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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 1,027 records · Page 57
All sourcesNASA NTRSDOE OSTI
NASA NTRS2023

Uncovering Unique Molecular Adaptations in the Arabidopsis Thaliana Cvi-0 Ecotype

This research proposal aims to investigate the unique molecular adaptations exhibited by Arabidopsis Thaliana, specifically focusing on the Cape Verde Islands (Cvi-0) ecotype, in response to microgravity conditions. The study examines data from NASA’s Open Science Data Repository and applies a multifaceted RNAseq analysis pipeline using tools in the UseGalaxy.org open platform. Through transcriptomic analysis, differential gene expression patterns were identified in Cvi-0, revealing an absence of heat shock protein (HSP) upregulation and an upregulation of Rubisco Activase (RCA) and chloroplast-related pathways. To test the hypothesis that these adaptations may contribute to Cvi-0’s increased adaptability in microgravity, a three-fold experimental design is proposed. Four experimental groups will be cultivated under simulated microgravity and ground control conditions, including Cvi-0, Col-0, and genetically modified Col-0 with silenced HSP genes, and genetically modified Col-0 with upregulated RCA gene. Growth parameters will be measured to assess plant resilience, and RNA sequencing will provide transcriptomic data for pathway analysis. Anticipated outcomes include improved markers of plant health (mass, growth, etc.) of Cvi-0 in simulated microgravity and enhanced resilience in genetically altered Col-0 variants, providing insights into potential mechanisms of adaptation. This research would bear significance for space agriculture, nutrition for extended space missions, and sustainable terrestrial crop enhancement. Moreover, the insights gained could reshape crop engineering on Earth, enhancing robustness to climate induced stresses and bolstering global food security. The proposal’s trajectory blends scientific curiosity with practical applicability, forging a path towards sustainable food production and improving human exploration beyond our planet.

GL4HS↗
NASA NTRSDate not supplied

Ground Winds Experienced by the Space Launch System Rocket on the Pad before the Artemis I Launch

Over the course of the development of the Space Launch System (SLS) human-rated heavy-lift launch vehicle, the magnitude and nature of the ground winds experienced by the rocket and its Mobile Launcher (ML) on Pad 39B at the NASA Kennedy Space Center (KSC) became a more critical environment that required characterization as well as a more accurate prediction of the vehicle and ML response in the form of detailed wind loads. The numerous reasons for the sensitivity of the launch system to these ground winds and the growing importance of high fidelity rollout and launch pad wind loading estimates are discussed in this article. A description of the wind measurement instrumentation at and around the Launch Complex is provided. A methodology is developed to estimate from these raw anemometer measurements the winds experienced by the rocket and mobile launcher on the launch pad, either in real time or during post-processing. An analysis is then performed and documented on the 121 days worth of wind measurements recorded while the SLS vehicle was secured on the pad during various launch attempts and wet dress rehearsals. This included the occurrence of a tropical storm that evolved into a named hurricane by the time it arrived on Cape Canaveral and hit the vehicle while sitting on the launch pad. Plans for further developments to improve on this predictive capability in preparation for Artemis II are also presented.

Jeremy T Pinier↗
NASA NTRSDate not supplied

Illustrating the Spatiotemporal Complexity of No2 Columns Using A Multi-Perspective Observing System: Moving Toward Geostationary Product Validation and Applications

As a precursor to secondary pollutants like ozone and PM2.5, nitrogen dioxide (NO2) is crucial to understand when addressing air quality issues. However, due to NO2’s short lifetime during the daytime and complexity of emission sources in urbanized regions, interpreting datasets from ground or satellite perspectives alone are challenged by variance in spatial and temporal resolutions. High resolution airborne mapping (< 1 km) of NO2 column densities across morning, midday, and afternoon add a unique perspective toward interpreting satellite data with respect to ground-measurements. This presentation focuses on the interpretation of spatiotemporal complexity of NO2 columns from the Synergistic TEMPO Air Quality Science Study (STAQS). The mission’s goal is to integrate geostationary observations from Tropospheric Emissions: Monitoring of Pollution (TEMPO) with traditional and enhanced air quality monitoring to improve the understanding of air quality science for increased societal benefit. We will demonstrate the interweaved perspective of NO2 columns from ground-based Pandora spectrometers and satellite-based observations (e.g., TROPOMI) as compared to high spatial resolution airborne observations from the GEOstationary Coastal and Air Pollution Events (GEO-CAPE) Airborne Simulator (GCAS). This includes the evaluation of each dataset through comparison to each other to identify potential biases in data products and the impact of heterogeneity on these comparisons. Airborne data will also be used as a proxy for geostationary observations with morning, midday, and afternoon raster maps collected over four cities (Los Angeles, Chicago, Toronto, and New York City). Finally, recent research outcomes will be presented to demonstrate how airborne and geostationary observations can be used to evaluate emission inventories and air quality models.

Laura Judd↗
NASA NTRSDate not supplied

Ground Winds Experienced by the Space Launch System Rocket on the Pad before the Artemis I Launch

Over the course of the development of the Space Launch System (SLS) human-rated heavy-lift launch vehicle, the magnitude and nature of the ground winds experienced by the rocket and its Mobile Launcher (ML) on Pad 39B at the NASA Kennedy Space Center (KSC) became a more critical environment that required characterization as well as a more accurate prediction of the vehicle and ML response in the form of detailed wind loads. The numerous reasons for the sensitivity of the launch system to these ground winds and the growing importance of high fidelity rollout and launch pad wind loading estimates are discussed in this article. A description of the wind measurement instrumentation at and around the Launch Complex is provided. A methodology is developed to estimate from these raw anemometer measurements the winds experienced by the rocket and mobile launcher on the launch pad, either in real time or during post-processing. An analysis is then performed and documented on the 121 days worth of wind measurements recorded while the SLS vehicle was secured on the pad during various launch attempts and wet dress rehearsals. This included the occurrence of a tropical storm that evolved into a named hurricane by the time it arrived on Cape Canaveral and hit the vehicle while sitting on the launch pad. Plans for further developments to improve on this predictive capability in preparation for Artemis II are also presented.

Jeremy T. Pinier↗
NASA NTRSDate not supplied

Improving the Time Resolution of Hyper-Spectral Infrared Sounding Observations With Trajectory Enhancement

Low Earth orbit (LEO) hyper-spectral infrared (IR) sounders have significant potential for characterizing the complex evolution of thermodynamic environments favorable for convective initiation and ongoing convection. The snapshots at fixed local times are unable to provide the temporal resolution needed to resolve the rapidly evolving convective environment. A novel methodology using trajectory modeling coupled with satellite soundings was developed to create proximity soundings near NCEI Storm Events to investigate differences in severe weather environments (Kalmus et al., 2019, https://doi.org/10.1175/MWR-D-18-0055.1). This methodology was recently extended to entire satellite swaths forward in time up to six hours into the future and was evaluated during NOAA’s Hazardous Weather Testbed (HWT) in a quasi-operational setting (Kahn et al., 2023, https://doi.org/10.1175/WAF-D-22-0204.1). This methodology is based on parcel forward-trajectory calculations from the satellite observing time to recreate future soundings of temperature and moisture at regularly gridded intervals in space and time. Using coincident Multi-Radar Multi-Sensor (MRMS) rainfall estimates, we show that convective available potential energy (CAPE) is increased and convective inhibition (CIN) is decreased at times and locations where convection initiated. This methodology was evaluated with ERA5 data sampled to mimic the satellite observing swaths (Richardson et al., 2023, https://doi.org/10.5194/egusphere-2023-97). Approximately 60–90% of the temporal and spatial variability in temperature and humidity is explained by parcel advection using trajectory modeling. This method will be applied to the multi-decadal LEO satellite record and could be used to examine capabilities of future satellite missions such as the GeoXO mission.

Emily Berndt↗
NASA NTRSDate not supplied

Analyzing Launch Operations using the Spaceport Throughput Analysis Resource (STAR)

NASA’s Kennedy Space Center (KSC) and Cape CanaveralSpace Force Station (CCSFS) are the world’s preeminent multi-user spaceport, providing facilities and launch capabilities to the agency, NASA’s commercial partners, and other government agencies. KSC works to ensure an environment in which NASA’s programs and other users can safely and effectively carry out their operations. Approximately 100 launches are expected to take place in 2024. KSC needs to meet the needs of customers who request launches based on their own schedules, but who may not be aware of KSC-wide resource limitations and external constraints on launch operations. KSC-wide resources include telecommunications, range tracking, commodities such as Helium and Nitrogen, and special equipment needed to support launches. External constraints include seasonal launch operations. Since space vehicles are complex and launch operations are uncertain, unexpected events can also cause delays in operations. The Spaceport Throughput AnalysisResource (STAR) assesses whether a specific set of pro-posed launches and associated activities can be performed given the resources KSC currently has available, and external constraints imposed on KSC operations. STAR integrates short-horizon scheduling and simulation of launches using a monte-carlo approach driven by configurable probabilities of different classes of event outcomes, including de-lays and worst-case use of resources. The resulting analyses inform stakeholders of key constraints preventing customers from being able to perform their missions as desired, and give insight into how to improve spaceport throughput. The rest of the paper is organized as follows. In 2 we de-scribe the problem STAR is intended to solve. In Section3 we formally describe the scheduling problem ingredients. In Section 4 we describe how manifests are simulated. InSection 5 we describe the constraints problem that is solved when rescheduling. In Section 6 we describe what information is recorded during manifest simulation in order to evaluate delays. In Section 7 we describe the specific problem solved for KSC. In Section 8 we describe the challenges of knowledge engineering for STAR.

Planning Scheduling Analysis↗
NASA NTRS2024

Launch Complex 34 SWMU CC054 Hot Spot Area 6 Expansion - Phase Three Implementation Work Plan

This Hot Spot (HS) Area 6 Air Sparge Expansion – Phase Three Implementation Work Plan (IWP) was prepared by Tetra Tech, Inc., for the National Aeronautics and Space Administration (NASA) under the Indefinite Delivery Indefinite Quantity Contract 80KSC019D0011-80KSC019F0067, for the implementation of an Air Sparging (AS) Interim Measure (IM) at Launch Complex 34 (LC34), located at Cape Canaveral Space Force Station (CCSFS), Florida. LC34 has been designated as Solid Waste Management Unit (SWMU) CC054 under the Kennedy Space Center (KSC) Resource Conservation and Recovery Act (RCRA) operating permit. Expansion of the HS 6 IM will include installation of an additional 192 AS wells to depths of approximately 40 feet below land surface (bls) to remediate contaminated groundwater within two areas located west and northeast of the existing HS 6 AS treatment area. These areas were delineated via direct push technology investigations in September and October 2023. The expansion will target “hot spot” concentrations of cis-1,2-dichloroethene (cDCE) and vinyl chloride (VC), which are the contaminants of concern in these areas with concentrations greater than 10-times Florida Department of Environmental Protection Natural Attenuation Default Concentrations. The highest cDCE and VC concentrations detected in the proposed phase three expansion area were 58,000 micrograms per liter (μg/L) (32 to 36 feet bls) and 12,000 μg/L (23 to 27 feet bls), respectively. The objective for this expansion is to remediate contaminated groundwater within the treatment zone to support transition to long-term monitoring. This phase three expansion will add an additional 9.4 acres of treatment area to the HS 6 IM, which currently covers approximately 26.9 acres.

Launch Complex 34↗
NASA NTRSDate not supplied

Effects of Natural Variability on the Use of Standard Deviation to Represent Measurement Uncertainties in Atmospheric Composition Studies

Measurement uncertainty is defined as a “non-negative parameter characterizing the dispersion of the quantity values being attributed to a measurand”. It is most common that the uncertainties of GAW hourly measurements, such as greenhouse gas measurements, are reported as standard deviations derived from individual sampling at a higher time resolution (e.g., 1 min). In contrast, the uncertainties of GAW measurements of reactive gases and aerosol properties are reported in percentiles covering the same probability. A quick look at hourly CO 2 data from Cape Grim, Australia yielded some interesting findings: the hourly standard deviation is, on average, more than a factor of 10 higher for the measurements under non-background conditions (over 50% observations), while the difference in average CO 2 amount fraction was less than 2 ppm. The dramatic contrast cannot be explained by the difference in measurement uncertainties, but can largely be attributed the natural variability, or episodic ambient CO 2 variation reflecting changes in meteorological conditions or emissions. These initial findings motivated a more in-depth analysis of the ground-based measurements of trace gases and aerosol properties. This analysis will be using continuous 1 min ground site observations to construct time averaged statistical indicators to evaluate whether the standard deviation is adequate to represent the dispersion, especially under marked influence by natural variability. The suitability of this representation can be determined by examining the difference between the standard deviation and percentiles encompassing the same probability. We will examine time intervals of 1 hour, 3 hours, and 24 hours, with the latter time intervals chosen to match those commonly used in model assessments. We will also investigate how natural variability can alter the probability distribution of the measurands and how adequate the quadrature propagation of uncertainties is under these conditions. The results will include several trace gases (e.g., CO 2 , CO, O 3 , and NO 2 ) with a range of measurement techniques (e.g., PANDORA, in situ), atmospheric lifetimes, and aerosol properties (e.g. scattering coefficient). The findings from this analysis should provide some useful feedback on the best practices for uncertainty reporting.

Measurement Uncertainty↗
NASA NTRSDate not supplied

OSIRIS-REx Entry, Descent, and Landing Performance

The Origins, Spectral Interpretation, Resource Identification, Security, Regolith Explorer (OSIRIS-REx) was the third mission in NASA’s New Frontiers program. OSIRIS-REx launched out of Cape Canaveral, Florida on September 8, 2016, with a science goal to return a minimum of 60 g of a primitive asteroid’s surface, specifically the near-Earth asteroid Bennu. The sample return capsule (SRC) successfully touched down at UTTR on the morning of September 24, 2023. The entry, descent, and landing (EDL) sequence had an off-nominal deployment of the parachute, but the spacecraft safely landed within the pre-flight prediction of the landing ellipse and the payload was safely recovered. This paper discusses the pre-flight EDL modeling and simulation and focus on predictions for EDL operations. Flight observations such as timeline are compared to the predicted timeline produced by the EDL simulation.

EDL↗
NASA NTRSDate not supplied

OSIRIS-REx Entry, Descent, and Landing Performance

The Origins, Spectral Interpretation, Resource Identification, Security, Regolith Explorer (OSIRIS-REx) was the third mission in NASA’s New Frontiers program. OSIRIS-REx launched out of Cape Canaveral, Florida on September 8, 2016, with a science goal to return a minimum of 60 g of a primitive asteroid’s surface, specifically the near-Earth asteroid Bennu. The sample return capsule (SRC) successfully touched down at UTTR on the morning of September 24, 2023. The entry, descent, and landing (EDL) sequence had an off-nominal deployment of the parachute, but the spacecraft safely landed within the pre-flight prediction of the landing ellipse and the payload was safely recovered. This paper discusses the pre-flight EDL modeling and simulation and focus on predictions for EDL operations. Flight observations such as timeline are compared to the predicted timeline produced by the EDL simulation.

EDL↗
DOE OSTI2021

Powering the Blue Economy: Economics of Marine Renewable Energy Systems

This presentation, part of the Policy and Innovation Drivers Shaping the Market for Marine Renewable Energy panel of the 2020 Marine Renewable Energy Conference: On and Off the Grid, moderated by Leslie-Ann McGee, Assistant Director of the Consortium for Marine Robotics at the Woods Hole Oceanographic Institution and Program Manager, Cape Cod Blue Economy Foundation, delves into government policies incentivizing technological advances, collaborative models for technology development, market trends, and permitting hurdles. Panelists include: Jennifer Garson, Senior Advisor, U.S. Dept. of Energy Lead for the Powering the Blue Economy Initiative; Henry Jeffrey, Chairman of the Technology Collaboration Programme for Ocean Energy Systems, University of Edinburgh; Alf Carroll, SBIR Blackbelt and Ocean Energy SME, Raytheon Technologies; Walter Schurtenberger, Founder, Hydrokinetic Energy Corp.; and Dale "Scott" Jenne, Engineer, National Renewable Energy Laboratory.

50 EE - Wind and Water Power Program - Water (EE-4↗
DOE OSTI2020

Preliminary Evaluation of Removing SNF from Nuclear Power Plant Sites - Pilgrim Site Visit - 20048

The U.S. Department of Energy Office of Integrated Waste Management (DOE-IWM)a conducted an evaluation of removing spent nuclear fuel (SNF) from the Pilgrim site on November 4-8, 2019. The Pilgrim site is located on the western shore of Cape Cod Bay in the Town of Plymouth, Massachusetts, about 61 km southeast of Boston and 71 km east of Providence, Rhode Island. Participants in the site visit included the U.S. Department of Energy, Oak Ridge National Laboratory, Pacific Northwest National Laboratory, the state of Massachusetts, the Federal Railroad Administration, the U.S. Coast Guard, the U.S. Army Corps of Engineers, the Mashpee Wampanoag Tribe, the Consolidated Group of Tribes and Organizations, the Council of State Governments-Eastern Regional Conference, the Pilgrim Nuclear Decommissioning Citizens Advisory Panel, and the Massachusetts Coastal Railroad. The Pilgrim site was found to have two transportation mode options for the removal of SNF, offsite rail access and onsite barge access. Two offsite heavy haul truck to rail transload locations were evaluated, one in Middleborough, Massachusetts, about 35-47 km from the Pilgrim site, and a second location in Middleborough about 36-43 km from the Pilgrim site. A passenger railroad terminates in Plymouth, Massachusetts, about 11 km from the Pilgrim site; however, this location is not suitable for freight rail involving large SNF transportation casks. There is also an onsite barge facility located on the Pilgrim site that was used during construction and would require refurbishment to be used. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2025

Shallow Geothermal Resources for Cooling Applications at the University of Hawai'i

Drilling activities account for 30% to 57% of the cost to develop and install a geothermal plant. Therefore, an accurate representation of the cost to drill a well is paramount in techno-economic analysis to determine the feasibility of a geothermal power project. In 2022, the National Renewable Energy Laboratory (NREL) endeavored to revise the U.S. Department of Energy (DOE) GeoVision baseline drilling cost curves due to extensive improvement in drilling rates at the Utah Frontier Observatory Research in Geothermal Energy (FORGE) demonstration site. That effort did not culminate in the recommendation of new curves because the actual project costs did not match the reported performance improvements and were at or above the GeoVision baseline. The need for another iteration of this analysis has arisen from industry record drilling performance reported by recent commercial field-scale and demonstration projects, including Fervo Energy's Cape Station, the Utah FORGE 16B(78)-32 demonstration and the Geysers Power Company's GDC-36 demonstration. Therefore, in this work, we have estimated the resulting industry average rate of penetration (ROP) and bit life and applied these parameters as inputs to the Well Cost Simplified model used in the GeoVision analysis. The resulting revised cost curves show a significant decline from the GeoVision baseline. For vertical wells, the magnitude of cost decline ranges between 12% and 24% while for deviated wells, cost reductions between 18% and 26% are estimated. The revised cost curves are in good agreement with actual cost data and therefore, quantify the economic impact of the utilization of (and advances in) polycrystalline diamond compact (PDC) bit technology and the application of physics-based methodologies that optimize mechanical specific energy.

building cooling↗
DOE OSTI2025

2025 Geothermal Drilling Cost Curves Update: Preprint

Drilling activities account for 30% to 57% of the cost to develop and install a geothermal plant. Therefore, an accurate representation of the cost to drill a well is paramount in techno-economic analysis to determine the feasibility of a geothermal power project. In 2022, the National Renewable Energy Laboratory (NREL) endeavored to revise the U.S. Department of Energy (DOE) GeoVision baseline drilling cost curves due to extensive improvement in drilling rates at the Utah Frontier Observatory Research in Geothermal Energy (FORGE) demonstration site. That effort did not culminate in the recommendation of new curves because the actual project costs did not match the reported performance improvements and were at or above the GeoVision baseline. The need for another iteration of this analysis has arisen from industry record drilling performance reported by recent commercial field-scale and demonstration projects, including Fervo Energy’s Cape Station, the Utah FORGE 16B(78)-32 demonstration and the Geysers Power Company’s GDC-36 demonstration. Therefore, in this work, we have estimated the resulting industry average rate of penetration (ROP) and bit life and applied these parameters as inputs to the Well Cost Simplified model used in the GeoVision analysis. The resulting revised cost curves show a significant decline from the GeoVision baseline. For vertical wells, the magnitude of cost decline ranges between 12% and 24% while for deviated wells, cost reductions between 18% and 26% are estimated. The revised cost curves are in good agreement with actual cost data and therefore, quantify the economic impact of the utilization of (and advances in) polycrystalline diamond compact (PDC) bit technology and the application of physics-based methodologies that optimize mechanical specific energy.

15 GEOTHERMAL ENERGY↗
DOE OSTI2026

Influence of the broadly neutralizing antibody VRC01 on HIV breakthrough virus populations in antibody-mediated prevention trials

In the antibody mediated prevention (AMP) trials, the broadly neutralizing antibody (bNAb) VRC01 demonstrated protective efficacy against susceptible HIV strains. To understand how VRC01 shaped breakthrough infections, deep sequencing was performed on 172 participants (>100,000 gag-Δpol and rev-env-Δnef sequences), at diagnosis and over time, in the placebo and treatment arms of the African (HVTN703/HPTN081; NCT02568215) and Americas/Europe (HVTN704/HPTN085; NCT02716675) cohorts. A high frequency of multilineage infections was detected (38%), including co-infection with both VRC01 sensitive and resistant viruses. This high frequency is largely accounted for by low-abundance lineages. Although VRC01 does not significantly affect the genetic transmission bottleneck compared to placebo, higher VRC01 doses trend towards greater VRC01 neutralization differences among co-infecting lineages. Two-thirds of multilineage infections showed evidence of recombination at the diagnostic timepoint. In the treatment group there is evidence of recombinant viruses preferentially inheriting resistance-associated mutations. This study provides critical insights into viral genetic and antigenic diversity that needs to be targeted to achieve protection, and highlights the role of recombination in facilitating escape.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Expanding the Landscape of Dual Action Antifolate Antibacterials through 2,4-Diamino-1,6-dihydro-1,3,5-triazines

Antibiotics that operate via multiple mechanisms of action are a promising strategy to combat growing resistance. Previous studies have shown that dual action antifolates formed from a pyrroloquinazolinediamine core can inhibit the growth of bacterial pathogens without developing resistance. Here, in this work, we expand the scope of dual action antifolates by repurposing the 2,4-diamino-1,6-dihydro-1,3,5-triazine (DADHT) cycloguanil scaffold to a variety of derivatives designed to inhibit dihydrofolate reductase (DHFR) and disrupt bacterial membranes. Dual mechanism DADHTs have activity against a variety of target pathogens, including Mycobacterium tuberculosis, Mycobacterium abscessus, and Pseudomonas aeruginosa, among other ESKAPEE organisms. Through X-ray crystallography, we confirmed engagement of the Escherichia coli DHFR target and found that some DADHTs stabilize a previously unobserved conformation of the enzyme but, broadly, bind in the occluded conformation. Using in vitro inhibition of purified E. coli and Staphylococcus aureus DHFR and disruption of E. coli membranes, we determined that alkyl substitution of dihydrotriazine at the 6-position best optimizes the DADHT's two mechanisms of action. By employing both mechanisms, the DADHT spectrum of activity was extended beyond the scope of traditional antifolates. Finally, we are optimistic that the dual mechanism approach, particularly through the action of antifolates, offers a unique means of combating hard-to-treat bacterial infections.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2025

The architecture of resilience: a genome assembly of Myrothamnus flabellifolia sheds light on desiccation tolerance and sex determination

Myrothamnus flabellifolia is a dioecious resurrection plant endemic to southern Africa that has become an important model for understanding desiccation tolerance. Despite its ecological and medicinal significance, genomic and transcriptomic resources for the species are limited. We generated a chromosome-level, haplotype-resolved reference genome assembly and annotation for M. flabellifolia and conducted transcriptomic profiling across a natural dehydration–rehydration time course in the field. Genome architecture and sex determination were characterized, and co-expression network and cis-regulatory element (CRE) enrichment analyses were used to investigate dynamic responses to desiccation. The 1.28-Gb genome exhibits unusually consistent chromatin architecture with unique chromosome organization across highly divergent haplotypes. We identified an XY sexual system with a small sex-determining region on Chromosome 8. Transcriptomic responses varied with dehydration severity, pointing to early suppression of growth, progressive activation of protective mechanisms, and subsequent return to homeostasis upon rehydration. Late embryogenesis abundant and early light-induced protein transcripts were dynamically regulated and showed enrichment of abscisic acid and stress-responsive CREs pointing toward conserved responses. Together, this study provides foundational resources for understanding the genomic architecture and reproductive biology of M. flabellifolia and offers new insights into the mechanisms of desiccation tolerance.

chromosome structure↗
DOE OSTI2025

Bayesian estimation of HIV acquisition dates for prevention trials

Accurate timing estimates of when participants acquire HIV in HIV prevention trials are necessary for determining antibody levels at acquisition. The Antibody-Mediated Prevention (AMP) Studies showed that a passively administered broadly neutralizing antibody can prevent the acquisition of HIV from a neutralization-sensitive virus. We developed a pipeline for estimating the date of detectable HIV acquisition (DDA) in AMP Study participants using diagnostic and viral sequence data. Using a Bayesian strategy that combines three streams of data (REN [rev/vpu/env/Δnef] sequence, GP [gag/Δpol] sequence, and diagnostic) where their 95% credible intervals overlap based on pre-specified criteria and decision rules. We evaluated the performance of our AMP pipeline using PacBio viral sequence data from 41 participants across two prospective acute HIV acquisition cohort studies, FRESH and RV217, with twice-weekly sampling. These cohort studies enrolled young women in South Africa and men and women in Kenya and Thailand, respectively, with a high likelihood of HIV acquisition. In evaluating performance, “true DDA” was the center of bounds between last-negative and first-positive RNA diagnostic tests (median time 4 days, range 2–7 days); bias was the mean difference between estimated and true DDA. Using diagnostic data alone yielded timing estimates with a bias of 2.4 days and root mean square error (RMSE) of 7.9 days. These results were improved using sequence + diagnostic data (bias 1.5 days, RMSE 6.9 days), as well as by restricting sequence-based estimation to samples from ≤5 weeks post-DDA (bias 0.2 days, RMSE 7.8 days).

59 BASIC BIOLOGICAL SCIENCES↗