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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 1,423 records · Page 79
All sourcesNASA NTRSDOE OSTI
NASA NTRS2014

Orbit Determination Accuracy Analysis of the Magnetospheric Multiscale Mission During Perigee Raise

The Goddard Space Flight Center (GSFC) Flight Dynamics Facility (FDF) will provide orbit determination and prediction support for the Magnetospheric Multiscale (MMS) mission during the missions commissioning period. The spacecraft will launch into a highly elliptical Earth orbit in 2015. Starting approximately four days after launch, a series of five large perigee-raising maneuvers will be executed near apogee on a nearly every-other-orbit cadence. This perigee-raise operations concept requires a high-accuracy estimate of the orbital state within one orbit following the maneuver for performance evaluation and a high-accuracy orbit prediction to correctly plan and execute the next maneuver in the sequence. During early mission design, a linear covariance analysis method was used to study orbit determination and prediction accuracy for this perigee-raising campaign. This paper provides a higher fidelity Monte Carlo analysis using the operational COTS extended Kalman filter implementation that was performed to validate the linear covariance analysis estimates and to better characterize orbit determination performance for actively maneuvering spacecraft in a highly elliptical orbit. The study finds that the COTS extended Kalman filter tool converges on accurate definitive orbit solutions quickly, but prediction accuracy through orbits with very low altitude perigees is degraded by the unpredictability of atmospheric density variation.

Determination↗
DOE OSTI2014

Quantitative analysis of mammalian translation initiation sites by FACS -seq

An approach combining fluorescence-activated cell sorting and high-throughput DNA sequencing (FACS-seq) was employed to determine the efficiency of start codon recognition for all possible translation initiation sites (TIS) utilizing AUG start codons. Using FACS-seq, we measured translation from a genetic reporter library representing all 65,536 possible TIS sequences spanning the -6 to +5 positions. We found that the motif RYMRMVAUGGC enhanced start codon recognition and translation efficiency. However, dinucleotide interactions, which cannot be conveyed by a single motif, were also important for modeling TIS efficiency. Our dataset combined with modeling allowed us to predict genome-wide translation initiation efficiency for all mRNA transcripts. Additionally, we screened somatic TIS mutations associated with tumorigenesis to identify candidate driver mutations consistent with known tumor expression patterns. Finally, we implemented a quantitative leaky scanning model to predict alternative initiation sites that produce truncated protein isoforms and compared predictions with ribosome footprint profiling data. The comprehensive analysis of the TIS sequence space enables quantitative predictions of translation initiation based on genome sequence.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS2014

Orbit Determination Accuracy Analysis of the Magnetospheric Multiscale Mission During Perigee Raise

The Goddard Space Flight Center (GSFC) Flight Dynamics Facility (FDF) will provide orbit determination and prediction support for the Magnetospheric Multiscale (MMS) mission during the mission's commissioning period. The spacecraft will launch into a highly elliptical Earth orbit in 2015. Starting approximately four days after launch, a series of five large perigee-raising maneuvers will be executed near apogee on a nearly every-other-orbit cadence. This perigee-raise operations concept requires a high-accuracy estimate of the orbital state within one orbit following the maneuver for performance evaluation and a high-accuracy orbit prediction to correctly plan and execute the next maneuver in the sequence. During early mission design, a linear covariance analysis method was used to study orbit determination and prediction accuracy for this perigee-raising campaign. This paper provides a higher fidelity Monte Carlo analysis using the operational COTS extended Kalman filter implementation that was performed to validate the linear covariance analysis estimates and to better characterize orbit determination performance for actively maneuvering spacecraft in a highly elliptical orbit. The study finds that the COTS extended Kalman filter tool converges on accurate definitive orbit solutions quickly, but prediction accuracy through orbits with very low altitude perigees is degraded by the unpredictability of atmospheric density variation.

Multiscale↗
DOE OSTI2026

Integrative Modeling and Analysis of Fungal Central Carbon Metabolism

Over a thousand fungal genomes have been sequenced, yet manually curated genome-scale metabolic models (GEMs) are available for only a limited number of species. Moreover, these models have often been developed independently, leading to inconsistencies in namespaces, compartment definitions, and pathway representations that hinder comparative analysis, the systematic reuse of prior curation efforts, and the integration of consolidated metabolic knowledge. Here, we present the Consolidated Fungal Core Metabolism Model (CFCMM), constructed by integrating thirteen published fungal models spanning Ascomycota, Mucoromycota, and both Crabtree-positive and Crabtree-negative yeasts. We harmonized metabolites and reactions into a non-redundant shared ModelSEED ontological space, standardized compartmentalization, and refined gene–protein–reaction (GPR) rules. Using pathway-level visualization and systematic gap detection, we further improved the integrated network through literature-guided curation to correct stoichiometry, stereospecificity, and pathway architecture. Orthologous protein family reconstruction and functional annotation workflows were used to validate and inform GPR associations, with particular emphasis on ambiguous enzyme superfamilies and membrane-associated components. Using the resulting CFCMM, we built high-quality central carbon core models for each fungus and performed flux balance analysis to quantify ATP-yield variation under aerobic and anaerobic conditions, explicitly evaluating scenarios driven by differences in electron transport chain (ETC) composition. Simulations reproduced the expected fermentative yield of approximately 2 mmol ATP per mmol glucose under anaerobic conditions and separated the thirteen fungi into two bioenergetic groups under aerobic respiration based on Complex I status, with predicted yields of approximately 30 versus 22 mmol ATP per mmol glucose. Forcing flux through the alternative oxidase bypass further reduced ATP yields to approximately 12 and 4 mmol ATP per mmol glucose in Complex I-containing and Complex I-lacking fungi, respectively. Collectively, this work provides a manually curated, ModelSEED-consistent, and extensible fungal core metabolic template, deployed in DOE KBase as a resource for automated reconstruction of central carbon core models from any sequenced fungal genome. In addition, the CFCMM provides modular components for developing GEMs with more accurate energy predictions and enables robust comparative analyses of fungal bioenergetics and core metabolic diversity

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Bulk segregant and QTL analysis of maltose metabolism in Saccharomyces eubayanus

This study investigates natural variation in maltose utilization among Saccharomyces eubayanus strains isolated from different tree hosts. An F2 population was generated from a cross between strain QC18 (Quercus-associated) and strain CL467.1 (Nothofagus-associated). Bulk segregant analysis (BSA) was performed on the F2 offspring, and QTL mapping was conducted by whole-genome sequencing of two pools of 30 segregants each, representing the lowest and highest growth in high maltose concentrations. For QTL analysis, the parental strains QC18 and CL467.1 were also sequenced.

evolutionary plasticity↗
NASA NTRS2000

Section on Observed Impacts on El Nino

Agricultural applications of El Nino forecasts are already underway in some countries and need to be evaluated or re-evaluated. For example, in Peru, El Nino forecasts have been incorporated into national planning for the agricultural sector, and areas planted with rice and cotton (cotton being the more drought-tolerant crop) are adjusted accordingly. How well are this and other such programs working? Such evaluations will contribute to the governmental and intergovernmental institutions, including the Inter-American Institute for Global Change Research and the US National Ocean and Atmospheric Agency that are fostering programs to aid the effective use of forecasts. As El Nino climate forecasting grows out of the research mode into operational mode, the research focus shifts to include the design of appropriate modes of utilization. Awareness of and sensitivity to the costs of prediction errors also grow. For example, one major forecasting model failed to predict the very large El Nino event of 1997, when Pacific sea-surface temperatures were the highest on record. Although simple correlations between El Nino events and crop yields may be suggestive, more sophisticated work is needed to understand the subtleties of the interplay among the global climate system, regional climate patterns, and local agricultural systems. Honesty about the limitations of an forecast is essential, especially when human livelihoods are at stake. An end-to-end analysis links tools and expertise from the full sequence of ENSO cause-and-effect processes. Representatives from many disciplines are needed to achieve insights, e.g, oceanographers and atmospheric scientists who predict El Nino events, climatologists who drive global climate models with sea-surface temperature predictions, agronomists who translate regional climate connections in to crop yield forecasts, and economists who analyze market adjustments to the vagaries of climate and determine the value of climate forecasts. Methods include historical studies to understand past patterns and to test hindcasts of the prediction tools, crop modeling, spatial analysis and remote sensing. This research involves expanding, deepening, and applying the understanding of physical climate to the fields of agronomy and social science; and the reciprocal understanding of crop growth and farm economics to climatology. Delivery of a regional climate forecast with no information about how the climate forecast was derived limits its effectiveness. Explanation of a region's major climate driving forces helps to place a seasonal forecast in context. Then, a useful approach is to show historical responses to previous El Nino events, and projections, with uncertainty intervals, of crop response from dynamic process crop growth models. Regional ID forecasts should be updated with real-time weather conditions. Since every El Nino event is different, it is important to track, report and advise on each new event as it unfolds. The stability of human enterprises depends on understanding both the potentialities and the limits of predictability. Farmers rely on past experience to anticipate and respond to fluctuations in the biophysical systems on which their livelihoods depend. Now scientists are improving their ability to predict some major elements of climate variability. The improvements in the reliability of El Nino forecasts are encouraging, but seasonal forecasts for agriculture are not, and will probably never be completely infallible, due to the chaotic nature of the climate system. Uncertainties proliferate as we extend beyond Pacific sea-surface temperatures to climate teleconnections and agricultural outcomes. The goal of this research is to shed as a clear light as possible on these inherent uncertainties and thus to contribute to the development of appropriate responses to El Nino and other seasonal forecasts for a range of stakeholders, which, ultimately, includes food consumers everywhere.

Rosenzweig, Cynthia↗
DOE OSTI2025

Long-read RNA sequencing atlas of human microglia isoforms elucidates disease-associated genetic regulation of splicing

Microglia, the innate immune cells of the central nervous system, have been genetically implicated in multiple neurodegenerative diseases. Mapping the genetics of gene expression in human microglia has identified several loci associated with disease-associated genetic variants in microglia-specific regulatory elements. However, identifying genetic effects on splicing is challenging because of the use of short sequencing reads. Here, we present the isoform-centric microglia genomic atlas (isoMiGA), which leverages long-read RNA sequencing to identify 35,879 novel microglia isoforms. We show that these isoforms are involved in stimulation response and brain region specificity. We then quantified the expression of both known and novel isoforms in a multi-ancestry meta-analysis of 555 human microglia short-read RNA sequencing samples from 391 donors, and found associations with genetic risk loci in Alzheimer’s and Parkinson’s disease. We nominate several loci that may act through complex changes in isoform and splice-site usage.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS2004

Estimation of Dynamical Parameters in Atmospheric Data Sets

In this study a new technique is used to derive dynamical parameters out of atmospheric data sets. This technique, called the structure tensor technique, can be used to estimate dynamical parameters such as motion, source strengths, diffusion constants or exponential decay rates. A general mathematical framework was developed for the direct estimation of the physical parameters that govern the underlying processes from image sequences. This estimation technique can be adapted to the specific physical problem under investigation, so it can be used in a variety of applications in trace gas, aerosol, and cloud remote sensing. The fundamental algorithm will be extended to the analysis of multi- channel (e.g. multi trace gas) image sequences and to provide solutions to the extended aperture problem. In this study sensitivity studies have been performed to determine the usability of this technique for data sets with different resolution in time and space and different dimensions.

Wenig, Mark O.↗
DOE OSTI2019

Comparative genomics and transcriptomics analysis reveals evolution patterns of selection in the Salix phylogeny

Background: Willows are widely distributed in the northern hemisphere and have good adaptability to different living environment. The increasing of genome and transcriptome data provides a chance for comparative analysis to study the evolution patterns with the different origin and geographical distributions in the Salix phylogeny. Results: Transcript sequences of 10 Salicaceae species were downloaded from public databases. All pairwise of orthologues were identified by comparative analysis in these species, from which we constructed a phylogenetic tree and estimated the rate of diverse. Divergence times were estimated in the 10 Salicaceae using comparative transcriptomic analysis. All of the fast-evolving positive selection sequences were identified, and some cold-, drought-, light-, universal-, and heat- resistance genes were discovered. Conclusions: The divergence time of subgenus Vetrix and Salix was about 17.6–16.0 Mya during the period of Middle Miocene Climate Transition (21–14 Mya). Subgenus Vetrix diverged to migratory and resident groups when the climate changed to the cool and dry trend by 14 Mya. Cold- and light- stress genes were involved in positive selection among the resident Vetrix, and which would help them to adapt the cooling stage. Universal- stress genes exhibited positive selection among the migratory group and subgenus Salix. These data are useful for comprehending the adaptive evolution and speciation in the Salix lineage.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2019

High spatiotemporal variability of bacterial diversity over short time scales with unique hydrochemical associations within a shallow aquifer

Understanding microbial community structure and function within the subsurface is critical to assessing overall quality and maintenance of groundwater; however, the factors that determine microbial community assembly, structure, and function in groundwater systems and their impact on water quality remains poorly understood. In this study, three shallow wells (FW301, FW303, FW305) in a non-contaminated shallow aquifer in the ENIGMA-Oak Ridge Field Research Center (Oak Ridge, TN) were sampled approximately 3 times a week over a period of three months to measure changes in groundwater geochemistry and microbial diversity. It was expected that the sampled microbial diversity from two historic field wells (FW301, FW303) would be relatively stable, while diversity from a newer well (FW305) would be less stable over time. The wells displayed some degree of hydrochemical variability over time unique to each well, with FW303 being overall the most stable well and FW301 being the most dynamic based upon dissolved oxygen, conductivity, and nitrate. Community analysis via ss-rRNA paired-end sequencing and distribution-based clustering revealed higher OTU richness, diversity, and variability in groundwater communities of FW301 than the other two wells for diversity binned over all time points. Microbial community composition of a given well was on average > 50% dissimilar to any other well at a given time (days), yet, functional gene diversity as measured with GeoChip remained relatively constant. Similarities in community structure across wells were observed with respect to the presence of 20 shared bacterial groups in all samples in all wells, although at varying levels over the tested time period. Similarity percentage (SIMPER) analysis revealed that variability in FW301 was largely attributed to low abundance, highly-transient populations, while variability in the most hydrochemically stable well (FW303) was due to fluctuations in more highly abundant and frequently present taxa. Additionally, the youngest well FW305 showed a dramatic shift in community composition towards the end of the sampling period that was not observed in the other wells, suggesting possible succession events over time. Time-series analysis using vector auto-regressive models and Granger causality showed unique relationships between richness and geochemistry over time in each well. Finally, these results indicate temporally dynamic microbial communities over short time scales, with day-to-day population shifts in local community structure influenced by available source community diversity and local groundwater hydrochemistry.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS2019

A Chromaticity Analysis and PSF Subtraction Techniques for SCExAO/CHARIS Data

We present an analysis of instrument performance using new observations taken with the Coronagraphic High Angular Resolution Imaging Spectrograph (CHARIS) instrument and the Subaru Coronagraphic Extreme Adaptive Optics (SCExAO) system. In a correlation analysis of our data sets (which use the broadband mode covering the J band through the K band in a single spectrum), we find that chromaticity in the SCExAO/CHARIS system is generally worse than temporal stability. We also develop a point-spread function (PSF) subtraction pipeline optimized for the CHARIS broadband mode, including a forward modeling-based exoplanet algorithmic throughput correction scheme. We then present contrast curves using this newly developed pipeline. An analogous subtraction of the same data sets using only the H-band slices yields the same final contrasts as the full JHK sequences; this result is consistent with our chromaticity analysis, illustrating that PSF subtraction using spectral differential imaging (SDI) in this broadband mode is generally not more effective than SDI in the individual J, H, or K bands. In the future, the data processing framework and analysis developed in this paper will be important to consider for additional SCExAO/CHARIS broadband observations and other ExAO instruments which plan to implement a similar integral field spectrograph broadband mode.

Benjamin L. Gerard↗
DOE OSTI2020

Transits of Known Planets Orbiting a Naked-eye Star

Some of the most scientifically valuable transiting planets are those that were already known from radial velocity (RV) surveys. This is primarily because their orbits are well characterized and they preferentially orbit bright stars that are the targets of RV surveys. The Transiting Exoplanet Survey Satellite (TESS) provides an opportunity to survey most of the known exoplanet systems in a systematic fashion to detect possible transits of their planets. HD 136352 (Nu{sup 2} Lupi) is a naked-eye (V = 5.78) G-type main-sequence star that was discovered to host three planets with orbital periods of 11.6, 27.6, and 108.1 days via RV monitoring with the High Accuracy Radial velocity Planet Searcher (HARPS) spectrograph. We present the detection and characterization of transits for the two inner planets of the HD 136352 system, revealing radii of 1.482{sub −0.056}{sup +0.058} R {sub ⊕} and 2.608{sub −0.077}{sup +0.078} R {sub ⊕} for planets b and c, respectively. We combine new HARPS observations with RV data from the Keck/High Resolution Echelle Spectrometer and the Anglo-Australian Telescope, along with TESS photometry from Sector 12, to perform a complete analysis of the system parameters. The combined data analysis results in extracted bulk density values of ρ{sub b}=7.8{sub −1.1}{sup +1.2} g cm{sup −3} and ρ{sub c}=3.50{sub −0.36}{sup +0.41} g cm{sup −3} for planets b and c, respectively, thus placing them on either side of the radius valley. The combination of the multitransiting planet system, the bright host star, and the diversity of planetary interiors and atmospheres means this will likely become a cornerstone system for atmospheric and orbital characterization of small worlds.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2014

On the origin of the Hubble sequence: I. Insights on galaxy color migration from cosmological simulations

An analysis of more than 3000 galaxies resolved at better than 114 h{sup –1} pc at z = 0.62 in a 'LAOZI' cosmological adaptive mesh refinement hydrodynamic simulation is performed and insights are gained on star formation quenching and color migration. The vast majority of red galaxies are found to be within three virial radii of a larger galaxy at the onset of quenching, when the specific star formation rate experiences the sharpest decline to fall below ∼10{sup –2}-10{sup –1} Gyr{sup –1} (depending on the redshift). Thus, we shall call this mechanism 'environment quenching', which encompasses satellite quenching. Two physical processes are largely responsible: Ram pressure stripping first disconnects the galaxy from the cold gas supply on large scales, followed by a longer period of cold gas starvation taking place in a high velocity-dispersion environment, in which during the early part of the process, the existing dense cold gas in the central region (≤10 kpc) is consumed by in situ star formation. On average, quenching is found to be more efficient (i.e., a larger fraction of galaxies being quenched) but not faster (i.e., the duration being weakly dependent on the environment) in a denser environment. Throughout this quenching period and the ensuing one in the red sequence, galaxies follow nearly vertical tracks in the color-stellar mass diagram. In contrast, individual galaxies of all masses grow most of their stellar masses in the blue cloud, prior to the onset of quenching, and progressively more massive blue galaxies with already relatively older mean stellar ages continue to enter the red sequence. Consequently, correlations among observables of red galaxies—such as the age-mass relation— are largely inherited from their blue progenitors at the onset of quenching. While the color makeup of the entire galaxy population strongly depends on the environment, which is a direct result of environment quenching, physical properties of blue galaxies as a subpopulation show little dependence on the environment. A variety of predictions from the simulation are shown to be in accordance with extant observations.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2014

Stop Codon Reassignment in the Wild

Since the discovery of the genetic code and protein translation mechanisms (1), a limited number of variations of the standard assignment between unique base triplets (codons) and their encoded amino acids and translational stop signals have been found in bacteria and phages (2-3). Given the apparent ubiquity of the canonical genetic code, the design of genomically recoded organisms with non-canonical codes has been suggested as a means to prevent horizontal gene transfer between laboratory and environmental organisms (4). It is also predicted that genomically recoded organisms are immune to infection by viruses, under the assumption that phages and their hosts must share a common genetic code (5). This paradigm is supported by the observation of increased resistance of genomically recoded bacteria to phages with a canonical code (4). Despite these assumptions and accompanying lines of evidence, it remains unclear whether differential and non-canonical codon usage represents an absolute barrier to phage infection and genetic exchange between organisms. Our knowledge of the diversity of genetic codes and their use by viruses and their hosts is primarily derived from the analysis of cultivated organisms. Advances in single-cell sequencing and metagenome assembly technologies have enabled the reconstruction of genomes of uncultivated bacterial and archaeal lineages (6). These initial findings suggest that large scale systematic studies of uncultivated microorganisms and viruses may reveal the extent and modes of divergence from the canonical genetic code operating in nature. To explore alternative genetic codes, we carried out a systematic analysis of stop codon reassignments from the canonical TAG amber, TGA opal, and TAA ochre codons in assembled metagenomes from environmental and host-associated samples, single-cell genomes of uncultivated bacteria and archaea, and a collection of phage sequences

09 BIOMASS FUELS↗
DOE OSTI2020

Changes in DNA Methylation in Response to 6-Benzylaminopurine Affect Allele-Specific Gene Expression in Populus Tomentosa

Cytokinins play important roles in the growth and development of plants. Physiological and photosynthetic characteristics are common indicators to measure the growth and development in plants. However, few reports have described the molecular mechanisms of physiological and photosynthetic changes in response to cytokinin, particularly in woody plants. DNA methylation is an essential epigenetic modification that dynamically regulates gene expression in response to the external environment. In this study, we examined genome-wide DNA methylation variation and transcriptional variation in poplar (Populus tomentosa) after short-term treatment with the synthetic cytokinin 6-benzylaminopurine (6-BA). We identified 460 significantly differentially methylated regions (DMRs) in response to 6-BA treatment. Transcriptome analysis showed that 339 protein-coding genes, 262 long non-coding RNAs (lncRNAs), and 15,793 24-nt small interfering RNAs (siRNAs) were differentially expressed under 6-BA treatment. Among these, 79% were differentially expressed between alleles in P. tomentosa, and 102,819 allele-specific expression (ASE) loci in 19,200 genes were detected showing differences in ASE levels after 6-BA treatment. Combined DNA methylation and gene expression analysis demonstrated that DNA methylation plays an important role in regulating allele-specific gene expression. To further investigate the relationship between these 6-BA-responsive genes and phenotypic variation, we performed SNP analysis of 460 6-BA-responsive DMRs via re-sequencing using a natural population of P. tomentosa, and we identified 206 SNPs that were significantly associated with growth and wood properties. Association analysis indicated that 53% of loci with allele-specific expression had primarily dominant effects on poplar traits. Our comprehensive analyses of P. tomentosa DNA methylation and the regulation of allele-specific gene expression suggest that DNA methylation is an important regulator of imbalanced expression between allelic loci.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS2005

Genome-wide transcriptional analysis of flagellar regeneration in Chlamydomonas reinhardtii identifies orthologs of ciliary disease genes

The important role that cilia and flagella play in human disease creates an urgent need to identify genes involved in ciliary assembly and function. The strong and specific induction of flagellar-coding genes during flagellar regeneration in Chlamydomonas reinhardtii suggests that transcriptional profiling of such cells would reveal new flagella-related genes. We have conducted a genome-wide analysis of RNA transcript levels during flagellar regeneration in Chlamydomonas by using maskless photolithography method-produced DNA oligonucleotide microarrays with unique probe sequences for all exons of the 19,803 predicted genes. This analysis represents previously uncharacterized whole-genome transcriptional activity profiling study in this important model organism. Analysis of strongly induced genes reveals a large set of known flagellar components and also identifies a number of important disease-related proteins as being involved with cilia and flagella, including the zebrafish polycystic kidney genes Qilin, Reptin, and Pontin, as well as the testis-expressed tubby-like protein TULP2.

Polycystic Kidney Diseases/genetics↗
NASA NTRS2004

Microbial Characterization During the Early Habitation of the International Space Station

An evaluation of the microbiota from air, water, and surface samples provided a baseline of microbial characterization onboard the International Space Station (ISS) to gain insight into bacterial and fungal contamination during the initial stages of construction and habitation. Using 16S genetic sequencing and rep-PCR, 63 bacterial strains were isolated for identification and fingerprinted for microbial tracking. Of the bacterial strains that were isolated and fingerprinted, 19 displayed similarity to each other. The use of these molecular tools allowed for the identification of bacteria not previously identified using automated biochemical analysis and provided a clear indication of the source of several ISS contaminants. Strains of Bradyrhizobium and Sphingomonas unable to be identified using sequencing were identified by comparison of rep-PCR DNA fingerprints. Distinct DNA fingerprints for several strains of Methylobacterium provided a clear indication of the source of an ISS water supply contaminant. Fungal and bacterial data acquired during monitoring do not suggest there is a current microbial hazard to the spacecraft, nor does any trend indicate a potential health risk. Previous spacecraft environmental analysis indicated that microbial contamination will increase with time and will require continued surveillance. Copyright 2004 Springer-Verlag.

Fungi/genetics↗
DOE OSTI2018

Onset of natural selection in populations of autocatalytic heteropolymers

We present that reduction of information entropy along with ever-increasing complexity is among the key signatures of life. Understanding the onset of such behavior in the early prebiotic world is essential for solving the problem of the origin of life. Here we study a general problem of heteropolymers capable of template-assisted ligation based on Watson-Crick-like hybridization. The system is driven off-equilibrium by cyclic changes in the environment. We model the dynamics of 2-mers, i.e., sequential pairs of specific monomers within the heteropolymer population. While the possible number of them is Z 2 (where Z is the number of monomer types), we observe that most of the 2-mers get extinct, leaving no more than 2Z survivors. This leads to a dramatic reduction of the information entropy in the sequence space. Our numerical results are supported by a general mathematical analysis of the competition of growing polymers for constituent monomers. This natural-selection-like process ultimately results in a limited subset of polymer sequences. Importantly, the set of surviving sequences depends on initial concentrations of monomers and remains exponentially large (2 L down from Z L for length L) in each of realizations. Therefore, an inhomogeneity in initial conditions allows for a massively parallel search of the sequence space for biologically functional polymers, such as ribozymes. We also propose potential experimental implementations of our model in the contexts of either biopolymers or artificial nano-structures.

59 BASIC BIOLOGICAL SCIENCES↗