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Patterns of movement of marine species can reflect strategies of reproduction and dispersal, species’ interactions, trophodynamics, and susceptibility to change, and thus critically inform how we manage populations and ecosystems. On coral reefs, the density and diversity of metazoan taxa is greatest in dead coral and rubble, which is suggested to fuel food webs from the bottom-up. Yet, biomass and secondary productivity in rubble is predominantly available in some of the smallest individuals, limiting how accessible this energy is to higher trophic levels. We address the bioavailability of motile coral reef cryptofauna based on small-scale patterns of emigration in rubble. We deployed modified RUbble Biodiversity Samplers (RUBS) and emergence traps in a shallow rubble patch at Heron Island, Great Barrier Reef, to detect community-level differences in the directional influx of motile cryptofauna under five habitat accessibility regimes. The mean density (0.13–4.5 ind.cm-3) and biomass (0.14–5.2 mg.cm-3) of cryptofauna were high and varied depending on microhabitat accessibility. Emergent zooplankton represented a distinct community (dominated by the Appendicularia and Calanoida) with the lowest density and biomass, indicating constraints on nocturnal resource availability. Mean cryptofauna density and biomass were greatest when interstitial access within rubble was blocked, driven by the rapid proliferation of small harpacticoid copepods from the rubble surface, leading to trophic simplification. Individuals with high biomass (e.g., decapods, gobies, and echinoderms) were greatest when interstitial access within rubble was unrestricted. Treatments with a closed rubble surface did not differ from those completely open, suggesting that top-down predation does not diminish rubble-derived resources. Our results show that conspecific cues and species’ interactions (e.g., competition and predation) within rubble are most critical in shaping ecological outcomes within the cryptobiome. These findings have implications for prey accessibility through trophic and community size structuring in rubble, which may become increasingly relevant as benthic reef complexity shifts in the Anthropocene. We address the bioavailability of coral reef cryptofauna in rubble based on small-scale patterns of emigration. We adapted the accessibility of Rubble Biodiversity Samplers (RUBS), models used to standardise biodiversity sampling in rubble (Wolfe and Mumby 2020), to explore the local movement patterns of rubble-dwelling fauna, with inference to predation processes within and beyond the cryptobenthos. Five treatments were developed to detect community-level differences in the directional influx of motile cryptofauna under various habitat accessibility regimes. Four of these treatments were developed by modifying accessibility into RUBS (https://www.thingiverse.com/thing:4176644/files) to understand limitations on the directional influx and movement of cryptofauna within coral rubble patches using four treatments; (1) open (completely accessible), (2) interstitial access (top closed), (3) surficial access (sides and bottom closed), and (4) raised (above rubble substratum). The fifth treatment involved a series of emergence plankton traps, designed to target demersal cryptofauna that vertically migrate from within the rubble benthos at night, given emergent zooplankton biomass and diversity are greatest at night. Fieldwork was conducted over several weeks (11th September to 5th October 2021) in a shallow (~3–5 m depth) reef slope site on the southern margin of Heron Island (-23˚26.845’ S, 151˚54.732’ E), Great Barrier Reef, Australia (Fig. 1). All collections were conducted under the Great Barrier Reef Marine Park Authority permit G20/44613.1.

This README file was generated on 2024-03-04 by Adriana Parra. ## GENERAL INFORMATION 1\. Title of Dataset: **Climate-limited vegetation change in the conterminous United States of America** 2\. Author Information A. First Author Contact Information Name: Adriana Parra Institution: University of Nevada, Reno Address: Reno, NV USA Email: adrianaparra@unr.edu B. Co-author Contact Information Name: Jonathan Greenberg Institution: University of Nevada, Reno Address: Reno, NV USA Email: jgreenberg@unr.edu 3\. Coverage period of the dataset: 1986-2018 4\. Geographic location of dataset: Conterminous United States 5\. Description: This dataset contains the input and the resulting rasters for the study “CLIMATE-LIMITED VEGETATION CHANGE IN THE CONTERMINOUS UNITED STATES OF AMERICA”, published in the Global Change Biology journal. The dataset includes a) the observed rates of vegetation change, b) the climate derived potential vegetation rates of change, c) the difference between potential and observed values and d) the identified climatic limiting factor. Additionally, the dataset includes a legend file for the identified climatic limiting factor rasters. ## SHARING/ACCESS INFORMATION 1\. Links to publications that cite or use the data: **Parra, A., & Greenberg, J. (2024). Climate-limited vegetation change in the conterminous United States of America. Global Change Biology, 30, e17204. [https://doi.org/10.1111/gcb.17204](https://doi.org/10.1111/gcb.17204)** 2\. Links to other publicly accessible locations of the data: None 3\. Links/relationships to ancillary data sets: None 4\. Was data derived from another source? Yes A. If yes, list source(s): "Vegetative Lifeform Cover from Landsat SR for CONUS" product publicly available in the ORNL DAAC (https://daac.ornl.gov/cgi-bin/dsviewer.pl?ds_id=1809) TerraClimate data catalog publicly available at the website https://www.climatologylab.org/terraclimate.html 5\. Recommended citation for this dataset: Parra, A., & Greenberg, J. (2024). Climate-limited vegetation change in the conterminous United States of America. Global Change Biology, 30, e17204. [https://doi.org/10.1111/gcb.17204](https://doi.org/10.1111/gcb.17204) ## DATA & FILE OVERVIEW This dataset contains 16 geotiff files, and one csv file. There are 4 geotiff files per each of the lifeform classes evaluated in this study: herbaceous, tree, shrub, and non-vegetation. The files corresponding to each lifeform class are indicated by the first two letters in the file name, HC indicates herbaceous cover, TC indicates tree cover, SC indicates shrub cover, and NC indicates non-vegetation cover. 1\. File List: a) Observed change: Trends of vegetation change between 1986 and 2018. b) Potential predict: Predicted rates of vegetation change form the climate limiting factor analysis. c) Potential observed difference: Difference between the potential and the observed vegetation rates of change. d) Limiting variable: Climate variable identified as the limiting factor for each pixel the conterminous United States. e) Legend of the Limiting variable raster All the geotiff files are stored as Float 32 type, and in CONUS Albers Equal Area coordinate system (EPSG:5070) The csv file included in the dataset is the legend for the limiting variable geotiff files. This file includes the name of the climate variable corresponding to each number in the limiting variable files, as well as information on the variable type and the corresponding time lag. 2\. Relationship between files, if important: None 3\. Additional related data collected that was not included in the current data package: None 4\. Are there multiple versions of the dataset? No A. If yes, name of file(s) that was updated: NA i. Why was the file updated? NA ii. When was the file updated? NA Input data We use the available data from the “Vegetative Lifeform Cover from Landsat SR for CONUS” product (https://daac.ornl.gov/cgi-bin/dsviewer.pl?ds_id=1809) to evaluate the changes in vegetation fractional cover. The information for the climate factors was derived from the TerraClimate data catalog (https://www.climatologylab.org/terraclimate.html). We downloaded data from this catalog for the period 1971 to 2018 for the following variables: minimum temperature (TMIN), precipitation (PPT), actual evapotranspiration (AET), potential evapotranspiration (PET), and climatic water deficit (DEF). Preprocessing of vegetation fractional cover data We resampled and aligned the maps of fractional cover using pixel averaging to the extent and resolution of the TerraClimate dataset (~ 4 km). Then, we calculated rates of lifeform cover change per pixel using the Theil-Sen slope analysis (Sen, 1968; Theil, 1992). Preprocessing of climate variables data To process the climate data, we defined a year time step as the months from July of one year to July of the next. Following this definition, we constructed annual maps of each climate variable for the years 1971 to 2018. The annual maps of each climate variable were further summarized per pixel, into mean and slope (calculated as the Theil-Sen slope) across one, two, three, four, five, ten-, and 15-year lags. Estimation of climate potential We constructed a final multilayer dataset of response and predictor variables for the CONUS including the resulting maps of fractional cover rate of change (four response variables), the mean and slope maps for the climate variables for all the time-lags (70 predictor variables), and the initial percent cover for each lifeform in the year 1986 (four predictor variables). We evaluated for each pixel in the CONUS which of the predictor variables produced the minimum potential rate of change in fractional cover for each lifeform class. To do that, we first calculated the 100% quantile hull of the distribution of each predictor variable against each response variable. To calculate the 100% quantile of the predictor variables’ distribution we divided the total range of each predictor variable into equal-sized bins. The size and number of bins were set specifically per variable due to differences in their data distribution. For each of the bins, we calculated the maximum value of the vegetation rate of change, which resulted in a lookup table with the lower and upper boundaries of each bin, and the associated maximum rate of change. We constructed a total of 296 lookup tables, one per lifeform class and predictor variable combination. The resulting lookup tables were used to construct spatially explicit maps of maximum vegetation rate of change from each of the predictor variable input rasters, and the final climate potential maps were constructed by stacking all the resulting maps per lifeform class and selecting for each pixel the minimum predicted rate of change and the predictor variable that produced that rate. Identifying climate-limited areas We defined climate-limited areas as the parts of the CONUS with little or no differences between the estimated climate potential and the observed rates of change in fractional cover. To identify these areas, we subtracted the raster of observed rates of change from the raster of climate potential for each lifeform class. In the study “CLIMATE-LIMITED VEGETATION CHANGE IN THE CONTERMINOUS UNITED STATES OF AMERICA”, published in the Global Change Biology journal, we evaluated the effects of climate conditions on vegetation composition and distribution in the conterminous United States (CONUS). To disentangle the direct effects of climate change from different non-climate factors, we applied "Liebig's law of the minimum" in a geospatial context, and determined the climate-limited potential for tree, shrub, herbaceous, and non-vegetation fractional cover change. We then compared these potential rates against observed change rates for the period 1986 to 2018 to identify areas of the CONUS where vegetation change is likely being limited by climatic conditions. This dataset contains the input and the resulting rasters for the study which include a) the observed rates of vegetation change, b) the climate derived potential vegetation rates of change, c) the difference between potential and observed values and d) the identified climatic limiting factor.

Poleward range extensions by warm-adapted sea urchins are switching temperate marine ecosystems from kelp-dominated to barren-dominated systems that favour the establishment of range-extending tropical fishes. Yet, such tropicalization may be buffered by ocean acidification, which reduces urchin grazing performance and the urchin barrens that tropical range-extending fishes prefer. Using ecosystems experiencing natural warming and acidification, we show that ocean acidification could buffer warming-facilitated tropicalization by reducing urchin populations (by 87%) and inhibiting the formation of barrens. This buffering effect of CO2 enrichment was observed at natural CO2 vents that are associated with a shift from a barren-dominated to a turf-dominated state, which we found is less favourable to tropical fishes. Together, these observations suggest that ocean acidification may buffer the tropicalization effect of ocean warming against urchin barren formation via multiple processes (fewer urchins and barrens) and consequently slow the increasing rate of tropicalization of temperate fish communities. In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2021) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2021-07-26.

# Nitrogen-fixing plants increase soil nitrogen and neighboring plant biomass, but decrease community diversity: A meta-analysis reveals the mediating role of soil texture [https://doi.org/10.5061/dryad.4qrfj6qk1](https://doi.org/10.5061/dryad.4qrfj6qk1) ## Description of the data and file structure This data file was constructed by gathering and extracting data from published scientific papers identified using a rigorous selection process (see manuscript for details on the selection process). The papers included in this data are identified within the primary dataset here, but also in the supplementary file of the manuscript. This dataset includes original manuscript information, data extractor, geographical and ecological data, and notation of any treatments or differences in groups, along with the means and error terms for each data point extracted. This is the raw data used for this paper. The 'yi' and 'vi' terms in the dataset are the individual log response ratio (lnRR) and variation, respectively. These are the terms used in all analyses presented in the final manuscript. There are moderators included in this dataset to account for and test for heterogeneity within the response of interest. However, given the nature of this type of analysis, there are quite a few missing data points from the various moderators; these are noted with an "N/A" in the dataset. The data file is titled "Ortiz-Wolf-2024-JoE.xslx" - this data file contains two spreadsheets: 'metadata' and 'dataset'. The 'metadata' spreadsheet describes each attribute (including abbreviations and units) in 'dataset'. The 'dataset' spreadsheet contains the independent effect sizes (Log Response Ratio) for each data point and the available moderator data there were used in our meta-analyses and used to generate figures presented in our manuscript and supplemental file. ## Sharing/Access Information NA Several recent regional studies have cast doubt on the widespread assumption that nitrogen-fixing plants (N-fixers) act as facilitators of neighboring plant communities. We conducted a meta-analysis to synthesize the effects of N-fixers on plant communities and to understand how ecological context moderates these effects. We analyzed studies that assessed paired effects of N-fixers and non-fixers on soil N, neighboring-plant (non-fixer) biomass, and plant community diversity; ecological moderators included climate, soil texture, and N-fixer growth form and invasive status. N-fixers led to higher soil N and neighboring plant biomass, but lower community diversity compared to non-fixers. The effect of N-fixers on neighboring plant biomass was strongly mediated by soil texture; N-fixer invasive status and growth form were also significant mediators of the facilitative effects of N-fixers. N-fixer effects lie on a continuum between facilitation and suppression that is moderated by intrinsic and extrinsic processes, and this analysis provides insight into how these factors moderate the effects of N-fixers. Overall, N-fixers facilitate neighbor biomass but suppress diversity, though high variation in these effects can be explained in part by ecological context.

Forest aboveground carbon density (ACD) for the main eight Hawaiian Islands in 2015-2016. The data are in 30 meter resolution format with the units of Mg C per hectare. The file is a standard GeoTIFF. Use of these data requires citation of this dataset plus citation of the source study as follows: Asner, G.P., S. Sousan, D.E. Knapp, P.C. Selmants, R.E. Martin, R.F. Hughes, and C.P. Giardina. 2016. Rapid forest carbon assessments of oceanic islands: a case study of the Hawaiian archipelago. Carbon Balance and Management 11, doi:10.1186/s13021-015-0043-4

Les paysages arctiques se caractérisent par la présence de nombreux lacs et étangs qui possèdent des propriétés physico-chimiques et biologiques distinctes. Depuis 2018, nous étudions les communautés zooplanctoniques de plus de 22 lacs et 13 étangs d'eau douce situés au sud de l'Île Victoria à Cambridge Bay, Nunavut (69 ° N, 105 ° O). Pour chacun des lacs et étangs échantillonnés les communautés de zooplancton ont été récoltées et les spécimens ont été identifiés jusqu'à l'espèce. Au total, plus de 77 espèces différentes ont été identifiées incluant 56 rotifères, 6 copépodes, 11 cladocères, 2 crevettes arctiques, une espèce appartenant à la famille des Mysidacea et une crevette têtard. Arctic landscapes are characterized by the presence of many lakes and ponds that exhibit distinct physico-chemical and biological properties. Since 2018, we have been studying the zooplankton communities of more than 22 lakes and 13 freshwater ponds located on southern Victoria Island, Cambridge Bay, Nunavut (69°N, 105°W). For each of the lakes and ponds sampled, zooplankton communities were collected and specimens were identified to species. In total, more than 77 different species were found, including 56 rotifers, 6 copepods, 11 cladocerans, 2 fairy shrimps, a mysid and a tadpole shrimp.

These data were compiled for a study that investigated the effects of drought seasonality and plant community composition in a dryland ecosystem. In 2015 U.S. Geological Survey ecologists recorded vegetation and soil moisture data in 36 experimental plots which manipulated precipitation in two plant community types. The experiment consisted of three precipitation treatments: control (ambient precipitation), cool-season drought (-66% ambient precipitation November-April), and warm-season drought (-66% ambient precipitation May-October), applied in two plant communities (perennial grasses with or without a large shrub, Ephedra viridis) over a three-year period. These data were collected from 2015 to 2022 near Canyonlands National Park, UT. These data represent precipitation, soil moisture, percent cover estimates, soil biogeochemistry data (carbon, nitrogen, and phosphorus concentrations) and biomass from experimental treatments. The datasets includes data on when treatments were imposed, ambient precipitation, soil moisture measured at two depths, plant cover and plant biomass measured in the spring and fall from 2015-2019. Additionally, soil cores were collected in the fall 2018 and spring 2019 to measure biogeochemical cycling concentrations for available carbon, nitrogen, phosphorus, and microbial biomass. Standing grass biomass and Ephedra viridis biomass are done through allometric relationships based on a combination of point-frame green hits, leaf lengths, and leaf numbers, combined with double sampling. The biomass data provide an estimate of how treatments are impacting overall grass and shrub species productivity. These data can be used to compare the effects of drought seasonality on shrub and grass communities and biogeochemistry dynamics.

These CLIM-MET stations are meteorological/geological stations that is designed to function in remote areas for long periods of time without human intervention. These stations measure meteorological and wind-erosion parameters under varying climatic and land-use conditions to detect and describe ongoing landscape changes. These data represent multiple years of local detailed landscape and environmental change observations. These data were collected in and close to Canyonlands National Park, Utah from 1 August 2016 to 31 December 2022. These data were collected by U.S. Geological Survey researchers utilizing site visits and automated data collection data loggers. These data can be used to inform studies of local and regional landscape change as well as to provide input into regional climatic models.

Two maps are provided from a study of the Republic of Panama. The maps are based on airborne light detection and ranging (lidar) data, combined with satellite-based maps of forest cover and properties, acquired in 2012. The resulting maps are: (1) top of canopy height or TCH; and (2) aboveground carbon density or ACD. Units for TCH are meters above ground. Units for ACD are Mg C per hectare. Maps are provided at 1.0 ha spatial resolution. File format is GeoTIFF. Use of these data require citation of this dataset and the original journal paper that delivered the mapping method. These citations are as follows: Asner, G.P., J. Mascaro, C. Anderson, D.E. Knapp, R.E. Martin, T. Kennedy-Bowdoin, M. van Breugel, S. Davies, J.S. Hall, H.C. Muller-Landau, C. Potvin, W. Sousa, J. Wright and E. Bermingham. 2013. High-fidelity national carbon mapping for resource management and REDD+. Carbon Balance and Management 8:7 (doi:10.1186/1750-0680-8-7) Asner, G.P., J. Mascaro, C. Anderson, D.E. Knapp, and R.E. Martin. 2021. Global Airborne Observatory: Forest canopy height and carbon stocks of Panama (Version 1.0) [Data set]. Zenodo http://doi.org/10.5281/zenodo.4624240

These data were compiled to provide gridded estimates of environmental suitability for pinyon-juniper species in western North America. These gridded suitability projections provide estimates of suitability under current climate conditions and future climate conditions and allow for visualization of suitability change across each species’ entire range. These data consist of gridded projected suitability values for three pinyon and six juniper tree species across western North America. Objective(s) of our study were to estimate suitability for these tree species under current and future climate conditions to compare potential for distribution shifts under climate change. These data represent a relationship between tree occurrences on the landscape and the climatic and soil conditions in which they occur. These data were created from species distribution models that used occurrence data publicly available online. These underlying occurrence data used to fit our models was gathered from USFS Forest Inventory and Analysis program, BLM's Assessment, Inventory and Monitoring program, the Global Biodiversity Information Facility and SEINet, a shared collection of western herbarium data records. Occurrence data were combined with environmental predictor data to fit species distribution models that then estimate landscape suitability under current and future climate conditions. These data can be used to assess how tree species' suitability may change under future climate conditions.