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DOE OSTI2025

The GFDL‐CM4X Climate Model Hierarchy, Part II: Case Studies

This paper is Part II of a two‐part paper that documents the Climate Model version 4X (CM4X) hierarchy of coupled climate models developed at the Geophysical Fluid Dynamics Laboratory. Part I of this paper is presented in Griffies et al. (2025a, https://doi.org/10.1029/2024MS004861 ). Here we present a suite of case studies that examine ocean and sea ice features that are targeted for further research, which include sea level, eastern boundary upwelling, Arctic and Southern Ocean sea ice, Southern Ocean circulation, and North Atlantic circulation. The case studies are based on experiments that follow the protocol of version 6 from the Coupled Model Intercomparison Project. The analysis reveals a systematic improvement in the simulation fidelity of CM4X relative to its CM4.0 predecessor, as well as an improvement when refining the ocean/sea ice horizontal grid spacing from the 0.25° of CM4X‐p25 to the 0.125° of CM4X‐p125. Even so, there remain many outstanding biases, thus pointing to the need for further grid refinements, enhancements to numerical methods, and/or advances in parameterizations, each of which target long‐standing model biases and limitations.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

The impact of forest-controlled snow variability on late-season streamflow varies by climatic region and forest structure

Previous studies have documented how forests influence snow at fine spatial scales, but none have documented the influence that existing forest-snow variability has on streamflow. Here to test how much forest-controlled snow variability influences streamflow, a tiling parameterization based on classifications from high-resolution (1–3 m) vegetation maps was incorporated into the Distributed Hydrology and Soil Vegetation Model (DHSVM). Within each grid cell (90–150 m), the tiling parameterization simulated forest-snow variability with four independently evolving snowpacks. Each tile had unique radiation conditions to represent conditions underneath the canopy, in exposed areas, and along north- and south-facing forest edges. This tiled parameterization was used to test where and when detailed forest-snow modelling should be considered further and where and when the impacts are too small to be worth the effort. To test this, tiled model simulations of streamflow were compared to non-tiled model simulations in the Sierra Nevada, CA, the Jemez Mountains, NM, and the Eastern Cascades, WA. In Tuolumne, CA, the tiled model simulated little difference in grid cell average SWE, and late-season streamflow decreased by only 3%–4% compared to the non-tiled model. In Jemez, NM, the tiled model decreased late-season streamflow by 18% due to increased sublimation. In Chiwawa, WA, the tiled model increased late-season streamflow by 15% due to high shortwave radiation attenuation and less longwave radiation enhancement from the forest. Furthermore, within the Chiwawa, a substantial silvicultural practice was synthetically implemented to increase the north-facing edge's fractional area. This silvicultural experiment, which used the same fractional forest area in all simulations increased late-season streamflow by 35% compared to tiled model simulations that did not represent forest edges. In conclusion, representing forest-SWE variability had an effect on late-season streamflow in some watersheds but not in others based on the fractional area of the forest edges, forest characteristics, and climate conditions.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2018

The Multi-Plume Eddy-Diffusivity/Mass-Flux (EDMF) Unified Parameterization: Stratocumulus and the Transition to Cumulus Boundary Layers

The primary objective of this project is to mitigate inaccuracies and biases in subtropical boundary layer clouds, particularly in oceanic upwelling regions. Our approach began with developing a novel unified boundary layer and convection parameterization, utilizing the multi-plume Eddy-Diffusivity/Mass-Flux (EDMF) framework. We evaluated this advanced stochastic multi-plume EDMF parameterization in an independent single-column model (SCM), benchmarking it against Large-Eddy Simulation (LES) reference data and satellite observations. This version of the EDMF is designed to seamlessly represent a continuum of convective processes, from dry and cloudy boundary layer convection to deep moist convection. We progressed by integrating the stochastic multi-plume EDMF scheme into the Simple Cloud-Resolving E3SM (Energy Exascale Earth System Model) Atmosphere model (SCREAM), coupling it with the SHOC (Simplified Higher-Order Closure) turbulence and convection scheme. This combined approach was then evaluated against LES reference data for both maritime and continental shallow convection within the E3SM SCM.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Optimization of Geometric Perturbations on a Rod Moving Through a High Explosive Target

After completing a study to ensure the simulation results were converged, several high resolution 3D Smoothed Particle Hydrodynamic (SPH) simulations of copper rods impacting a high explosive (LX14) target were performed. This was then formulated into an optimization problem: I wanted to find the optimum shape and location of a perturbation on the rod that would maximize its erosion after it left the target. The shape of the perturbation was modeled as a 2D Gaussian bump and parameterized by its location along the rod axis (z 0 ) and amplitude (A). The final mass of the coherent part of the rod as it leaves the target was used as a metric to represent the erosion of the rod, and the optimization was formulated to maximize this metric with respect to the aforementioned design variables. Due to the expensive nature of the high-fidelity 3D SPH simulations, a surrogate model needed to be chosen so that many function calls to the optimizer would be feasible. Thus, a strategic full factorial sampling plan was chosen to build a dataset, which consisted of 24 high-fidelity simulations. Two surrogate models, a third order polynomial regression model and a Gaussian Process Model, were analyzed using a 14%/86% test/train holdout technique. The root mean square and R2 score of the test set was used to determine the best model, and the third order polynomial regression model was chosen as the surrogate model. Finally, the Nelder-Mead Simplex and Basin-hopping optimization algorithms were implemented, and it was found that the two algorithms gave slightly different optimum values. Nelder-Mead gave an optimum point of [z* 0 ;A*] = [9:9;0:4] and Basin-Hopping gave an optimum value of x* = [z* 0 ;A*] = [9:2;0:1].

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗
DOE OSTI2022

More Realistic Intermediate Depth Dry Firn Densification in the Energy Exascale Earth System Model (E3SM)

Abstract Earth system models account for seasonal snow cover, but many do not accommodate the deeper snowpack on ice sheets (aka firn) that slowly transforms to ice under accumulating snowfall. To accommodate and resolve firn depths of up to 60 m in the Energy Exascale Earth System Model's land surface model (ELM), we add 11 layers to its snowpack and evaluate three dry snow compaction equations in multi‐century simulations. After comparing results from ELM simulations (forced with atmospheric reanalysis) with empirical data, we find that implementing into ELM a two‐stage firn densification model produces more accurate dry firn densities at intermediate depths of 20–60 m. Compared to modeling firn using the equations in the (12 layer) Community Land Model (version 5), switching to the two‐stage firn densification model (with 16 layers) significantly decreases root‐mean‐square errors in upper 60 m dry firn densities by an average of 41 kg m −3 (31%). Simulations with three different firn density parameterizations show that the two‐stage firn densification model should be used for applications that prioritize accurate upper 60 m firn air content (FAC) in regions where the mean annual surface temperature is greater than roughly −31°C. Because snow metamorphism, firn density, and FAC are major components in modeling ice sheet surface albedo, melt water retention, and climatic mass balance, these developments advance broader efforts to simulate the response of land ice to atmospheric forcing in Earth system models.

58 GEOSCIENCES↗
DOE OSTI2017

Advances in Cross-Cutting Ideas for Computational Climate Science

This report presents results from the DOE-sponsored workshop titled, ``Advancing X-Cutting Ideas for Computational Climate Science Workshop,'' known as AXICCS, held on September 12--13, 2016 in Rockville, MD. The workshop brought together experts in climate science, computational climate science, computer science, and mathematics to discuss interesting but unsolved science questions regarding climate modeling and simulation, promoted collaboration among the diverse scientists in attendance, and brainstormed about possible tools and capabilities that could be developed to help address them. Emerged from discussions at the workshop were several research opportunities that the group felt could advance climate science significantly. These include (1) process-resolving models to provide insight into important processes and features of interest and inform the development of advanced physical parameterizations, (2) a community effort to develop and provide integrated model credibility, (3) including, organizing, and managing increasingly connected model components that increase model fidelity yet complexity, and (4) treating Earth system models as one interconnected organism without numerical or data based boundaries that limit interactions. The group also identified several cross-cutting advances in mathematics, computer science, and computational science that would be needed to enable one or more of these big ideas. It is critical to address the need for organized, verified, and optimized software, which enables the models to grow and continue to provide solutions in which the community can have confidence. Effectively utilizing the newest computer hardware enables simulation efficiency and the ability to handle output from increasingly complex and detailed models. This will be accomplished through hierarchical multiscale algorithms in tandem with new strategies for data handling, analysis, and storage. These big ideas and cross-cutting technologies for enabling breakthrough climate simulation advancements also need the "glue" of outreach and learning across the scientific domains to be successful. The workshop identified several strategies to allow productive, continuous engagement across those who have a broad knowledge of the various angles of the problem. Specific ideas to foster education and tools to make material progress were discussed. Examples include follow-on cross-cutting meetings that enable unstructured discussions of the types this workshop fostered. A concerted effort to recruit undergraduate and graduate students from all relevant domains and provide them experience, training, and networking across their immediate expertise is needed. This will broaden and expand their exposure to the future needs and solutions, and provide a pipeline of scientists with a diversity of knowledge and know-how. Providing real-world experience with subject matter experts from multiple angles may also motivate the students to attack these problems and even come up with the missing solutions.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2017

Advances in Cross-Cutting Ideas for Computational Climate Science

This report presents results from the DOE-sponsored workshop titled, Advancing X-Cutting Ideas for Computational Climate Science Workshop,'' known as AXICCS, held on September 12--13, 2016 in Rockville, MD. The workshop brought together experts in climate science, computational climate science, computer science, and mathematics to discuss interesting but unsolved science questions regarding climate modeling and simulation, promoted collaboration among the diverse scientists in attendance, and brainstormed about possible tools and capabilities that could be developed to help address them. Emerged from discussions at the workshop were several research opportunities that the group felt could advance climate science significantly. These include (1) process-resolving models to provide insight into important processes and features of interest and inform the development of advanced physical parameterizations, (2) a community effort to develop and provide integrated model credibility, (3) including, organizing, and managing increasingly connected model components that increase model fidelity yet complexity, and (4) treating Earth system models as one interconnected organism without numerical or data based boundaries that limit interactions. The group also identified several cross-cutting advances in mathematics, computer science, and computational science that would be needed to enable one or more of these big ideas. It is critical to address the need for organized, verified, and optimized software, which enables the models to grow and continue to provide solutions in which the community can have confidence. Effectively utilizing the newest computer hardware enables simulation efficiency and the ability to handle output from increasingly complex and detailed models. This will be accomplished through hierarchical multiscale algorithms in tandem with new strategies for data handling, analysis, and storage. These big ideas and cross-cutting technologies for enabling breakthrough climate simulation advancements also need the "glue" of outreach and learning across the scientific domains to be successful. The workshop identified several strategies to allow productive, continuous engagement across those who have a broad knowledge of the various angles of the problem. Specific ideas to foster education and tools to make material progress were discussed. Examples include follow-on cross-cutting meetings that enable unstructured discussions of the types this workshop fostered. A concerted effort to recruit undergraduate and graduate students from all relevant domains and provide them experience, training, and networking across their immediate expertise is needed. This will broaden and expand their exposure to the future needs and solutions, and provide a pipeline of scientists with a diversity of knowledge and know-how. Providing real-world experience with subject matter experts from multiple angles may also motivate the students to attack these problems and even come up with the missing solutions.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Automated Integration of Continental-Scale Observations in Near-Real Time for Simulation and Analysis of Biosphere–Atmosphere Interactions

The National Ecological Observatory Network (NEON) is a continental-scale observatory with sites across the US collecting standardized ecological observations that will operate for multiple decades. To maximize the utility of NEON data, we envision edge computing systems that gather, calibrate, aggregate, and ingest measurements in an integrated fashion. Edge systems will employ machine learning methods to cross-calibrate, gap-fill and provision data in near-real time to the NEON Data Portal and to High Performance Computing (HPC) systems, running ensembles of Earth system models (ESMs) that assimilate the data. For the first time gridded EC data products and response functions promise to offset pervasive observational biases through evaluating, benchmarking, optimizing parameters, and training new machine learning parameterizations within ESMs all at the same model-grid scale. Leveraging open-source software for EC data analysis, we are already building software infrastructure for integration of near-real time data streams into the International Land Model Benchmarking (ILAMB) package for use by the wider research community. We will present a perspective on the design and integration of end-to-end infrastructure for data acquisition, edge computing, HPC simulation, analysis, and validation, where Artificial Intelligence (AI) approaches are used throughout the distributed workflow to improve accuracy and computational performance.

Durden, David J.↗
DOE OSTI2023

Genomes to ecosystem function: Targeting critical knowledge gaps in methanogenesis and translation to updated global biogeochemical models

Natural freshwater temperate wetland systems currently represent the largest natural source of atmospheric methane, but are relatively understudied using systems biology tools (e.g. meta-omics) compared to other high producing methane systems (e.g. peat, tropical, or reconstructed wetlands). Using field investigations at the NOAA operated sentinel site on Lake Erie, methane producing activities and responses to geochemical conditions will be determined along seasonal and spatial gradients (Objective 1). Here, a combination of high-throughput activity and gas measurements, combined with high-resolution systems biology and analytical methods, will provide in depth knowledge of the microbiological, chemical, and physical constraints on methane production in wetlands. Using laboratory microcosms, the formation of anoxic microsites and their capacity to facilitate methane production in wetland soils will be simulated (Objective 2). This objective will validate the findings from the field investigations, offering a more controlled environment for teasing out the role of different yet interrelated variables. Lastly, these field and laboratory data will be used for multi-scale, process-level evaluation of an ecosystem biogeochemical model that accommodates these newly identified processes and parameterizes representation of these processes along relevant environmental gradients (Objective 3).This research will identify multiple interacting geochemical, ecological, and metabolic constraints that are poorly understood, oversimplified, or missing in global biogeochemical methane models. This proposal targets the role of oxygen limitation on methane processes in soil domains, to improve reactive transport models of microbial carbon cycling across terrestrial-aquatic soils and generate data on nutrient cycling activities in Great Lake wetlands. This information could provide new insights into the microbial controllers of Lake Erie eutrophication.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Searching for Strongly-Interacting Dark Matter with the Heavy Photon Search Experiment

The Heavy Photon Search Experiment (HPS) is a fixed-target experiment at Jefferson Lab’s Hall B, designed to explore a hidden sector (HS) of particles containing dark matter and a new force mediator known as the “heavy photon” (A'). The A' is a massive spin-1 gauge boson associated with a new U (1)D symmetry in the HS that kinetically mixes with the Standard Model () photon with a weak coupling strength parameterized by ¿, with ¿2 ~ 10-2 -10-10. HPS utilizes a high-intensity electron beam on a thin tungsten target to produce heavy photons in the MeV-GeV mass range via “dark bremsstrahlung,” a process analogous to SM bremsstrahlung but suppressed by ¿2. The A' can decay resonantly to SM leptons, allowing HPS to conduct both mass resonance searches for prompt decays (large ¿) and displaced vertex searches for long-lived particles (small ¿). In addition to the minimal A' model, HPS probes more complex extensions such as the QCD-like strongly-interacting massive particles (SIMPs) HS containing “dark” pions (pD) and vector mesons (VD), with pD as dark matter candidates. These particles introduce new thermal dark matter freeze- out scenarios and visible signals through long-lived VD decays to SM leptons, which are accessible to HPS. This analysis conducted a displaced vertex search for VD ¿ e-e+ in the mass range 30 MeV to 124 MeV and ¿ between 10-6 < ¿ < 10-2 using data from the 2016 Engineering Run (10.753 nb-1) at 2.3 GeV. Unlike the minimal A' search, SIMP signal kinematics required new approaches to signal normalization and SM background rejection. The strongest signal evidence was a local p-value of 0.01317 for mVD = 119 MeV, corresponding to a global significance of 0.9s. Although no signal was found, this search excluded a region of the SIMP parameter space at 90 % confidence. This work demonstrates HPS’s competitive capability to probe SIMP sectors within cosmologically significant parameters and introduces a new method for HPS displaced vertex searches using track vertical impact parameter cuts

Spellman, Alic [Univ. of California, Santa Cruz, C↗
DOE OSTI2020

Microphysical Sensitivity of Superparameterized Precipitation Extremes in the Contiguous United States Due to Feedbacks on Large-Scale Circulation

Superparameterized (SP) global climate models have been shown to better simulate various features of precipitation relative to conventional models, including its diurnal cycle as well as its extremes. While various studies have focused on the effect of differing microphysics parameterizations on precipitation within limited-area cloud-resolving models, we examine here the effect on contiguous U.S. (CONUS) extremes in a global SP model. We vary the number of predicted moments for hydrometeor distributions, the character of the rimed ice species, and the representation of raindrop self-collection and breakup. Using a likelihood ratio test and accounting for the effects of multiple hypothesis testing, we find that there are some regional differences, particularly during spring and summer in the Southwest and the Midwest, in both the current climate and a warmer climate with uniformly increased sea surface temperatures. These differences are most statistically significant and widespread when the number of moments is changed. To determine whether these results are due to (fast) local effects of the different microphysics or the (slower) ensuing feedback on the large-scale atmospheric circulation, we run a series of short, 5-day simulations initialized from reanalysis data. We find that the differences largely disappear in these runs and therefore infer that the different parameterizations impact precipitation extremes indirectly via the large-scale circulation. Finally, we compare the present-day results with hourly rain gauge data and find that SP underestimates extremes relative to observations regardless of which microphysics scheme is used given a fixed model configuration and resolution.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2026

Data for Impact of Vertical and Seasonal Variation in Leaf Traits on Simulating Soybean Canopy Photosynthesis via 1D and 3D Modeling

Accurate modeling of photosynthesis is crucial for predicting crop productivity and quantifying the carbon cycle in agroecosystems. Leaf traits are essential inputs for modeling canopy photosynthesis. Yet, many existing models still use fixed plant functional type (PTF)-based values to parameterize leaf traits under a big-leaf or two-big-leaf assumption, neglecting their vertical profiles and seasonal changes. This simplification may introduce significant uncertainties in estimating gross primary productivity (GPP). In this study, we simulated soybean GPP and tested the effects of vertical and seasonal variation in three key leaf photosynthetic traits: the maximum carboxylation rate at 25 °C (Vcmax25), leaf chlorophyll content (LCC), and leaf mass per area (LMA) in the 1D-SCOPE and 3D-Helios models. Weekly field measurements were conducted during the growing season of 2024 to support the simulation. We designed ten leaf trait parameterization schemes by incorporating different combinations of vertical profiles and seasonal changes, while assuming homogeneous canopy architecture in both models. Our results revealed that Vcmax25 vertical and seasonal variation had the strongest influence on simulated GPP in both 1D and 3D models, while LCC and LMA effects were minimal. Particularly, the scheme with an empirically parameterized Vcmax25 profile achieved comparable performance to the scheme with the measured Vcmax25 profile. Both 1D-SCOPE and 3D-Helios accurately modeled GPP (SCOPE: R2 = 0.87, Bias = 0.55 µmol m⁻² s⁻¹; Helios: R2 = 0.9, Bias = 0.22 µmol m⁻² s⁻¹) under the most complex scheme, and their responses to vertical and seasonal variation in leaf traits were consistent, demonstrating the robustness of our findings. Based on our findings, we propose a scalable framework for parameterizing leaf traits to improve GPP simulations. This study contributes to improving the representation of leaf trait dynamics in canopy-level photosynthesis models, potentially enhancing our ability to predict crop productivity and understand agroecosystem carbon dynamics.

Photosynthesis↗
DOE OSTI2011

Free Energy Considerations for Nucleic Acids with Dangling Ends Near a Surface: a Coarse Grained Approach

A coarse grained model for the thermodynamics of nucleic acid hybridization near surfaces has been extended and parameterized to consider the contribution of unpaired dangling ends. Theparameters of the model differ when representing a double stranded DNA section or a single stranded DNA section. The thermodynamic effects of the possibility of different dangling end combinations were considered in the presence of different types of surfaces. Configurational sampling was achieved by the Metropolis Monte Carlo method. To gain a more complete picture of the free energy changes, an estimation of the conformational entropy was included. We find a strong thermodynamic effect for dangling mismatches due to sequence requirements when they are nearer the surface as opposed to being held away from the surface.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2012

EVOLUTION IN THE VOLUMETRIC TYPE Ia SUPERNOVA RATE FROM THE SUPERNOVA LEGACY SURVEY

We present a measurement of the volumetric Type Ia supernova (SN Ia) rate (SNR{sub Ia}) as a function of redshift for the first four years of data from the Canada-France-Hawaii Telescope Supernova Legacy Survey (SNLS). This analysis includes 286 spectroscopically confirmed and more than 400 additional photometrically identified SNe Ia within the redshift range 0.1 {<=} z {<=} 1.1. The volumetric SNR{sub Ia} evolution is consistent with a rise to z {approx} 1.0 that follows a power law of the form (1+z){sup {alpha}}, with {alpha} = 2.11 {+-} 0.28. This evolutionary trend in the SNLS rates is slightly shallower than that of the cosmic star formation history (SFH) over the same redshift range. We combine the SNLS rate measurements with those from other surveys that complement the SNLS redshift range, and fit various simple SN Ia delay-time distribution (DTD) models to the combined data. A simple power-law model for the DTD (i.e., {proportional_to}t{sup -{beta}}) yields values from {beta} = 0.98 {+-} 0.05 to {beta} = 1.15 {+-} 0.08 depending on the parameterization of the cosmic SFH. A two-component model, where SNR{sub Ia} is dependent on stellar mass (M{sub stellar}) and star formation rate (SFR) as SNR{sub Ia}(z) = A Multiplication-Sign M{sub stellar}(z) + B Multiplication-Sign SFR(z), yields the coefficients A = (1.9 {+-} 0.1) Multiplication-Sign 10{sup -14} SNe yr{sup -1} M{sup -1}{sub Sun} and B = (3.3 {+-} 0.2) Multiplication-Sign 10{sup -4} SNe yr{sup -1} (M{sub Sun} yr{sup -1}){sup -1}. More general two-component models also fit the data well, but single Gaussian or exponential DTDs provide significantly poorer matches. Finally, we split the SNLS sample into two populations by the light-curve width (stretch), and show that the general behavior in the rates of faster-declining SNe Ia (0.8 {<=} s < 1.0) is similar, within our measurement errors, to that of the slower objects (1.0 {<=} s < 1.3) out to z {approx} 0.8.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2022

Can we use antipredator behavior theory to predict wildlife responses to high-speed vehicles?

Animals seem to rely on antipredator behavior to avoid vehicle collisions. There is an extensive body of antipredator behavior theory that have been used to predict the distance/time animals should escape from predators. These models have also been used to guide empirical research on escape behavior from vehicles. However, little is known as to whether antipredator behavior models are appropriate to apply to an approaching high-speed vehicle scenario. We addressed this gap by (a) providing an overview of the main hypotheses and predictions of different antipredator behavior models via a literature review, (b) exploring whether these models can generate quantitative predictions on escape distance when parameterized with empirical data from the literature, and (c) evaluating their sensitivity to vehicle approach speed using a simulation approach wherein we assessed model performance based on changes in effect size with variations in the slope of the flight initiation distance (FID) vs. approach speed relationship. The slope of the FID vs. approach speed relationship was then related back to three different behavioral rules animals may rely on to avoid approaching threats: the spatial, temporal, or delayed margin of safety. We used literature on birds for goals (b) and (c). Our review considered the following eight models: the economic escape model, Blumstein’s economic escape model, the optimal escape model, the perceptual limit hypothesis, the visual cue model, the flush early and avoid the rush (FEAR) hypothesis, the looming stimulus hypothesis, and the Bayesian model of escape behavior. We were able to generate quantitative predictions about escape distance with the last five models. However, we were only able to assess sensitivity to vehicle approach speed for the last three models. The FEAR hypothesis is most sensitive to high-speed vehicles when the species follows the spatial (FID remains constant as speed increases) and the temporal margin of safety (FID increases with an increase in speed) rules of escape. The looming stimulus effect hypothesis reached small to intermediate levels of sensitivity to high-speed vehicles when a species follows the delayed margin of safety (FID decreases with an increase in speed). The Bayesian optimal escape model reached intermediate levels of sensitivity to approach speed across all escape rules (spatial, temporal, delayed margins of safety) but only for larger (> 1 kg) species, but was not sensitive to speed for smaller species. Overall, no single antipredator behavior model could characterize all different types of escape responses relative to vehicle approach speed but some models showed some levels of sensitivity for certain rules of escape behavior. We derive some applied applications of our findings by suggesting the estimation of critical vehicle approach speeds for managing populations that are especially susceptible to road mortality. Overall, we recommend that new escape behavior models specifically tailored to high-speeds vehicles should be developed to better predict quantitatively the responses of animals to an increase in the frequency of cars, airplanes, drones, etc. they will face in the next decade.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2011

Tropical and subtropical cloud transitions in weather and climate prediction models: the GCSS/WGNE Pacific Cross-Section Intercomparison (GPCI)

A model evaluation approach is proposed where weather and climate prediction models are analyzed along a Pacific Ocean cross-section, from the stratocumulus regions off the coast of California, across the shallow convection dominated trade-winds, to the deep convection regions of the ITCZ: the GCSS/WGNE Pacific Cross-section Intercomparison (GPCI). The main goal of GPCI is to evaluate, and help understand and improve the representation of tropical and sub-tropical cloud processes in weather and climate prediction models. In this paper, a detailed analysis of cloud regime transitions along the cross-section from the sub-tropics to the tropics for the season JJA of 1998 is presented. This GPCI study confirms many of the typical weather and climate prediction model problems in the representation of clouds: underestimation of clouds in the stratocumulus regime by most models with the corresponding consequences in terms of shortwave radiation biases; overestimation of clouds by the ECMWF Re-Analysis (ERA40) in the deep tropics (in particular) with the corresponding impact in the outgoing longwave radiation; large spread between the different models in terms of cloud cover, liquid water path and shortwave radiation; significant differences between the models in terms of vertical crosssections of cloud properties (in particular), vertical velocity and relative humidity. An alternative analysis of cloud cover mean statistics is proposed where sharp gradients in cloud cover along the GPCI transect are taken into account. This analysis shows that the negative cloud bias of some models and ERA40 in the stratocumulus regions (as compared to ISCCP) is associated not only with lower values of cloud cover in these regimes, but also with a stratocumulus-to-cumulus transition that occurs too early along the trade-wind Lagrangian trajectory. Histograms of cloud cover along the cross-section differ significantly between models. Some models exhibit a quasi-bimodal structure with cloud cover being either very large (close to 100%) or very small, while other models show a more continuous transition. The ISCCP observations suggest that reality is in-between these two extreme examples. These different patterns reflect the diverse nature of the cloud, boundary layer, and convection parameterizations in the participating weather and climate prediction models.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Genetic circuit characterization by inferring RNA polymerase movement and ribosome usage

To perform their computational function, genetic circuits change states through a symphony of genetic parts that turn regulator expression on and off. Debugging is frustrated by an inability to characterize parts in the context of the circuit and identify the origins of failures. Here, we take snapshots of a large genetic circuit in different states: RNA-seq is used to visualize circuit function as a changing pattern of RNA polymerase (RNAP) flux along the DNA. Together with ribosome profiling, all 54 genetic parts (promoters, ribozymes, RBSs, terminators) are parameterized and used to inform a mathematical model that can predict circuit performance, dynamics, and robustness. The circuit behaves as designed; however, it is riddled with genetic errors, including cryptic sense/antisense promoters and translation, attenuation, incorrect start codons, and a failed gate. While not impacting the expected Boolean logic, they reduce the prediction accuracy and could lead to failures when the parts are used in other designs. Finally, the cellular power (RNAP and ribosome usage) required to maintain a circuit state is calculated. This work demonstrates the use of a small number of measurements to fully parameterize a regulatory circuit and quantify its impact on host.

59 BASIC BIOLOGICAL SCIENCES↗