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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 37 records · Page 2
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

The recent evolutionary rescue of a staple crop depended on over half a century of global germplasm exchange

Rapid environmental change can lead to population extinction or evolutionary rescue. The global staple crop sorghum (Sorghum bicolor) has recently been threatened by a global outbreak of an aggressive new biotype of sugarcane aphid (SCA; Melanaphis sacchari). We characterized genomic signatures of adaptation in a Haitian breeding population that had rapidly adapted to SCA infestation, conducting evolutionary population genomics analyses on 296 Haitian lines versus 767 global accessions. Genome scans and geographic analyses suggest that SCA adaptation has been conferred by a globally rare East African allele of RMES1, which spread to breeding programs in Africa, Asia, and the Americas. De novo genome sequencing revealed potential causative variants at RMES1. Markers developed from the RMES1 sweep predicted resistance in eight independent commercial and public breeding programs. These findings demonstrate the value of evolutionary genomics to develop adaptive trait technology and highlight the benefits of global germplasm exchange to facilitate evolutionary rescue.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Integrating biomechanics in evolutionary studies, with examples from the amphidromous goby model system

The functional capacities of animals are a primary factor determining survival in nature. In this context, understanding the biomechanical performance of animals can provide insight into diverse aspects of their biology, ranging from ecological distributions across habitat gradients to the evolutionary diversification of lineages. To survive and reproduce in the face of environmental pressures, animals must perform a wide range of tasks, some of which entail tradeoffs between competing demands. Moreover, the demands encountered by animals can change through ontogeny as they grow, sexually mature or migrate across environmental gradients. To understand how mechanisms that underlie functional performance contribute to survival and diversification across challenging and variable habitats, we have pursued diverse studies of the comparative biomechanics of amphidromous goby fishes across functional requirements ranging from prey capture and fast-start swimming to adhesion and waterfall climbing. The pan-tropical distribution of these fishes has provided opportunities for repeated testing of evolutionary hypotheses. By synthesizing data from the lab and field, across approaches spanning high-speed kinematics, selection trials, suction pressure recordings, mechanical property testing, muscle fiber-type measurements and physical modeling of bioinspired designs, we have clarified how multiple axes of variation in biomechanical performance associate with the ecological and evolutionary diversity of these fishes. Here our studies of how these fishes meet both common and extreme functional demands add new, complementary perspectives to frameworks developed from other systems, and illustrate how integrating knowledge of the mechanical underpinnings of diverse aspects of performance can give critical insights into ecological and evolutionary questions.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Report on Fuel Cycle Facility Requirements for Deployment of Demonstration Reactors and Potential Evolutionary Fuel Cycle Scenarios

A series of fuel cycle scenarios studies were performed to inform on fuel cycle capacities and facilities needed for large-scale deployment of the Advanced Reactor Demonstration Program (ARDP) reactors and potential future evolutionary fuel cycle scenarios. The reactor deployment and evolutionary fuel cycle scenarios from the present to 2100 were developed based on the following assumptions: 1) achievement of a net-zero emissions economy in the United States by 2050, which requires a nuclear energy generation capacity of ~250 GWe by 2050, 2) the U.S. economic growth of 1% per year from 2051 to 2100, which results in ~340 GWe of nuclear energy capacity in 2100, and 3) commercial-scale recycling and high burnup fuel technologies are available after 2050. Thus, evolutionary fuel cycles with those advanced nuclear technologies start after 2050. A single once-through fuel cycle scenario was assumed from the present to 2050 to achieve a net-zero emissions economy in the United States, and the following four evolutionary fuel cycle scenarios from 2051 to 2100 were considered, 1) Once through fuel cycle with ARDP reactors (Natrium and Xe-100), 2) Once-through fuel cycle with Breed-and-Burn (B&B) fast reactors, 3) Recycling fuel cycle of used metallic fuel in fast reactors, and 4) Recycle fuel cycle of both used uranium oxide and metallic fuels in fast reactors. The projected front-end and back-end fuel cycle capacity demands are compared with the current domestic and global (if needed) fuel cycle capacities.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
NASA NTRS1983

Evolutionary effects of helium diffusion in population II stars

Evolutionary calculations continuing until well past turnoff are presented for models of low-mass Population II stars which take into account the effects of the diffusion of helium relative to hydrogen. Evolutionary tracks, cluster isochrones and hydrogen distributions were obtained for stellar masses in the range 0.75 to 1.01 solar masses, both in the presence and absence of diffusion. It is found that for a star of a given mass, diffusion speeds up the evolutionary process on the main sequence, although after turnoff evolution is slowed with respect to the case without diffusion. As the stars ascend the red giant branch, their outer regions are remixed so that evidence of helium diffusion is erased, and the evolutionary tracks of the models with and without diffusion converge. Thus, if the age of a globular cluster is determined from the absolute magnitude at turnoff or from fitting isochrones, diffusion results in a 25% reduction in the derived age at a turnoff magnitude of 4.23, and a 14% reduction at a turnoff magnitude of 3.45.

Stringfellow, G. S.↗
NASA NTRS1984

Physical characteristics and evolutionary trends of continental rifts

Rifts may be defined as zones beneath which the entire lithosphere has ruptured in extension. They are widespread and occur in a variety of tectonic settings, and range up to 2,600 m.y. in age. The object of this review is to highlight characteristic features of modern and ancient rifts, to emphasize differences and similarities in order to help characterize evolutionary trends, to identify physical conditions favorable for initiation as well as termination of rifting, and to provide constraints for future modeling studies of rifting. Rifts are characterized on the basis of their structural, geomorphic, magmatic and geophysical features and the diverse character of these features and their evolutionary trends through time are discussed. Mechanisms of rifting are critically examined in terms of the physical characteristics and evolutionary trends of rifts, and it is concluded that while simple models can give valuable insight into specific processes of rifting, individual rifts can rarely, if ever, be characterized by well defined trends predicted by these models. More data are required to clearly define evolutionary trends, and the models require development to incorporate the effects of lithospheric heterogeneities and complex geologic histories.

Ramberg, I. B.↗
NASA NTRS1997

Hybrid Co-Evolutionary Motion Planning via Visibility-Based Repair

This paper introduces a hybrid co-evolutionary system for global motion planning within unstructured environments. This system combines the concept of co-evolutionary search along with a concept that we refer to as the visibility-based repair to form a hybrid which quickly transforms infeasible motions into feasible ones. Also, this system makes use of a novel representation scheme for the obstacles within an environment. Our hybrid evolutionary system differs from other evolutionary motion planners in that (1) more emphasis is placed on repairing infeasible motions to develop feasible motions rather than using simulated evolution exclusively as a means of discovering feasible motions, (2) a continuous map of the environment is used rather than a discretized map, and (3) it develops global motion plans for multiple mobile destinations by co-evolving populations of sub-global motion plans. In this paper, we demonstrate the effectiveness of this system by using it to solve two challenging motion planning problems where multiple targets try to move away from a point robot.

Dozier, Gerry↗
NASA NTRS2003

Scheduling Earth Observing Satellites with Evolutionary Algorithms

We hypothesize that evolutionary algorithms can effectively schedule coordinated fleets of Earth observing satellites. The constraints are complex and the bottlenecks are not well understood, a condition where evolutionary algorithms are often effective. This is, in part, because evolutionary algorithms require only that one can represent solutions, modify solutions, and evaluate solution fitness. To test the hypothesis we have developed a representative set of problems, produced optimization software (in Java) to solve them, and run experiments comparing techniques. This paper presents initial results of a comparison of several evolutionary and other optimization techniques; namely the genetic algorithm, simulated annealing, squeaky wheel optimization, and stochastic hill climbing. We also compare separate satellite vs. integrated scheduling of a two satellite constellation. While the results are not definitive, tests to date suggest that simulated annealing is the best search technique and integrated scheduling is superior.

Globus, Al↗
NASA NTRS2020

Reply to “A Comment on ‘an Evolutionary System of Mineralogy: Proposal for A Classification of Planetary Materials Based on Natural Kind Clustering’”

I welcome the “Comment” from Hatert et al. (2021) related to the proposal for an “Evolutionary system of mineralogy” (Hazen 2019) and thank them for their historically informed, conceptually nuanced, and consistently constructive contribution. They offer corrections related to two facets of my paper that seemed unfairly to criticize aspects of the International Mineralogical Association’s Commission on New Minerals, Nomenclature and Classification (IMA-CNMNC) protocols for classifying minerals. First, they note an unfortunate inferred ambivalence with respect to the relationship between the IMA system and the new evolutionary system. If I was once ambivalent, that view has changed. Having spent the past two years in an ongoing effort to develop this new historical approach, I am struck every day by the power of the IMA-CNMNC system of species classification and nomenclature, which is fundamental and indispensable to the science of mineralogy. As Hatert et al. suggest, any new approach to organizing natural solids, including one focused on planetary evolution, must rest on the foundation provided by the IMA-CNMNC and its many volunteers who selflessly bring order to the mineral kingdom. In the best scenario, the evolutionary system may one day emerge as one of several useful approaches that complement and amplify but in no way replace this core IMA-CNMNC foundation, as clearly stated in the abstract of Hazen (2019). Second, Hatert et al. (2021) offer corrections regarding the IMA-CNMNC approach to classification, in particular a mischaracterization of the formal process to incorporate amorphous phases, poorly crystalline materials, and loosely defined “mineraloids.” I am grateful for the clarifications, as well as the implication that IMA protocols may facilitate the embrace of additional such phases in the future. Finally, I welcome the chance to explore further the emerging concept of “natural kinds” as applied to the mineral kingdom. Here, our thoughts differ. I suggest that minerals, considered in their information-rich, idiosyncratic, paragenetic contexts (in contrast to IMA-CNMNC species), have the potential to represent quintessential examples of “natural kinds.” Furthermore, when viewed in their evolutionary context, minerals offer an intriguing opportunity to expand the concept of “historical natural kinds” beyond its present limited and, at times, controversial use in biology, into the realm of the co-evolving geosphere and biosphere.

Philosophy of mineralogy↗
DOE OSTI2024

Evolutionary Game Dynamics between Distributed Energy Resources and Microgrid Operator: Balancing Act for Power Factor Improvement

This article investigates the intricate dynamics between Distributed Energy Resources (DERs) and the Microgrid Operator (MGO) within a microgrid interconnected with the main grid. Employing an evolutionary game framework, the study scrutinizes the strategic evolution of DERs’ decision-making processes in their interactions with the MGO. Modeled as an evolutionary game, these interactions encapsulate the strategies adopted by DERs, resulting in stable equilibrium strategies over time. Motivated by direct benefits linked to increased active power production, DERs strive to sell all available power, while the MGO focuses on optimizing the microgrid’s overall performance. The study assesses the microgrid’s performance in terms of its power factor, emphasizing the strategic balance DERs must achieve in their active power generation to avoid penalization. This penalization results in decreased individual utility for DERs due to the overall power factor decrease resulting from their prioritization of active power generation. Additionally, the diminished overall power factor implies a decrease in MGO utility. The individual utility of each DER is further influenced by the strategies adopted by other DERs, impacting the penalization factor. Leveraging a modified IEEE 13-node distribution microgrid consisting of three DERs, the study presents case studies encompassing both cooperative and non-cooperative evolutionary game scenarios. These case studies illuminate the intricacies of interactions and the resulting equilibrium outcomes.

24 POWER TRANSMISSION AND DISTRIBUTION↗
NASA NTRS2003

Conservation of Endo16 expression in sea urchins despite evolutionary divergence in both cis and trans-acting components of transcriptional regulation

Evolutionary changes in transcriptional regulation undoubtedly play an important role in creating morphological diversity. However, there is little information about the evolutionary dynamics of cis-regulatory sequences. This study examines the functional consequence of evolutionary changes in the Endo16 promoter of sea urchins. The Endo16 gene encodes a large extracellular protein that is expressed in the endoderm and may play a role in cell adhesion. Its promoter has been characterized in exceptional detail in the purple sea urchin, Strongylocentrotus purpuratus. We have characterized the structure and function of the Endo16 promoter from a second sea urchin species, Lytechinus variegatus. The Endo16 promoter sequences have evolved in a strongly mosaic manner since these species diverged approximately 35 million years ago: the most proximal region (module A) is conserved, but the remaining modules (B-G) are unalignable. Despite extensive divergence in promoter sequences, the pattern of Endo16 transcription is largely conserved during embryonic and larval development. Transient expression assays demonstrate that 2.2 kb of upstream sequence in either species is sufficient to drive GFP reporter expression that correctly mimics this pattern of Endo16 transcription. Reciprocal cross-species transient expression assays imply that changes have also evolved in the set of transcription factors that interact with the Endo16 promoter. Taken together, these results suggest that stabilizing selection on the transcriptional output may have operated to maintain a similar pattern of Endo16 expression in S. purpuratus and L. variegatus, despite dramatic divergence in promoter sequence and mechanisms of transcriptional regulation.

NASA Discipline Evolutionary Biology↗
NASA NTRS2004

Evolutionary Multiobjective Design Targeting a Field Programmable Transistor Array

This paper introduces the ISPAES algorithm for circuit design targeting a Field Programmable Transistor Array (FPTA). The use of evolutionary algorithms is common in circuit design problems, where a single fitness function drives the evolution process. Frequently, the design problem is subject to several goals or operating constraints, thus, designing a suitable fitness function catching all requirements becomes an issue. Such a problem is amenable for multi-objective optimization, however, evolutionary algorithms lack an inherent mechanism for constraint handling. This paper introduces ISPAES, an evolutionary optimization algorithm enhanced with a constraint handling technique. Several design problems targeting a FPTA show the potential of our approach.

global optimization↗
DOE OSTI2024

Shifts in evolutionary lability underlie independent gains and losses of root-nodule symbiosis in a single clade of plants

Abstract Root nodule symbiosis (RNS) is a complex trait that enables plants to access atmospheric nitrogen converted into usable forms through a mutualistic relationship with soil bacteria. Pinpointing the evolutionary origins of RNS is critical for understanding its genetic basis, but building this evolutionary context is complicated by data limitations and the intermittent presence of RNS in a single clade of ca. 30,000 species of flowering plants, i.e., the nitrogen-fixing clade (NFC). We developed the most extensive de novo phylogeny for the NFC and an RNS trait database to reconstruct the evolution of RNS. Our analysis identifies evolutionary rate heterogeneity associated with a two-step process: An ancestral precursor state transitioned to a more labile state from which RNS was rapidly gained at multiple points in the NFC. We illustrate how a two-step process could explain multiple independent gains and losses of RNS, contrary to recent hypotheses suggesting one gain and numerous losses, and suggest a broader phylogenetic and genetic scope may be required for genome-phenome mapping.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Eco-evolutionary strategies for relieving carbon limitation under salt stress differ across microbial clades

With the continuous expansion of saline soils under climate change, understanding the eco-evolutionary tradeoff between the microbial mitigation of carbon limitation and the maintenance of functional traits in saline soils represents a significant knowledge gap in predicting future soil health and ecological function. Through shotgun metagenomic sequencing of coastal soils along a salinity gradient, we show contrasting eco-evolutionary directions of soil bacteria and archaea that manifest in changes to genome size and the functional potential of the soil microbiome. In salt environments with high carbon requirements, bacteria exhibit reduced genome sizes associated with a depletion of metabolic genes, while archaea display larger genomes and enrichment of salt-resistance, metabolic, and carbon-acquisition genes. This suggests that bacteria conserve energy through genome streamlining when facing salt stress, while archaea invest in carbon-acquisition pathways to broaden their resource usage. These findings suggest divergent directions in eco-evolutionary adaptations to soil saline stress amongst microbial clades and serve as a foundation for understanding the response of soil microbiomes to escalating climate change.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2026

Vicennial metagenomic time series unveils evolutionary dynamics of giant viruses in a freshwater ecosystem

Giant viruses play crucial ecological roles in aquatic ecosystems, yet their evolutionary dynamics in response to environmental changes, particularly in freshwater environments, are not well understood. We analyzed a 20-year time series (2000-2019) of 471 co-assembled metagenomes from Lake Mendota (USA) to reconstruct 1512 giant virus metagenome-assembled genomes, providing insights into viral genome evolution. Viruses in the order Imitervirales dominate the virome, remaining consistent across seasons and years. Our findings reveal gene duplication (23% of genes) and horizontal gene transfer (29% of genes) as key drivers of genomic innovation. A co-occurrence network analysis indicates increased virus-host interactions following the introduction of an invasive predatory zooplankton in 2009, highlighting potential hosts in Bigyra, Perkinsea, and Euglenozoa. While single nucleotide polymorphism analysis shows predominantly purifying selection in viral genes, there is a significant increase in positively selected genes post-invasion, particularly those related to infection. Comparative evolutionary analyses reveal that giant viruses exhibit genome-wide substitution rates similar to co-occurring bacteria but significantly slower than smaller dsDNA phages, suggesting both stability and adaptability. Our study demonstrates that freshwater giant viruses employ various evolutionary strategies to respond to environmental change. These results underscore their significant yet often underappreciated role in freshwater ecosystem dynamics.

Vasquez, Yumary M↗
DOE OSTI2025

A compendium of human gene functions derived from evolutionary modelling

A comprehensive, computable representation of the functional repertoire of all macromolecules encoded within the human genome is a foundational resource for biology and biomedical research. The Gene Ontology Consortium has been working towards this goal by generating a structured body of information about gene functions, which now includes experimental findings reported in more than 175,000 publications for human genes and genes in experimentally tractable model organisms 1,2 . Here, we describe the results of a large, international effort to integrate all of these findings to create a representation of human gene functions that is as complete and accurate as possible. Specifically, we apply an expert-curated, explicit evolutionary modelling approach to all human protein-coding genes. This approach integrates available experimental information across families of related genes into models that reconstruct the gain and loss of functional characteristics over evolutionary time. The models and the resulting set of 68,667 integrated gene functions cover approximately 82% of human protein-coding genes. The functional repertoire reveals a marked preponderance of molecular regulatory functions, and the models provide insights into the evolutionary origins of human gene functions. We show that our set of descriptions of functions can improve the widely used genomic technique of Gene Ontology enrichment analysis. The experimental evidence for each functional characteristic is recorded, thereby enabling the scientific community to help review and improve the resource, which we have made publicly available.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Specialization Restricts the Evolutionary Paths Available to Yeast Sugar Transporters

Functional innovation at the protein level is a key source of evolutionary novelties. The constraints on functional innovations are likely to be highly specific in different proteins, which are shaped by their unique histories and the extent of global epistasis that arises from their structures and biochemistries. These contextual nuances in the sequence–function relationship have implications both for a basic understanding of the evolutionary process and for engineering proteins with desirable properties. Here, we have investigated the molecular basis of novel function in a model member of an ancient, conserved, and biotechnologically relevant protein family. These Major Facilitator Superfamily sugar porters are a functionally diverse group of proteins that are thought to be highly plastic and evolvable. By dissecting a recent evolutionary innovation in an α-glucoside transporter from the yeast Saccharomyces eubayanus, we show that the ability to transport a novel substrate requires high-order interactions between many protein regions and numerous specific residues proximal to the transport channel. To reconcile the functional diversity of this family with the constrained evolution of this model protein, we generated new, state-of-the-art genome annotations for 332 Saccharomycotina yeast species spanning ~400 My of evolution. By integrating phylogenetic and phenotypic analyses across these species, we show that the model yeast α-glucoside transporters likely evolved from a multifunctional ancestor and became subfunctionalized. The accumulation of additive and epistatic substitutions likely entrenched this subfunction, which made the simultaneous acquisition of multiple interacting substitutions the only reasonably accessible path to novelty.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Optimizing thermodynamic trajectories using evolutionary and gradient-based reinforcement learning

Here using a model heat engine, we show that neural-network-based reinforcement learning can identify thermodynamic trajectories of maximal efficiency. We consider both gradient and gradient-free reinforcement learning. We use an evolutionary learning algorithm to evolve a population of neural networks, subject to a directive to maximize the efficiency of a trajectory composed of a set of elementary thermodynamic processes; the resulting networks learn to carry out the maximally efficient Carnot, Stirling, or Otto cycles. When given an additional irreversible process, this evolutionary scheme learns a previously unknown thermodynamic cycle. Gradient-based reinforcement learning is able to learn the Stirling cycle, whereas an evolutionary approach achieves the optimal Carnot cycle. Our results show how the reinforcement learning strategies developed for game playing can be applied to solve physical problems conditioned upon path-extensive order parameters.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2020

Evolutionary Variation in MADS Box Dimerization Affects Floral Development and Protein Abundance in Maize

Interactions between MADS-box transcription factors are critical in the regulation of floral development, and shifting MADS-box protein-protein interactions are predicted to have influenced floral evolution. However, precisely how evolutionary variation in protein-protein interactions affects MADS-box protein function remains unknown. To assess the impact of changing MADS-box protein-protein interactions on transcription factor function, we turned to the grasses, where interactions between B-class MADS-box proteins vary. We tested the functional consequences of this evolutionary variability using maize as an experimental system. We found that differential B-class dimerization was associated with subtle, quantitative differences in stamen shape. In contrast, differential dimerization resulted in large-scale changes to downstream gene expression. Differential dimerization also affected B-class complex composition and abundance, independent of transcript levels. This indicates that differential B-class dimerization affects protein degradation, revealing an important consequence for evolutionary variability in MADS-box interactions. Our results highlight complexity in the evolution of developmental gene networks - changing protein-protein interactions could affect not only the composition of transcription factor complexes, but also their degradation and persistence in developing flowers. Here, our results also show how coding change in a pleiotropic master regulator could have small, quantitative effects on development.

59 BASIC BIOLOGICAL SCIENCES↗