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Data from: "Warming and provenance limit tree recruitment across and beyond the elevation range of subalpine forest"

This data package contains data used to support conclusions drawn in “Warming and provenance limit tree recruitment across and beyond the elevation range of subalpine forest”, by Kueppers et al. 2017. Data were collected in field sites within the Alpine Treeline Warming Experiment (ATWE), located on Niwot Ridge, on the eastern slope of the Colorado Rocky Mountains, USA. Files containing geospatial data are also included, to provide additional locational context.There are four document formats associated with this archive: three comma-separated values (.csv) files, three Microsoft Excel (.xlsx) files, one .pdf data user’s guide, four keyhole markup language (.kml) files, and a compressed folder containing seven ESRI shapefiles (.shp). The .csv files can be opened using any simple text-editor software, R, or Microsoft Excel. The .xlsx files can only be opened using Microsoft Excel. The .kml file can be opened by Google Earth and Google Maps, and the shapefiles can be opened with any GIS application compatible with the file type, such as ESRI’s ArcGIS, and QGIS.We provide two versions of the seedling data file: “PIEN_PIFLseedlings20150522_20150525rev12222020.csv/.xlsx” (hereafter PIEN_PIFLseedlings2015) and “PIEN_PIFLseedlings20160408rev12222020.csv/.xlsx” (hereafter PIEN_PIFLseedlings2016). PIEN_PIFLseedlings2015 contains the data we used in the paper. PIEN_PIFLseedlings2016 contains an updated version of these data that includes sampling from later years. The main differences between the two files lie in the columns titled “k[YEAR],” which describe the number of seedlings that were killed in a particular year. In PIEN_PIFLseedlings2016, there also is an additional year of data for k2015, and k2014 also has additional data input for the 2014 cohort. Additionally, in years 2010-2014, there are minor differences in the number of seedlings killed -- in as few as 0 plots (in 2011) to as many as 5 plots (in 2014) -- due to errors in data input that were rectified in later years.------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Upslope range shifts by subalpine tree species are a widely anticipated effect of climate change. Climate niche models predict subalpine forests to expand upslope, given more suitable growing conditions for adult trees. However, these models do not take into account climates required for successful seedling recruitment and establishment, an essential element for expansion. Further, localized upper treeline populations are hypothesized to contain favorable traits for colonizing the alpine. To test these expectations and to expand our knowledge of seedling recruitment under climate change, we designed a common garden, climate-warming experiment spread across an elevation gradient at Niwot Ridge in the Colorado Rocky Mountains. We focus on two widespread Western North American species, Engelmann spruce (Picea engelmannii Parry ex. Engelm) and limber pine (Pinus flexilis James), which occur at treeline. While the former is considered a late-seral species more tolerant of shade, limber pine is a shade-intolerant pioneer species able to establish on infertile sites.Every autumn, seeds of the two species were collected from high- (3370 m–3570 m) and low-provenance (2910–3240 m) sources close to the experimental sites and sown in our plots. A subset of plots were heated and another subset watered over the summer months to offset the effects of warming. Across five years, we found that seeds originating from low elevation recruited more strongly for both species, although this provenance difference diminished by the fourth year for Engelmann spruce, likely due to small sample sizes. Despite the recruitment of low-provenance seed, warming treatments decreased recruitment at all elevations. Combining this with the likeliness and availability of lower-quality, high provenance seed moving upslope at the treeline, tree migration into the alpine may be slowed. Overall, our findings suggest that the hardier limber pine is likely to become a more significant species in subalpine forest communities in the future, while the more sensitive Engelmann spruce may experience range contraction.

54 ENVIRONMENTAL SCIENCES↗

Degradation and deforestation increase the sensitivity of the Amazon Forest to climate extremes

About 40% of the Brazilian Amazon has been deforested or suffered changes in forest structure through degradation (selective logging, fires, and fragmentation). The impact of forest degradation on the forest’s sensitivity to climate extremes has not been fully explored because of a lack of data and the complex interplay of forest structure and climate drivers. Here, we combined forest structure data from 545 airborne lidar transects (375 ha each) across the Brazilian Amazon with the Ecosystem Demography Model (ED2). We explore the forest’s functional response to near-present (1981–2019) climate extremes under observed forest structure from lidar ( Control ) and two forest structure change scenarios: (1) forest recovery by excluding all future deforestation and degradation ( Recovery ) and (2) expansion of selective logging and deforestation ( Degradation ). Using the Control simulation, we found a close and positive association between local forest aboveground biomass and the predicted gross primary productivity (GPP) and evapotranspiration (ET). Moreover, both GPP and ET respond negatively to extremes in vapor pressure deficit and downwelling shortwave irradiance in degraded forests in Eastern and Southern Amazon, indicating high sensitivity to droughts. Locally high-biomass forest patches showed little or no negative response of GPP and ET to extreme drought conditions whereas low-biomass forest patches in the same locations—typically degraded forest canopies—responded negatively to higher moisture stress. The results from the Recovery scenario showed similar results to simulations with observed structure; however, under the Degradation scenario, low-biomass forest patches became more abundant, resulting in more regions where GPP and ET are negatively impacted by hot drought conditions according to the ED2 model. Our results suggest that local forest structure is a critical determinant of an ecosystem’s response to climate variability, and that the loss of canopy trees in the Amazon through forest degradation could increase and expand forest vulnerability to droughts.

54 ENVIRONMENTAL SCIENCES↗

Water Observations of Flow/No-Flow for the East-Taylor Watershed, Colorado (June-July 2025 and 2026)

This dataset provides multi-year, ground-truth visual observations of surface water flow/no-flow conditions within the East-Taylor Watershed, Colorado, collected during June and July of 2025 and 2026. In June and July 2025, on-the-ground visual observations of flow/no-flow were collected as part of the Watershed Function Scientific Focus Area (SFA) and Rocky Mountain Biological Laboratory (RMBL) Colorado Headwaters Ecological Spectroscopy Study (CHESS) campaign (further details are provided within the CHESS Project Description). We obtained 377 water observations of flow/no-flow within the East-Taylor Watershed, Colorado. These ground-truth observations were collected to validate classification maps from remote sensing data and model results within the East-Taylor Watershed. In 2025, flow/no-flow measurements were collected using a field-based app for the CHESS Campaign (Zerion iForm). Within the field app, a water observation form was created to collect coordinates and metadata about the observation. Information collected for the water observation points included information about visually-assessed streamflow presence/absence (standard question obtained from Colorado State University’s StreamTracker project), flow estimate, stream or ponded area width, canopy cover, manganese films, iron seeps, and beaver activity. For 2025 water observations, this dataset contains: (1) a data file with the water observations and coordinates (2025_Water_Observations.csv); (2) a Keyhole Markup Language Zipped (KMZ) with the water observation locations and metadata (2025_Water_Observations_Locations.kmz); (3) photos (.jpg and .jpeg) of the water observation points, organized by location, contained within 2025_Water_Observations_FieldPhotographs.zip file; and (4) water observation protocols and figures (2025_Water_Observation_Protocols.pdf). In June and July 2026, on-the-ground visual observations of flow/no-flow were collected as part of the Watershed Function SFA project. We obtained 365 water observations of flow/no-flow within the East-Taylor Watershed, Colorado. The 2026 observations focused on collecting repeat measurements at the 2025 flow/no-flow observation locations conducted as part of the CHESS campaign. These ground-truth observations were collected to understand differences in flow/no-flow in 2026, given the unprecedented 2026 drought in Colorado. In 2026, flow/no-flow measurements were collected using ArcGIS (Geographic Information System) Survey123. Within the field app, a water observation form was created to collect coordinates and metadata about the observation. Information collected for the water observation points included repeat information from the 2025 water observation effort, including visually-assessed streamflow presence/absence (standard question obtained from Colorado State University’s StreamTracker project), flow estimate, stream or ponded area width, canopy cover, manganese films, iron seeps, beaver activity, and a new metadata component of estimated stream depth (for select locations). For 2026 water observations, this dataset contains: (1) a data file with the water observations and coordinates (2026_Water_Observations.csv); (2) a Keyhole Markup Language Zipped (KMZ) with the water observation locations and metadata (2026_Water_Observations_Locations.kmz); (3) photos (.jpg) of the water observation points, organized by location, contained within 2026_Water_Observations_FieldPhotographs.zip file; and (4) water observation protocols and figures (2026_Water_Observation_Protocols.pdf). For 2025 and 2026 water observations, this dataset contains: (1) a location metadata file (locations.csv); (6) a file-level metadata (flmd.csv) file that lists each file contained in the dataset with associated metadata; and (7) a data dictionary (dd.csv) file that contains column/row headers used throughout the files along with a definition, units, and data type. CHESS Project Description: The Colorado Headwaters Ecological Spectroscopy Study (CHESS) comprised a multi-week airborne remote sensing and field observation campaign in the Upper Gunnison Basin, Colorado, conducted in June and July of 2025. Airborne remote sensing was conducted by the National Ecological Observatory Network Airborne Observation Platform (NEON AOP), concurrent with a field campaign run by the Rocky Mountain Biological Laboratory (RMBL), the Lawrence Berkeley National Laboratory (LBNL) and SLAC National Accelerator Laboratory Watershed Function Science Focus Area (SFA), and NASA-JPL (Jet Propulsion Laboratory) Earth Surface Mineral Dust Source Investigation (EMIT) program. Between June 10 and July 18, 2025, the NEON AOP flight team collected high-resolution aerial imaging spectroscopy and Light Detection and Ranging (LiDAR) data over three domains: the Upper East River (CRBU), Almont Triangle (ALMO), and the Upper Taylor Basin (UPTA). In coordination with the flights, a field campaign acquired ground-truth observations, including observations of vegetation composition, foliar traits, forest demography, and subsurface properties in 18 core sampling areas within the domains. Additional surface water observations were taken at over 380 point locations. All CHESS campaign datasets can be found within the CHESS ESS-DIVE data portal: https://data.ess-dive.lbl.gov/portals/chess. This work was supported by the Watershed Function Science Focus Area at Lawrence Berkeley National Laboratory funded by the US Department of Energy, Office of Science, Biological and Environmental Research under Contract No. DE-AC02-05CH11231. 2026-09-02: This dataset was updated to include 2026 water observation measurements. The 2025 observation files were also updated to ensure a consistent file naming convention across water observation years.

2018 NEON and 2025 CHESS Campaigns↗

Laboratory time series moisture manipulative experiment from sediment across the contiguous US: time series aerobic respiration and geochemistry (v2)

This dataset supports a broader study examining the effects of wetting and drying on hyporheic zone respiration across the contiguous United States (CONUS). The dataset provides data generated from a laboratory moisture manipulation experiment. The contents include time series aerobic respiration and moisture; dissolved oxygen; sediment geochemistry data; and field metadata (including qualitative information on instream and river corridor characteristics). Samples were collected as part of the WHONDRS CONUS-Scale Model-Sample Study (CM). This study was designed following ICON (integrated, coordinated, open, and networked) principles to facilitate a model-experiment (ModEx) iteration approach, leveraging crowdsourced sampling across the CONUS. The data package associated with the CM study is available at https://data.ess-dive.lbl.gov/view/doi:10.15485/1923689. CM sampling began in April 2022 and ended in October 2023. This study uses subsamples from a subset of CM samples collected between June 2022 and June 2023. The original field samples were labeled as CM_###. Subsequent subsamples for this study were labeled as EC_###. The labels from the field samples and the EC subsamples can be mapped directly based on the digits following the prefix and underscore (i.e., EC_001 is a subsample from CM_001). See the critical details section below for more details on sample naming. This data package was originally published in August 2024. It was updated in February 2026 (v2; new and modified files). See the change history section in the readme for more details. For details on how to navigate this data package, see this infographic from the River Corridor SFA https://data.ess-dive.lbl.gov/portals/PNNLRiverCorridorSFA/About. This dataset is comprised of one folder of raw Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS) data and one main data folder containing (1) file-level metadata; (2) data dictionary; (3) field metadata; (4) readme; (5) field protocol; and a (6) a subfolder with sediment sample data from the incubation experiment. The sample data subfolder contains (1) dissolved organic carbon (DOC, measured as non-purgeable organic carbon, NPOC); (2) total nitrogen (TN); (3) adenosine triphosphate (ATP); (4) percent carbon and nitrogen; (5) effect size; (6) iron (II); (7) gravimetric moisture; (8) respiration rates and raw dissolved oxygen values; (9) specific conductance; (10) pH; (11) temperature; (12) a summary containing median values of each data type for each treatment (wet and dry); (13) methods codes; (14) FTICR-MS methods; and (15) a subfolder of 9.4 Tesla FTICR-MS data. This folder contains three subfolders, one containing the sediment .xml data files, one containing the sediment CoreMS output files, the other containing instructions and scripts for processing the files in CoreMS (https://github.com/EMSL-Computing/CoreMS). All files are .csv, .pdf, .R, .ref, or .xml.

54 ENVIRONMENTAL SCIENCES↗

Spatial Study 2022: Surface Water Samples, Cotton Strip Degradation, and Hydrologic Sensor Data across the Yakima River Basin, Washington, USA (v3)

This dataset supports a broader study examining the drivers of spatial variability in sediment respiration rates in the Yakima River Basin. The dataset provides data and photos generated from sample collection during the same one-week period at 48 sites within multiple rivers throughout the Yakima River Basin in Washington, USA. The contents include surface water geochemistry data; river substrate grain size photos; stream depth data; manual chamber open channel respiration data; and field metadata (including qualitative information on instream and river corridor characteristics). Grain size photos can be used to improve estimates of channel substrate D50 data. The dataset also includes tensile strength and photos from cotton strip field degradation experiments; five-week sensor time series temperature, dissolved oxygen, pressure, pH, specific conductance, chlorophyll A, and turbidity data; plots of the sensor data; and R scripts used to generate the plots. Samples collected during this study were labeled as “Second Spatial Study” or “SSS.” A subset of data from the SSS samples were published in the contiguous United States (CONUS)-Scale Model-Sample (CM) study data package available at https://data.ess-dive.lbl.gov/view/doi:10.15485/1923689 that presents data from across the CONUS. SSS data published in the CM data package were not included in this data package. They include dissolved organic carbon (DOC, measured as non-purgeable organic carbon, NPOC), total nitrogen (TN), grain size, aerobic sediment respiration, dissolved oxygen (DO), and temperature. Parent IDs and Site IDs are consistent between the SSS and CM data packages, and they can be mapped directly so data across packages can be used together. Additionally, sensor data from a similar 2021 spatial study can be found at https://data.ess-dive.lbl.gov/view/doi:10.15485/1892052 and 2021 sample data can be found at https://data.ess-dive.lbl.gov/view/doi:10.15485/1898914. The 2021 spatial study had some sites in common with this 2022 spatial study. This dataset is comprised of three photo folders and one main data folder with six subfolders. The photo folders contain photographs and videos of cotton strip retrieval and sediment quadrats. The main data folder consists of (1) file-level metadata; (2) data dictionary; (3) field metadata; (4) total suspended solids (TSS) data and cotton strip tensile strength data and averages; (5) field protocol; (6) readme; (7) methods codes; (8) international generic sample number (IGSN) mapping file; (9) sensor installation methods summary; (10) stream depth and averages; and (11) Ultrameter data and averages. The Sonar subfolder consists of Sonar time-series depth data and a processing script. The BarotrollAtm, DepthHOBO, MantaRiver, miniDOT, and miniDOTManualChamber subfolders contain time-series data, plots, and summary files. All files are .csv, .pdf, .txt, .R, .Rmd, .jpg, .jpeg, .AVI, .mp4, or .mov. The data package was originally published in April 2023. It was updated in August 2023 (v2; modified files) and September 2024 (v3; modified files). See the change history section in the readme for details. We acknowledge the Yakama Nation as owners and caretakers of the lands where we collected these data. We thank the Confederated Tribes and Bands of the Yakama Nation Tribal Council and Yakama Nation Fisheries for working with us to facilitate sample collection and optimization of data usage according to their values and worldview.

54 ENVIRONMENTAL SCIENCES↗