate) affect the relative abundances of grasses and forbs, the two dominant plant functional types within the ecosystem; and 3) what are the consequences of these changes in composition for aboveground net primary productivity, an important ecosystem function?
Rainfall and ion composition data from multiple weather stations along an elevation gradient in northeastern Puerto Rico (2009-2018)
The data archive is here: https://doi.org/10.2737/RDS-2021-0013 please use this DOI when citing this dataset. Rainfall and ionic composition data were collected at 21 sites along the elevational gradient of the Luquillo Mountains, in Puerto Rico. Stations were selected along the east coast of the island and follow the steep slope of the mountains until the highest peaks. Rainfall data were collected every two weeks and are provided in this data publication as monthly rainfall from January 2009 through May 2019. Also included are pH and conductivity which are provided monthly starting roughly in November 2011 and continue through May 2019. Monthly ionic composition data from rainwater samples collected during the last two weeks of each month are also included from January 2009 through December 2017. Support for this work was provided by grants BSR-8811902, DEB-9411973, DEB-9705814 , DEB-0080538, DEB-0218039 , DEB-0620910 , DEB-1239764, DEB-1546686, and DEB-1831952 from the National Science Foundation to the University of Puerto Rico as part of the Luquillo Long-Term Ecological Research Program. Additional support provided by the University of Puerto Rico and the International Institute of Tropical Forestry, USDA Forest Service.
N fertilization and recovery experiment (2-4-6) plant species composition data for East of Tvan from 1997 to 2017, yearly
The realization that anthropogenic nitrogen (N) deposition is causing significant environmental change in many ecosystems has led to lower emissions of reactive N and deposition rates in many regions. However, the impacts of N deposition on terrestrial ecosystems can be long-lasting, with significant inertia in the return of the biota and biogeochemical processes to baseline levels. To better understand patterns of recovery and the factors that may contribute to slow or no responses following declines in N deposition, we followed plant species composition, microbial abundance, N cycling rates, soil pH, and pools of NO3- and extractable cations in an impacted alpine ecosystem following cessation of 12-year experiment increasing N deposition rates by 0, 20, 40, and 60 kg N/ha/yr. Simulated N deposition had resulted in a tripling in the cover of the nitrophilic species Carex rupestris, while the dominant sedge Kobresia myosuroides had decreased by more than half at the highest N input level. In addition nitrification rates were elevated, soil extractable magnesium (Mg2+) and pH decreased, and aluminum (Al3+) and manganese (Mn2+) were elevated at the highest N treatment inputs. Over the nine years following cessation of N additions to the impacted plots only the cover of the nitrophilic C. rupestris showed any recovery to prior levels. Abundances of both bacteria and fungi were lower with N addition in both treatment and recovery plots. Rates of nitrification and pools of NO3- remained elevated in the recovery plots, likely contributing to the lack of biotic response to the cessation of N inputs. In addition, nutrient base cations (Ca2+ and Mg2+) and soil pH remained depressed, and the toxic metal cations (Al3+ and Mn2+) remained elevated in recovery plots, also potentially influencing biotic recovery. These results emphasize the importance of considering long-term environmental impacts of N deposition associated with legacy effects, such as elevated N cycling and losse
Alpine soil islands plant and soil microbial community composition, 2024.
High alpine ecosystems are particularly sensitive to climate-driven change, with vegetation expansion increasingly observed in historically barren soils. In late August and early September 2024, we revisited 50 previously established vegetation plots in Green Lakes Valley (Niwot Ridge LTER) to evaluate patterns of plant colonization and community change over time. Using legacy vegetation data from 2008 and 2015, we assessed changes in plant cover and composition in relation to microtopography and prior plant occurrence. Concurrently, we collected soil samples for 16S and 18S rRNA gene sequencing to characterize bacterial, archaeal, and eukaryotic microbial communities associated with these plots. Vegetation was resampled using spatially referenced 1-meter radius surveys, estimating species incidence and cover and documenting moss, lichen, sedge, and grass diversity. Together, these above- and belowground data provide insight into how priority effects, fine-scale environmental variation, and plant–microbe interactions influence alpine community dynamics, and may inform predictive models of ecosystem responses to ongoing climatic shifts.
Arthropod species composition in the turf transplant experiment, 2024 - ongoing.
The Turf Transplant Experiment was set up in the summer of 2024. Paired experimental sites were established in two tundra community types - dry meadow and moist meadow - with one site of each community type pair in a lower elevation/warmer area and one site in a higher elevation/cooler area. Subplot turfs (25 cm^2) were transplanted (1) between sites of the same community type at different elevations/temperatures, (2) between plots within the same site or (3) left in place as non-transplant controls. This data package contains measurements of arthropods.
Plant & lichen species composition data for Saddle Nodal Plots, 1971 - ongoing.
To study long-term changes in alpine tundra plant communities, thirty permanently marked plots were surveyed in 1971. These same plots were surveyed at twenty, thirty, forty and fifty year intervals from the initial sampling date; in 1991, 2001, 2011, and 2021. Due to covid and other events, data for the 50-year time point was collected over three summers, from 2021-2023. Plots are one by ten meters, divided into ten subplot quadrats, and marked with rebar. The presence or absence of each vascular plant species was recorded per plot. The cover was recorded for each species that appeared in a one meter by ten centimeter strip at the base of each quadrat within each plot. The cover of non-vascular plants, soil, rocks, and lichens was also recorded within the strip in most sampling years. Lichen were also surveyed in 1971 and 2021.These data have been used to study the changes in vascular plant and lichen communities and cover across habitats following a moisture gradient on the saddle portion of Niwot Ridge; these habitats include dry fellfield, dry meadow, moist meadow, wet meadow, snow bank, and shrub tundra. While we have observed some changes in species richness and cover in the plots, overall the plant communities seem fairly stable over time. Lichen species richness has increased in some habitats, while some lichen species have been disappearing from others.
Adelie penguin diet composition, preliminary analyses of whole samples, 1991-2024
The fundamental long-term objective of the seabird component of the Palmer LTER (PAL) has been to identify and understand the mechanistic processes that regulate the mean fitness (population growth rate) of regional penguin populations. Since the inception of PAL, Adélie penguin populations have effectively collapsed, gentoo penguin populations have increased dramatically and chinstrap penguin populations have remained relatively stable. These trends are spatially and temporally coherent with regional warming and decreasing sea ice duration. Adélie penguins are an ice-obligate polar species whose life history is intimately linked to the presence of sea ice, while chinstrap and gentoo penguins are ice-intolerant species whose life histories evolved in the sub-Antarctic, where sea ice is a less permanent feature of the marine ecosystem. The PAL study region includes five main islands on which Adélie penguin colonies have historically occurred, with each island containing a different number of spatially segregated sub-colonies. These colonies are censused to determine the total number of nests and chicks produced each year, and breeding success. Diet samples are acquired to understand diet composition (e.g., krill, fish) and krill length-frequencies. In general, krill constitute the most important component of the summer diets by mass of these three penguin species, but changes in PAL krill abundances have exhibited no long-term trends and thus far, have failed to explain the divergent patterns in penguin populations evident in our time series. Chick fledging masses are recorded as a cumulative measure of climate, weather, diet, and parental influences on chick health at the end of the breeding season. These data have provided valuable insights into the marine and terrestrial factors that influence Adélie penguin population fitness. No data were collected during the 2021-2022 season due to the Palmer Station pier rebuild.
Adelie penguin diet composition, krill size frequency distribution, 1991-2024
The fundamental long-term objective of the seabird component of the Palmer LTER (PAL) has been to identify and understand the mechanistic processes that regulate the mean fitness (population growth rate) of regional penguin populations. Since the inception of PAL, Adélie penguin populations have effectively collapsed, gentoo penguin populations have increased dramatically and chinstrap penguin populations have remained relatively stable. These trends are spatially and temporally coherent with regional warming and decreasing sea ice duration. Adélie penguins are an ice-obligate polar species whose life history is intimately linked to the presence of sea ice, while chinstrap and gentoo penguins are ice-intolerant species whose life histories evolved in the sub-Antarctic, where sea ice is a less permanent feature of the marine ecosystem. The PAL study region includes five main islands on which Adélie penguin colonies have historically occurred, with each island containing a different number of spatially segregated sub-colonies. These colonies are censused to determine the total number of nests and chicks produced each year, and breeding success. Diet samples are acquired to understand diet composition (e.g., krill, fish) and krill length-frequencies. In general, krill constitute the most important component of the summer diets by mass of these three penguin species, but changes in PAL krill abundances have exhibited no long-term trends and thus far, have failed to explain the divergent patterns in penguin populations evident in our time series. Chick fledging masses are recorded as a cumulative measure of climate, weather, diet, and parental influences on chick health at the end of the breeding season. These data have provided valuable insights into the marine and terrestrial factors that influence Adélie penguin population fitness. No data were collected during the 2021-2022 season due to the Palmer Station pier rebuild.
Adelie penguin diet composition, fish species and number, 1991-2024
The fundamental long-term objective of the seabird component of the Palmer LTER (PAL) has been to identify and understand the mechanistic processes that regulate the mean fitness (population growth rate) of regional penguin populations. Since the inception of PAL, Adélie penguin populations have effectively collapsed, gentoo penguin populations have increased dramatically and chinstrap penguin populations have remained relatively stable. These trends are spatially and temporally coherent with regional warming and decreasing sea ice duration. Adélie penguins are an ice-obligate polar species whose life history is intimately linked to the presence of sea ice, while chinstrap and gentoo penguins are ice-intolerant species whose life histories evolved in the sub-Antarctic, where sea ice is a less permanent feature of the marine ecosystem. The PAL study region includes five main islands on which Adélie penguin colonies have historically occurred, with each island containing a different number of spatially segregated sub-colonies. These colonies are censused to determine the total number of nests and chicks produced each year, and breeding success. Diet samples are acquired to understand diet composition (e.g., krill, fish) and krill length-frequencies. In general, krill constitute the most important component of the summer diets by mass of these three penguin species, but changes in PAL krill abundances have exhibited no long-term trends and thus far, have failed to explain the divergent patterns in penguin populations evident in our time series. Chick fledging masses are recorded as a cumulative measure of climate, weather, diet, and parental influences on chick health at the end of the breeding season. These data have provided valuable insights into the marine and terrestrial factors that influence Adélie penguin population fitness. No data were collected during the 2021-2022 season due to the Palmer Station pier rebuild.
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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)
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.