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Updated HIV-1 Consensus Sequences Change but Stay Within Similar Distance From Worldwide Samples

HIV consensus sequences are used in various bioinformatic, evolutionary, and vaccine related research. Since the previous HIV-1 subtype and CRF consensus sequences were constructed in 2002, the number of publicly available HIV-1 sequences have grown exponentially, especially from non-EU and US countries. Here, we reconstruct 90 new HIV-1 subtype and CRF consensus sequences from 3,470 high-quality, representative, full genome sequences in the LANL HIV database. While subtypes and CRFs are unevenly spread across the world, in total 89 countries were represented. For consensus sequences that were based on at least 20 genomes, we found that on average 2.3% (range 0.8–10%) of the consensus genome site states changed from 2002 to 2021, of which about half were nucleotide state differences and the rest insertions and deletions. Interestingly, the 2021 consensus sequences were shorter than in 2002, and compared to 4,674 HIV-1 worldwide genome sequences, the 2021 consensuses were somewhat closer to the worldwide genome sequences, i.e., showing on average fewer nucleotide state differences. Some subtypes/CRFs have had limited geographical spread, and thus sampling of subtypes/CRFs is uneven, at least in part, due to the epidemiological dynamics. Thus, taken as a whole, the 2021 consensus sequences likely are good representations of the typical subtype/CRF genome nucleotide states. The new consensus sequences are available at the LANL HIV database.

60 APPLIED LIFE SCIENCES↗

New Capabilities for Sampling Tools

This report will discuss new capabilities that have been added to the sample.py and uniform_sampler.py codes. The codes have been updated to allow for both log-uniform sampling and categorical variables. The categorical variables do not have to be numeric. The different values for a categorical variable are specified in a limits file by having spaces between them. The difference between sample.py and uniform_sampler.py is that sample.py is for generating random samples and uniform_sampler.py is for generating samples or points on a fixed grid. After sourcing a file to set the environment, execute the codes with the commands: sample.py and uniform sampler.py .

97 MATHEMATICS AND COMPUTING↗

U328 Electrical Reliability Project Soil Sampling and Analysis Plan

Lawrence Livermore National Laboratory's (LLNL’s) Project Management Office (PMO) is planning to install an underground electrical duct bank at the 3200 block of the Livermore Site (project). The proposed project will include a new electrical substation and feeders, demolition and replacement of the U328C utility building with a new structure to the west, re-routing of utilities, and update of the parking lot. This Sampling and Analysis Plan (SAP) outlines the procedures to collect and evaluate environmental samples for disposition of the excavated soil during the project and geotechnical samples for pavement design. This SAP has been prepared and is organized to be consistent with LLNL's Soils Screening and Management Plan (SSMP) (LLNL, 2022), as well as the U.S. Environmental Protection Agency's (EPA) Data Quality Objectives (DQO) process (EPA, 2006). In addition to the environmental samples, geotechnical samples will be collected by Consolidated Engineering Laboratories (CEL) on behalf of PMO. Geotechnical samples will be collected from a dedicated geotechnical boring location or co-located with environmental samples. Collection and evaluation of the geotechnical samples is determined by CEL and is therefore not discussed in this SAP.

54 ENVIRONMENTAL SCIENCES↗

Ice nucleation measurements from DRUM impactors during TRACER campaign in the Houston TX region from July to September 2022

During TRACER, three Davis Rotating Uniform size-cut Monitors (DRUM; DRUMAir 4-DRUM) were used to collect aerosols for ice nucleation measurements in the Brooks laboratory at Texas A&M University. The three instruments were located at AMF1 in La Porte, Ancillary site in Guy (ANC), and onboard the Texas A&M Rapid Onsite Atmospheric Measurements Van (ROAM-V). ROAM-V was deployed to capture airmasses behind (maritime) and ahead (continental) of the passage of the sea-breeze front through Houston. On select sampling days, ROAM-V sampled in the morning/mid-day on the coast and then transited to a second inland site for the afternoon/evening. The suite of instruments deployed on ROAM-V included a Condensation Particle Counter (CPC; GRIMM Model 5.403 CPC), Scanning Mobility Particle Sizer (SMPS; TSI 3750 detector, TSI 3082 classifier, TSI 3088 neutralizer, TSI 3081A Differential Mobility Analyzer), Cloud Condensation Nuclei counter (Droplet Measurement Technologies CCN Counter), micro pulse lidar (Droplet Measurement Technologies Micro Pulse LiDAR (miniMPL)), and one of the Davis Rotating Uniform size-cut Monitors (DRUM; DRUMAir 4-DRUM). Before sampling at each location, the latitude and longitude were recorded using the GPS on the phone application “My Altitude”. Each DRUM sampler was operated at a flow rate of 23 LPM. Each DRUM has four stages where the aerodynamic diameter size cuts are as follows: stage 1 larger than 3 μm, stage 2 from 3 to 1.2 μm, stage 3 from 1.2 to 0.34 μm, and stage 4 from 0.34 to 0.15 μm. Pretreated aluminum foil was used as a substrate on all stages. At AMF1 and ANC sites, the DRUMs were operated on the shared aerosol inlet, with generous support of the DOE ARM site staff. These instruments rotated 24 mm per day and only contained aluminum foil substrates. Substrates were changed weekly and transported to Texas A&M for storage in -80C freezer until analysis. The DRUM onboard ROAM-V was operated at a faster rotation rate of 150 mm per day to clearly separate the multiple deployment locations for ROAM-V. For the ROAM-V DRUM, substrates were changed every deployment and transported to Texas A&M for storage in -80C freezer until analysis. At Texas A&M, ice nucleation experiments were conducted to measure the ice nucleation temperature of the ambient aerosol samples collected from the three DRUMs using our previously established procedures (Alsante et al., 2023; Fornea et al., 2009; Matthews et al., 2023). For ice nucleation, only samples collected on stage 3 were analyzed, given that these are the most relevant size (1.2 to 0.34 μm diameter) for potential ice nucleating particles. For the AMF1 and ANC sites, we cut and analyzed 2 mm (2-hour) samples. We analyzed the time periods of the AMF1 site instrument when the ROAM-V was deployed. A 72-hour period from July 11th at 23:49 through July 15th at 1:49 was analyzed from the ANC site instrument. For the ROAM-V instrument, we separated the daily samples by site location. Between 1- and 6-hour independent samples were analyzed at each location. We also cut the ROAM-V samples in half to allow for compositional analysis of the aerosol on the other half of the substrate. All viable samples from the ROAM-V were analyzed. Analysis was done using a custom-built ice nucleation apparatus, recently updated to include an array of 16 individual samples (Matthews et al., 2023). On our experimental setup, we used 100 μL of Ultra-High-Performance Liquid Chromatography (UHPLC) water (Sigma Aldrich, >99.9% purity) to wash off the aerosol from the DRUM substrate. Then, we micropipetted 2 μL droplet samples into each of the 16 wells of the array, using hydrophobically coated microscope slides. Experiments would cycle 28 times from 10 C to -40C over a 20-hour period. During analysis of the TRACER samples, nine experiments were conducted with UHPLC water process blanks that followed an identical preparation procedure. The average freezing temperature and standard deviation for these process blanks is -27.7±2.4 C. This data was collected for ARM Field Campaign AFC07023 and supported by DOE ASR grant DE-SC0021047. For any further questions, please feel free to contact the instrument PI, Sarah D. Brooks, sbrooks@tamu.edu. Alsante, A. N., Thornton, D. C., & Brooks, S. D. (2023). Ice nucleation catalyzed by the photosynthesis enzyme RuBisCO and other abundant biomolecules. Communications Earth & Environment, 4(1), 51. Fornea, A. P., Brooks, S. D., Dooley, J. B., & Saha, A. (2009). Heterogeneous freezing of ice on atmospheric aerosols containing ash, soot, and soil. Journal of Geophysical Research: Atmospheres, 114(D13). DOI:10.1029/2009JD011958 Matthews, B. H., Alsante, A. N., & Brooks, S. D. (2023). Pollen Emissions of Subpollen Particles and Ice Nucleating Particles. ACS Earth and Space Chemistry.

54 ENVIRONMENTAL SCIENCES↗

Location Identifiers, Metadata, and Map for Field Measurements at the East-Taylor Watershed Community Observatory, Colorado, USA (Version 3.3)

This dataset contains identifiers, metadata, and a map of the locations where field measurements have been conducted at the East-Taylor Watershed Community Observatory located in the Upper Colorado River Basin, United States. This is version 3.3 of the dataset and replaces the prior version 3.2 (see below for details on changes between the versions). Dataset description: The East River-Taylor Watershed is the primary field site of the Watershed Function Scientific Focus Area (WFSFA) and the Rocky Mountain Biological Laboratory. Researchers from several institutions generate highly diverse hydrological, biogeochemical, climate, vegetation, geological, remote sensing, and model data at the East-Taylor Watershed in collaboration with the WFSFA. Thus, the purpose of this dataset is to maintain an inventory of the field locations and instrumentation to provide information on the field activities in the East-Taylor Watershed and coordinate data collected across different locations, researchers, and institutions. The dataset contains (1) a README file with information on the various files, (2) three csv files describing the metadata collected for each surface point location, plot and region registered with the WFSFA, (3) csv files with metadata and contact information for each surface point location registered with the WFSFA, (4) a csv file with with metadata and contact information for plots, (5) a csv file with metadata for geographic regions and sub-regions within the watershed, (6) a compiled xlsx file with all the data and metadata which can be opened in Microsoft Excel, (7) a kml map of the locations plotted in the watershed which can be opened in Google Earth, (8) a jpg image of the kml map which can be viewed in any photo viewer, and (9) a zipped file with the registration templates used by the SFA team to collect location metadata. The zipped template file contains two csv files with the blank templates (point and plot), two csv files with instructions for filling out the location templates, and one compiled xlsx file with the instructions and blank templates together. Additionally, the templates in the xlsx include drop down validation for any controlled metadata fields. Persistent location identifiers (Location_ID) are determined by the WFSFA data management team and are used to track data and samples across locations. Dataset uses: This location metadata is used to update the Watershed SFA’s publicly accessible Field Information Portal (an interactive field sampling metadata exploration tool; https://wfsfa-data.lbl.gov/watershed/), the kml map file included in this dataset, and other data management tools internal to the Watershed SFA team. Version Information: The latest version of this dataset publication is version 3.3. This version contains 167 new point locations, 1 new plot, and 2 new geographic regions. Overall, there are a total of 1439 point locations, 75 plots, and 54 geographic regions. Additionally, the kml map of locations and image now includes two boundaries (Upper Ohio Creek (UO) and Carbon Creek (CA)) outside of the East River watershed (USGS HUC-10) and accompanying stream network that represents areas of focus. Refer to methods for further details on the version history. This dataset will be updated on a periodic basis with new measurement location information. Researchers interested in having their East-Taylor Watershed measurement locations added to this list should reach out to the WFSFA data management team at wfsfa-data@googlegroups.com. Acknowledgments: Please cite this dataset if using any of the location metadata in other publications or derived products. If using the location metadata for the 2018 NEON hyperspectral campaign, additionally cite Chadwick et al. (2020). doi:10.15485/1618130. 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. Part of this work was performed at SLAC Accelerator Laboratory funded by the US Department of Energy, Office of Science, Biological and Environmental Research under Contract No. DE-AC02-76SF00515.

2018 NEON and 2025 CHESS Campaigns↗

Current and future federal and state sampling guidance for per- and polyfluoroalkyl substances in environmental matrices

Per- and polyfluoroalkyl substances (PFAS) are a class of emerging contaminants composed of an estimated 5000 to 10,000 human-made, fluorinated, organic chemicals. Due to the complexity of PFAS, the need for multiple environmental matrix considerations and the absence of a promulgated federal standard for environmental sampling and analysis, U.S. states have begun developing health-based regulatory and/or guidance values for a limited number of PFAS in environmental matrices. As there is a growing body of science to inform PFAS sampling guidance standard development, it is important to understand which U.S. states are implementing sampling guidelines and how they plan to handle emerging PFAS. This critical review discusses the current and impending federal and state sampling guidelines for PFAS in environmental matrices, the data gaps surrounding PFAS sampling guidance in U.S. states, and the future impacts of impending guidance documents and regulations. Ten federal guidance documents are available for PFAS sampling guidance and analysis. The maximum number of PFAS covered in these guidance documents is 25 analytes spanning across 8 unique media. While the EPA has developed several different sampling and analytical guidelines for PFAS, there is no formal regulation of PFAS or requirements of states to enforce these guidelines. Consequently, only 31 states have informally adopted sampling guidelines, while the other 19 states have no guidance documentation in place for PFAS. The introduction of new PFAS sampling guidelines by the EPA, as well as updated analytical guidelines that target more PFAS or total organofluoride, is expected to continuously shift the landscape of federal and state guidance for PFAS sampling moving forward.

54 ENVIRONMENTAL SCIENCES↗

Scalable and Memory-Efficient Algorithms for Controlling Networked Epidemic Processes Using Multiplicative Weights Update Method

We study the problem of designing scalable algorithms to find effective intervention strategies for controlling stochastic epidemic processes on networks. This is a common problem arising in agent based models for epidemic spread. Previous approaches to this problem focus on either heuristics with no guarantees or approximation algorithms that scale only to networks corresponding to county-sized populations, typically, with less than a million nodes. In particular, the mathematical-programming based approaches need to solve the Linear Program (LP) relaxation of the problem using an LP solver, which restricts the scalability of this approach. In this work, we overcome this restriction by designing an algorithm that adapts the multiplicative weights update (MWU) framework, along with the sample average approximation (SAA) technique, to approximately solve the linear program (LP) relaxation for the problem. To scale this approach further, we provide a memory-efficient algorithm that enables scaling to large networks, corresponding to country-size populations, with over 300 million nodes and 30 billion edges. Furthermore, we show that this approach provides near-optimal solutions to the LP in practice.

Sambaturu, Prathyush↗

Data Quality Objectives Supporting Radiological Air Emissions Monitoring for the PNNL-Richland Campus: North Campus Construction (Rev. 3)

Starting in fiscal year 2023, the north area of the PNNL-Richland Campus will undergo development. Initially, infrastructure (water, electrical) improvements will be installed. Later development includes the construction of several new office buildings. The area to be developed currently contains no buildings but does have two existing solar-powered ambient air sampling stations. Under the requirements of Washington State Department of Health Radioactive Air Emissions License -005, the PNNL-Richland Campus must operate and maintain a radiological air monitoring program. This revision documents and evaluates how the new North Campus construction impacts ambient air surveillance stations within the development region. This revision also considers current stack configurations and uses an updated environmental dispersion model and updated meteorological data. The DQO team concluded that one sampling station in the construction area will be relocated and the other remain in place. The evaluations conducted for this DQO also identified a third sampling station outside the development area that is recommended for relocation as a result of updated dispersion modeling. Recommended sites for the relocations are presented. Considerations for sampling in and around a construction zone are also addressed. Additionally, programmatic improvements to the ambient air sampling program were identified in the DQO process.

54 ENVIRONMENTAL SCIENCES↗

Technical note: Optimizing the in situ cosmogenic 36 Cl extraction and measurement workflow for geologic applications

Abstract. In situ cosmogenic 36Cl analysis by accelerator mass spectrometry (AMS) is routinely employed to date Quaternary surfaces and assess rates of landscape evolution. However, standard laboratory preparation procedures for 36Cl dating require the addition of large amounts of isotopically enriched chlorine spike solution; these solutions are expensive and increasingly difficult to acquire from commercial sources. In addition, the typical workflow for 36Cl dating involves measuring both 35Cl/37Cl and 36Cl/Cl concurrently on the high-energy (post-accelerator) end of the AMS system, but 35Cl/37Cl determinations using this technique can be complicated by isotope fractionation and system memory during measurement. The traditional workflow also does not provide 36Cl extraction laboratories with the data needed to calculate native Cl concentrations in advance of 36Cl/Cl measurements. In light of these concerns, we present an improved workflow for extracting and measuring chlorine in geologic materials. Our initial step is to characterize 35Cl/37Cl on sample aliquots of up to ∼1 g prepared in Ag(Cl, Br) matrices, which greatly reduces the amount of isotopically enriched spike solution required to measure native Cl content in each sample. To avoid potential issues with isotope fractionation through the accelerator, 35Cl/37Cl is measured on the low-energy, pre-accelerator end of the AMS line. Then, for 36Cl/Cl measurements, we extract Cl as AgCl or Ag(Cl, Br) in analytical batches with a consistent total Cl load across all samples; this step is intended to minimize source memory effects during 36Cl/Cl measurements and allows the preparation of AMS standards that are customized to match known Cl contents in the samples. To assess the efficacy of this extraction and measurement workflow, we compare chlorine isotope ratio measurements on seven geologic samples prepared using standard procedures and the updated workflow. Measurements of 35Cl/37Cl and 36Cl/Cl are consistent between the two workflows, and 35Cl/37Cl values measured using our methods have considerably higher precision than those measured following standard protocols. The chemical preparation and measurement workflow presented here (1) reduces the amount of isotopically enriched chlorine spike used per rock sample by up to 95 %; (2) identifies rocks with high native Cl concentrations, which may be lower priority for 36Cl surface exposure dating, at an early stage of analysis; and (3) allows laboratory users to maintain control over the total chlorine content within and across analytical batches. These methods can be incorporated into existing laboratory and AMS protocols for 36Cl analyses and will increase the accessibility of 36Cl dating for geologic applications.

58 GEOSCIENCES↗

DeepThermo: Deep Learning Accelerated Parallel Monte Carlo Sampling for Thermodynamics Evaluation of High Entropy Alloys

Since the introduction of Metropolis Monte Carlo (MC) sampling, it and its variants have become standard tools used for thermodynamics evaluations of physical systems. However, a long-standing problem that hinders the effectiveness and efficiency of MC sampling is the lack of a generic method (a.k.a. MC proposal) to update the system configurations. Consequently, current practices are not scalable. Here we propose a parallel MC sampling framework for thermodynamics evaluation—DeepThermo. By using deep learning–based MC proposals that can globally update the system configurations, we show that DeepThermo can effectively evaluate the phase transition behaviors of high entropy alloys, which have an astronomical configuration space. For the first time, we directly evaluate a density of states expanding over a range of ~e 10,000 for a real material. We also demonstrate DeepThermo’s performance and scalability up to 3,000 GPUs on both NVIDIA V100 and AMD MI250X-based supercomputers.

Yin, Junqi↗

ICE Calculator 2.0: Final Report for Phase 1 of the National Initiative to Update the Interruption Cost Estimate (ICE) Calculator

In 2021, Berkeley Lab and Resource Innovations, Inc. launched the “ICE 2.0 Initiative” – a national study to refresh the underlying data and enhance the functionality of the ICE Calculator. The Initiative involves Berkeley Lab contracting with sponsoring utilities to administer identical, updated and comprehensive interruption cost surveys to statistically representative samples of each utility’s customers. Berkeley Lab and Resource Innovations then pool the survey results across the utilities and use them to update the analytical engines that drive the ICE Calculator. The ICE 2.0 Initiative is being conducted in phases. Each phase involves the administration of interruption cost surveys to the customers of sponsoring utilities, followed by an update to the ICE Calculator based on analysis of the pooled survey results. This report describes the activities and findings from Phase 1 of the ICE 2.0 Initiative. Phase 1 was sponsored by eight utilities: American Electric Power, Commonwealth Edison, Dominion Energy, Duke Energy, DTE Electric, Exelon, National Grid, and Puget Sound Energy. Phase 1 involved 11 customer interruption cost survey activities representing a total of 24 electricity distribution service territories, 23 of them located in the Eastern and Midwestern regions of the U.S. and one located in the Pacific Northwest. ICE 2.0 vs. 1.0 Comparison This memorandum compares customer power interruption costs estimated using the recently updated Interruption Cost Estimate (ICE) Calculator (“ICE 2.0”) to the original ICE Calculator (“ICE 1.0”). ICE 1.0 was developed in 2009 based on 15 independent power interruption cost surveys conducted by 10 electric utilities between 1989 and 2012. ICE 2.0 was developed in 2025 through a national initiative based on a consistent set of power interruption cost surveys and 11 surveying efforts conducted across 24 electric utility service territories between 2022 and 2024.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

ICE Calculator 2: Final Report for Phase 1 and 2 of the National Initiative to Update the Interruption Cost Estimate (ICE) Calculator

ICE 2.0 Phase 2 Final Report In 2021, Berkeley Lab and Resource Innovations, Inc. launched the “ICE Calculator 2 Initiative” – a national study to refresh the underlying data and enhance the functionality of the ICE Calculator. The Initiative involves Berkeley Lab contracting with sponsoring utilities to administer identical, updated and comprehensive interruption cost surveys to statistically representative samples of each utility’s customers. Berkeley Lab and Resource Innovations then pool the survey results across the utilities and use them to update the analytical engines that drive the ICE Calculator. The ICE Calculator 2 Initiative is being conducted in phases. Each phase involves the administration of interruption cost surveys to the customers of sponsoring utilities, followed by an update to the ICE Calculator based on analysis of the pooled survey results. This report describes the activities and findings from Phase 1 and 2 of the ICE Calculator 2 Initiative. Phase 1 was sponsored by eight utilities: American Electric Power, Commonwealth Edison, Dominion Energy, Duke Energy, DTE Electric, Exelon, National Grid, and Puget Sound Energy. Phase 2 was sponsored by six utilities: Empire District Electric Company, Evergy Missouri, Pacific Gas & Electric, San Diego Gas & Electric, Southern California Edison, and Union Electric. Phase 1 and 2 involved 15 customer interruption cost survey activities representing a total of 30 electricity distribution service territories. ICE Calculator Version 2.0 and 2.2 Comparison This memorandum describes–at a high-level–the improvements in interruption cost estimates for the version 2.2 of the ICE Calculator (released February 2026) compared to version 2.0 (released in April 2025). Version 2.2 of the ICE Calculator corresponds to Phase 2 of the initiative, while version 2.0 corresponds to Phase 1. The improvements in version 2.2 result from both a significant increase in the number of customer responses that have been collected and the identification of seven additional factors that help estimate customer interruption costs.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Deep Spectroscopy with DESI for Photometric Redshift Training and Calibration

Deep spectroscopic samples can improve photometric redshift (photo-z) estimates and reduce uncertainties on redshift distributions. Such improvements can increase the cosmological constraining power of large imaging-based experiments such as the Vera C. Rubin Observatory’s Legacy Survey of Space and Time (LSST) and mitigate what may be a limiting systematic effect. We present results from the “DESI-Deep pilot” program, which was designed to assess the capability of the Dark Energy Spectroscopic Instrument (DESI) on the 4m Mayall telescope to measure redshifts of galaxies as faint as expected lensing samples for early LSST data (m i ≤ 24.5). We find that DESI is remarkably efficient at this task, with redshift success rates comparable to the results of observations from 10 m class telescopes with only ∼2 × longer integration time (rather than ∼8 × longer as would be expected from aperture-area scaling), while simultaneously achieving ∼30 times larger multiplexing. We also find that the signal-to-noise ratio of the spectra scales as expected for background-limited observations even for the longest exposure times (∼7 hr) and faintest targets in the program. These results demonstrate that DESI could provide the definitive redshift sample for the early years of LSST with a modest investment of observing time. Based upon the results of this program, we provide updated predictions for the time required to collect benchmark samples for photo-z training and calibration using a variety of spectroscopic facilities. Finally, we describe a potential “DESI-Deep” survey designed to train and calibrate photo-z’s for imaging experiments, and provide forecasts of its impact on cosmological inference.

Dey, Biprateep [University of Toronto; University ↗

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↗

Leaf sample detail, Feb2016-May2016, PA-SLZ, PA-PNM, PA-BCI: Panama

This data package contains details of the date, location, species and photographs of leaf samples collected on a monthly basis from Feb to May 2016 from Parque Natural Metropolitano (PA-PNM), Barro Colorado Island (PA-BCI) and Bosque Protector San Lorenzo (PA-SLZ) in Panama. Data from BCI only available for March. This data was collected as part of the 2016 El Niño-Southern Oscillation (ENSO) campaign. Included in this data package are an Excel file with data (2016ENSO_Panama_LeafSamples) and two Excel files with associated metadata. Sample photos are included in five zip files, organized by month and site. Also included is a Word document (Metadata_description_2016_ENSO_Panama) with details such as data collection methods, equipment used, and site information. Data to be used as a reference to linking related datasets including leaf water potential, leaf spectra, LMA, gas exchange and leaf chemistry (CHN, NSC). Most leaves were sampled from sunlit canopy trees. VERSION 2 update. The identification of a species from the PNM site has been corrected as follows: the identification of the tree initially identified as Pseudosamanea guachapele (ALBIED) has been revised to Albizia adinocephala (ALBIAD). The updated data package includes revised data, metadata and protocol documents updated to reflect this change.

54 ENVIRONMENTAL SCIENCES↗

Leaf C and N content, Feb2016-May2016, PA-SLZ, PA-PNM, PA-BCI: Panama

This dataset contains carbon, hydrogen and nitrogen content data of 33 tree species collected from February to May 2016 at the NGEE-Tropics Bosque Protector San Lorenzo (PA-SLZ) and Parque Natural Metropolitano (PA-PNM) sites in Panama. Data from Barro Colorado Island (PA-BCI) is only available for March 2016. This data was collected as part of the 2016 ENSO campaign. See related datasets for further sample details, leaf water potential, leaf spectra, gas exchange and leaf mass per area (LMA). Most leaves were sampled from sunlit canopy trees. VERSION 2 update. The identification of a species from the PNM site has been corrected as follows: the identification of the tree initially identified as Pseudosamanea guachapele (ALBIED) has been revised to Albizia adinocephala (ALBIAD). The updated data package includes revised data, metadata and protocol documents updated to reflect this change.

54 ENVIRONMENTAL SCIENCES↗

WHOLESCALE Catalog of Rock Samples at San Emidio Nevada collected in January 2021 Version 2.0

This submission includes an update to the WHOLESCALESamples2021January.xls file where the strikes and dips initially reported have been corrected to comply with the right hand rule. The updated excel file and a link to the original submission are included in this report. The original submission "WHOLESCALE Catalog of Rock Samples at San Emidio Nevada collected in January 2021" contains information on thirty-six rock samples collected from San Emidio, Nevada during January, 2021 for Subtask 2.3 of the WHOLESCALE project. The following resources include a .zip of rock sample photos taken in the field, a .zip of rock sample photos taken in the laboratory at UW-Madison, and an excel catalog of rock samples with information on sample name, rock type, coordinates of sample location, structural measurements, field notes, observations for plug preparation (e.g., weathering, ability to be cut and cored), and rock descriptions. It should be noted that not every sample was photographed in the field. Names and descriptions of rock formation units are taken from Rhodes et al. (2011). The README.txt file is a description of this submission.

15 GEOTHERMAL ENERGY↗

Scalable Techniques for Stochastic Power Flow Problems (Final Report)

The proposed research focuses on developing scalable algorithms for two-stage security-constrained OPF problems with AC power flow constraints, a class of problems complicated by (i) scale arising from a scenario representation; and (ii) the presence of nonlinearity, nonconvexity, and possibly second-stage discreteness or complementarity. Unfortunately, most existing solvers cannot contend with both challenges simultaneously; accordingly, the proposed research focuses on developing solution techniques that can both scale with the number of scenarios and contend with nonconvexity and second-stage complementarity. We consider three avenues for addressing such problems: (i) Variable sample-size SQP (VS-SQP) methods that combine sparse Quasi-Newton updates with a scalable variance-reduced stochastic gradient scheme for stochastic QP subproblems, allowing for contending with second-stage complementarity via regularization; (ii) Variable sample-size stochastic Interior-point (VS-sIP) schemes that propose a sampling-based regularized (to allow for contending with complementarity) interior-point schemes in which a Schur-complement technique is employed for decomposing the Newton direction computation step; (iii) Variable sample-size tractable ADMM (VS-tADMM) schemes combine variable sample-sizes with carefully designed techniques for resolving each of the nonconvex updates (by leveraging the QCQP structures). We intend to compare the three schemes using performance profiles in terms of solution quality, scalability, etc. and then select one scheme which will then be developed and further refined in Python for purposes of the GO competition.

42 ENGINEERING↗