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Vegetation and invertebrate communities in 500 plots in the Duplin and Dean Creek watersheds: ground truth data for matching hyperspectral imagery
We measured characteristics of vegetation (Aster tenuifolius, Batis maritima, Borrichia frutescens, Distichlis spicata, Iva frutescens, Juncus roemerianus, Limonium carolinianum, Salicornia biglovii, Salicornia virginica, Spartina alterniflora, Spartina patens, Sporobolus virginicus), soil (salinity, proportion organic and proportion water) and densities of common gastropods and bivalves in 500 plots in the Duplin and Dean Creek watersheds on Sapelo Island on June 20-26, 2006. Plot locations were determined using a high precision hand-held GPS. These data were used to help ground-truth hyperspectral aerial images collected at the same time by Dr. John Schalles.
Soil salinity and organic content at GCE-LTER vegetation monitoring plots in October 2009
Soil samples were collected in conjunction with Fall 2009 plant monitoring at half of the permanent vegetation monitoring plots in the creekbank and midmarsh zones at 10 GCE study sites. Pore-water salinity was determined by analysis of supernatant salinity in dried soil samples hydrated with a measured volume of deionized water. Organic content was measured gravimetrically by comparing ash-free dry weight and total weight of soil samples.
Soil salinity and water content at GCE-LTER vegetation monitoring plots in October 2010
Soil samples were collected in conjunction with Fall 2010 plant monitoring at half of the permanent vegetation monitoring plots in the creekbank and midmarsh zones at 10 GCE study sites. Pore-water salinity was determined by analysis of supernatant salinity in dried soil samples hydrated with a measured volume of deionized water.
Experimental plots studies comparing the impact of fertilization and wrack addition on invertebrate abundance and plant cover in Atlantic and Gulf of Mexico salt marshes from April 2009 to September 2010
Understanding the relative strengths of top-down and bottom-up forces is an important key to predicting the structure of biological communities. The strength of these effects can be regulated in part by predator abundance and nutrient availability. In 2009, we hypothesized that the importance of these factors varies geographically between the southeastern Atlantic Coast and the Gulf Coast due to differences in tidal regime, and began to study this variation using a biogeographic, manipulative field experiment. Although our original purpose was to understand the structure of salt marsh arthropod food webs, BP's Deepwater Horizon spill in the Gulf Coast presented an opportunity to understand how stress from an oil spill might affect the variables that we were measuring. The fact that we had plots and transect sampling in place at multiple sites along the Gulf and East Coasts put us in a position to evaluate any impacts that might occur if oil hit some of the sites. The study was conducted at 11 sites across the Gulf Coast, from Texas to Florida, and 11 sites along the Atlantic Coast, from Florida to Maine. At each site, experimental plots were sampled and a 100m transect was sampled near the plots within 5m of the high marsh boundary. Sampling was conducted in May 2009, August 2009, and August 2010. In 2010, four extra sites were added to the existing experimental sites because of known oil contamination, and another site was added as an extra control. Only the transect sampling was conducted at these sites. This dataset contains all the data from experimental plots; experimental treatments of fertilizer addition, wrack addition, fertilizer & wrack addition, and no addition (control) were randomly applied to the plots. The plot treatments were maintained in August 2009 and May 2010.
Soil salinity and organic content at GCE-LTER vegetation monitoring plots in October 2011
Soil samples were collected in conjunction with Fall 2011 plant monitoring at half of the permanent vegetation monitoring plots in the creekbank and midmarsh zones at 10 GCE study sites. Pore-water salinity was determined by analysis of supernatant salinity in dried soil samples hydrated with a measured volume of deionized water. Organic content was measured gravimetrically by comparing ash-free dry weight and total weight of soil samples.
Soil salinity at GCE-LTER vegetation monitoring plots in October 2012
Soil samples were collected in conjunction with Fall 2011 plant monitoring at half of the permanent vegetation monitoring plots in the creekbank and midmarsh zones at 10 GCE study sites. Pore-water salinity was determined by analysis of supernatant salinity in dried soil samples hydrated with a measured volume of deionized water.
Soil salinity at GCE-LTER vegetation monitoring plots in October 2013
Soil samples were collected in conjunction with Fall 2013 plant monitoring at half of the permanent vegetation monitoring plots in the creekbank and midmarsh zones at 10 GCE study sites. Pore-water salinity was determined by analysis of supernatant salinity in dried soil samples hydrated with a measured volume of deionized water.
Soil salinity at GCE-LTER vegetation monitoring plots in October 2014
Soil samples were collected in conjunction with Fall 2014 plant monitoring at half of the permanent vegetation monitoring plots in the creekbank and midmarsh zones at 10 GCE study sites. Pore-water salinity was determined by analysis of supernatant salinity in dried soil samples hydrated with a measured volume of deionized water.
Forest survey of species richness and basal area for two tidal forest plots at GCE 11 on the Altamaha River in Southeast Georgia in December 2013
We established two 0.1-ha plots in the Site 11 tidal forest in December 2013 to monitor forest composition. In each plot, we identified the species and measured DBH (diameter at breast height) of every tree using standard diameter tapes. We also used the DBH measurements to calculate the basal area of each tree.
Quarterly plant monitoring survey -- shoot height and flowering status and calculated biomass of plants in three GCE LTER permanent monitoring plots (7,8,9) and three Altamaha River plant transition sites (SCSA,ZSC1,ZSC2) following hurricane Irma from October 2017 through October 2018.
The biomass of plants surveyed in permanent plots at 3 GCE LTER sampling sites (7,8,9) and 3 Altamaha River plant transition sites (SCSA, ZSC1, ZSC2) following hurricane Irma from October 2017 through October 2018. October data are duplicates of data from the annual fall monitoring data sets but are included here for completeness. 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 a separate data set (PLT-IRMA-2002a). Biomass twas estimated based on allometric relationships between biomass and shoot height and flowering status derived for each site, zone, and species in October 2002 and October 2008. Biomass was calculated for dominant species, including Spartina alterniflora, S. cynosuroides, Juncus roemerianus, and Zizaniopsis miliacea, as well as rarer species including Scirpus spp, Panicum spp. And Typha angustifolia. This data set is based on GCE plant monitoring survey data set PLT-GCEM-1711a, and allometric relationships were based on GCE data sets PLT-GCEM-0211b and PLT-GCEM-0812a. NOTE: These relationships were measured in the fall and may not be valid at other seasons.
Quarterly disturbance observations to three GCE LTER permanent monitoring plots (7,8,9) and three Altamaha River plant transition sites (SCSA,ZSC1,ZSC2) following hurricane Irma from October 2017 through October 2018.
To access the effect of hurricane Irma on the GCE domain, yearly monitoring of species and size distribution of plants at three GCE LTER sampling sites (7, 8, 9) and three Altamaha plant transition sites (SCSA, ZSC1, ZSC2) was expanded to quarterly sampling between October 2017 and October 2018. We established permanent vegetation monitoring plots in creekbank and midmarsh at GCE sites 1-10 in 2000. A dedicated Juncus zone was later added at sites 10 and 9. We established creekbank permanent vegetation monitoring plots in three plant transition zones along the Altamaha River in 2012. When we recorded plant sizes, we also noted any disturbance to the plots. Plots were scored as normal (no visible disturbance), disturbed by wrack (wrack present in plots and stems dead or broken), disturbed by snails (>100 Littoraria per square meter and plant biomass low), disturbed by pigs (animal trail through the plot, this mostly happened at site 8 mid-marsh), initial slump (plot at the creekbank sliding into the creek based on movement of pvc poles or formation of a crevasse), and terminal slump (plot had slid far enough down that vegetation had drowned). Plots that experienced terminal slump or could not be found for any reason were scored as lost. Lost plots were replaced with a new plot in the same general area with the plot code incremented by 10. For example if plot 3 was lost, it was replaced by 13, and then in turn by 23. October data are duplicates of data from the annual fall monitoring data sets but are included here for completeness.
Fall 2000 plant monitoring survey -- biomass calculated from shoot height and flowering status of plants in permanent plots at GCE sampling sites 1-10
The biomass of plants surveyed in permanent plots at 10 GCE LTER sampling sites in October 2000 was estimated based on allometric relationships between biomass and shoot height and flowering status derived for each site, zone, and species in October 2002. Biomass was only calculated for dominant species, including Spartina alterniflora, S. cynosuroides, Juncus roemerianus, and Zizaniopsis miliacea. This data set is based on GCE plant monitoring survey data set PLT-GCEM-0101, and allometric relationships were based on GCE data set PLT-GCEM-0211b.
Fall 2001 plant monitoring survey -- biomass calculated from shoot height and flowering status of plants in permanent plots at GCE sampling sites 1-10
The biomass of plants surveyed in permanent plots at 10 GCE LTER sampling sites in October 2001 was estimated based on allometric relationships between biomass and shoot height and flowering status derived for each site, zone, and species in October 2002. Biomass was only calculated for dominant species, including Spartina alterniflora, S. cynosuroides, Juncus roemerianus, and Zizaniopsis miliacea. This data set is based on GCE plant monitoring survey data set PLT-GCEM-0110, and allometric relationships were based on GCE data set PLT-GCEM-0211b.
Fall 2002 plant monitoring survey -- biomass calculated from shoot height and flowering status of plants in permanent plots at GCE sampling sites 1-10
The biomass of plants surveyed in permanent plots at 10 GCE LTER sampling sites in October 2002 was estimated based on allometric relationships between biomass and shoot height and flowering status derived for each site, zone, and species in October 2002. Biomass was only calculated for dominant species, including Spartina alterniflora, S. cynosuroides, Juncus roemerianus, and Zizaniopsis miliacea. This data set is based on GCE plant monitoring survey data set PLT-GCEM-0211, and allometric relationships were based on GCE data set PLT-GCEM-0211b.
Hubbard Brook Experimental Forest: Valleywide Plot Tree and Sapling Inventory – 1995, 2005, 2015
The valley-wide plots are a grid of 431 sites along fifteen N–S transects established at 500-m intervals spanning the entire Hubbard Brook Valley. The plot network was designed by Paul Schwarz for spatial analysis of tree species distribution patterns within the valley. Multiple above- and below-ground attributes have been measured on these plots. This dataset includes forest inventory data at 10 year intervals, for 1995, 2005, and 2015. The full survey takes three seasons to complete, with the datatable listing the exact measurement interval for each tree. Data are included for both trees and saplings on 371 core plots (all surveys) and 60 densified plots (1998, 2008). Locations of plots in this study can be found in the following dataset: Hubbard Brook Experimental Forest Valleywide Plots: GIS Shapefile (2022.) https://doi.org/10.6073/pasta/440b176372e0cdeb341731aea816b67c These data were gathered as part of the Hubbard Brook Ecosystem Study (HBES). The HBES is a collaborative effort at the Hubbard Brook Experimental Forest, which is operated and maintained by the USDA Forest Service, Northern Research Station. These data have been used in a number of publications including: Schwarz, P.A., Fahey, T.J., Martin, C.W., Siccama, T.G., and Bailey, A. 2001. Structure and composition of three northern hardwood–conifer forests with differing disturbance histories. For. Ecol. Manage. 144(1–3): 201–212. doi:10.1016/S0378-1127(00)00371-6. Schwarz, P.A., Fahey, T.J., and McCulloch, C.E. 2003. Factors controlling spatial variation of tree species abundance in a forested landscape. Ecology, 84(7): 1862–1878. doi:10.1890/0012-9658(2003)084[1862:FCSVOT]2.0.CO;2. van Doorn, N.S., Battles, J.J., Fahey, T.J., Siccama, T.G., and Schwarz, P.A. 2011. Links between biomass and tree demography in a northern hardwood forest: a decade of stability and change in Hubbard Brook Valley, New Hampshire. Can. J. For. Res. <emphasis role="strong">41</emphasis>(7): 1369–1379. doi:10.1139/X11-063. C
Hubbard Brook Experimental Forest: Leaf Area Index (LAI) Throughfall Plots
Leaf area index (LAI) of the mature deciduous forest adjacent to WS6 at Hubbard Brook Experimental Forest is estimated on the basis of leaf litterfall collections; the raw data for litterfall are posted in the EDI data package – Fine Litterfall Data at the Hubbard Brook Experimental Forest, 1992 – present (https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-hbr&identifier=49). These plots are designated TF, referring to throughfall chemistry collections performed at these plots many years ago (Lovett et al. 1996). Leaf litterfall is collected in 0.097 m2 litter traps raised 1.5 m above ground level and is sorted by species. The number of leaves of each species is counted. The counts are multiplied by the average area per leaf for each species in each plot to estimate LAI. Litter traps are located randomly within each of three plots that are arranged along the elevation gradient within the deciduous forest zone. These data were gathered as part of the Hubbard Brook Ecosystem Study (HBES). The HBES is a collaborative effort at the Hubbard Brook Experimental Forest, which is operated and maintained by the USDA Forest Service, Northern Research Station. Gary M. Lovett, Scott S. Nolan, Charles T. Driscoll, and Timothy J. Fahey. Factors regulating throughfall flux in a New Hampshire forested landscape. Canadian Journal of Forest Research. 26(12): 2134-2144. https://doi.org/10.1139/x26-242
Multiple Element Limitation in Northern Hardwood Ecosystems (MELNHE): Project description, plot characteristics and design
Although temperate forests are generally thought of as N-limited, resource optimization theory predicts that ecosystem productivity should be co-limited by multiple nutrients. These ideas are represented in the Multi-Element Limitation (MEL) model (Rastetter et al. 2012). To test the patterns of resource limitation predicted by MEL, we are conducting nutrient manipulations in three study sites in New Hampshire: Bartlett Experimental Forest (BEF), Hubbard Brook Experimental Forest (HBEF), and Jeffers Brook in the White Mountain National Forest. We are monitoring stem diameter, leaf area, sap flow, foliar chemistry, leaf litter production and chemistry, foliar nutrient resorption, root biomass and production, mycorrhizal associations, soil respiration, heterotrophic respiration, N and P availability, N mineralization, soil phosphatase activity, soil carbon and nitrogen, nutrient uptake capacity of roots, and mineral weathering. These data can be found in the EDI repository, using the search term "MELNHE" (http://portal.edirepository.org), and through the data catalog on https://hubbardbrook.org, using the same search term. This data package is referenced by the MELNHE datasets, and includes a datatable of site descriptions and a pdf file with the project description, and diagrams of plot configuration. These data were gathered as part of the Hubbard Brook Ecosystem Study (HBES). The HBES is a collaborative effort at the Hubbard Brook Experimental Forest, which is operated and maintained by the USDA Forest Service, Northern Research Station.
Hubbard Brook Experimental Forest: 10-ha bird plot territory maps, 1969 - 2021
Maps showing the estimated territorial boundaries of all bird species occupying the 10-ha bird plot in the Hubbard Brook Experimental Forest, 1969-2021. These data were used in estimating the abundance of bird populations during this period (e.g., Holmes and Sturges 1975, Holmes et al. 1986, Holmes and Sherry 1988, 2001, Holmes 2011). These data were gathered as part of the Hubbard Brook Ecosystem Study (HBES). The HBES is a collaborative effort at the Hubbard Brook Experimental Forest, which is operated and maintained by the USDA Forest Service, Northern Research Station. Papers associated with this dataset: Holmes, R. T., & Sturges, F. W. (1975). Bird Community Dynamics and Energetics in a Northern Hardwoods Ecosystem. Journal of Animal Ecology, 44(1), 175–200. https://doi.org/10.2307/3857 Sherry, T. W. (1979). Competitive interactions and adaptive strategies of American Redstarts and Least Flycatchers in a northern hardwoods forest. The Auk, 96(2), 265-283. Holmes, R. T., Bonney, R. E., & Pacala, S. W. (1979). Guild Structure of the Hubbard Brook Bird Community: A Multivariate Approach. Ecology, 60(3), 512–520. https://doi.org/10.2307/1936071 Holmes, R. T., Sherry, T. W., & Sturges, F. W. (1986). Bird Community Dynamics in a Temperate Deciduous Forest: Long-Term Trends at Hubbard Brook. Ecological Monographs, 56(3), 201–220. https://doi.org/10.2307/2937074 Holmes, R. T., & Robinson, S. K. (1988). Spatial patterns, foraging tactics, and diets of ground-foraging birds in a northern hardwoods forest. The Wilson Bulletin, 377-394. Holmes, R. T., & Sherry, T. W. (1988). Assessing population trends of New Hampshire forest birds: local vs. regional patterns. The Auk, 105(4), 756-768. 10.2307/4087390 Holmes, R. T., & Sherry, T. W. (2001). Thirty-year bird population trends in an unfragmented temperate deciduous forest: importance of habitat change. The Auk, 118(3), 589-609. https://doi.org/10.1093/auk/118.3.589 Holmes, R. T. (2011). Avian population and community process
Perennial grass tiller and stolon counts in plots with experimentally altered precipitation variability at the Jornada Basin LTER site, 2012-2014
This dataset contains perennial grass tiller and stolon counts collected starting in 2012 for a long-term precipitation variability manipulation experiment at the Jornada Basin LTER site in southern New Mexico, U.S.A. The study was designed to assess the effect of interannual variability in precipitation on average aboveground net primary productivity (ANPP) in Chihuahuan Desert grasslands. The study began in 2009, has five annual precipitation treatments, and contains 50 plots (10 per treatment). This experiment uses precipitation shelters and irrigation treatments to manipulate water inputs to 2.5 x 2.5 meter plots in a desert grassland. There are high, low, and ambient (control) precipitation variability treatments. Ambient plots receive natural precipitation each year, while variability treatments alternate between 20% and 180% (high variability), or 50% and 150% (low variability) of ambient precipitation each year. Perennial grass tiller and stolon counts were made annually in each plot from 2012-2014. This is an ongoing study and the dataset will be updated as needed.
Perennial grass tiller and stolon density in plots with experimentally altered precipitation and nutrient inputs at the Jornada Basin LTER site, 2012-2014
This dataset contains perennial grass tiller and stolon counts collected starting in 2012 for a long-term precipitation and nutrient manipulation experiment at the Jornada Basin LTER site in southern New Mexico, U.S.A. This experiment uses precipitation shelters and irrigation treatments to manipulate water inputs, and fertilization treatments to alter nitrogen input to 2.5 x 2.5 meter plots in a desert grassland. Tillers and stolons of perennial grasses were counted in each plot in 2012, 2013 and 2014. This is an ongoing study and the dataset will be updated as needed.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.