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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 145 records · Page 8
All sourcesNASA NTRSDOE OSTI
NASA NTRS2017

Isolators Including Main Spring Linear Guide Systems

Embodiments of isolators, such as three parameter isolators, including a main spring linear guide system are provided. In one embodiment, the isolator includes first and second opposing end portions, a main spring mechanically coupled between the first and second end portions, and a linear guide system extending from the first end portion, across the main spring, and toward the second end portion. The linear guide system expands and contracts in conjunction with deflection of the main spring along the working axis, while restricting displacement and rotation of the main spring along first and second axes orthogonal to the working axis.

Goold, Ryan↗
NASA NTRS2018

A Dual Spring Modeling Approach for Static and Fatigue Failure Assessments of Carbon/Epoxy Composite Sub-Elements

A dual spring model is developed for the static and fatigue damage predictions of laminates interface in composite structures. Stress concentrations can be induced by the defects formed in the fabrication or service process. A conventional S-N based fatigue damage model may not be accurate to predict the fatigue life of a structure with high stress concentration. With the dual spring model, static delamination failure can be simulated using springs of cohesive type material model while fatigue delamination development can be predicted using linear springs, where the crack driving force is computed based on virtual crack closure technique (VCCT). A Paris law type fatigue growth law with its mode mixity is applied for fatigue crack growth prediction. After verified using benchmark examples, including Double Cantilever Beam (DCB), End-Notched Flexure (ENF) and Mix-Mode Bending (MMB), the proposed dual spring model is applied in the static and fatigue damage prediction of NASA/Boeing sub-elements and UTC sub-elements.

Cui, Xiaodong↗
DOE OSTI2022

Predicting spring green-up across diverse North American grasslands

Vegetation phenology influences many ecosystem and climate processes, such as carbon uptake and energy and water cycles. Thus, understanding drivers of vegetation phenology is crucial for predicting current and future impacts of climate change on ecological systems. Existing models can accurately predict the date of spring green-up in temperate forests but tend to perform poorly in grassland systems. We hypothesize this is because most do not incorporate water availability, a primary limiting factor for grassland plants. In this study, we used long-term datasets of digital imagery from the PhenoCam Network of 43 diverse North American grassland sites (195 site-years) to test existing spring phenology models, as well as develop several new models that incorporate precipitation or soil moisture (53 models). As a result, most of the new models performed substantially better, with the best model requiring sufficient accumulated precipitation followed by warm temperatures to trigger spring onset (root mean square error, RMSE, between predicted and observed dates = 16.0 days). Importantly, the best model performed well across all grassland types using a single set of parameters, from temperate to arid grasslands. Since plants are adapted to their local climates, model performance was further improved when parameters were independently optimized for four separate climate regions (RMSE = 10.4 days). Therefore, both sufficient precipitation and temperature are required for grassland green-up, but optimal thresholds vary by region. Running the top model with projected climate data (representative concentration pathway 8.5) suggests that, depending on the climate region, spring onset will occur up to 12 days earlier within 100 years in temperature-limited sites, but the trend is unclear for precipitation-limited sites (3.5 ± 8.0 days later). This new phenology model improves our ability to understand and predict grassland dynamics, with implications for both current and future ecosystem processes related to carbon and water cycling.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2014

Optical spring effect in nanoelectromechanical systems

In this Letter, we report a hybrid system consisting of nano-optical and nano-mechanical springs, in which the optical spring effect works to adjust the mechanical frequency of a nanoelectromechanical systems resonator. Nano-scale folded beams are fabricated as the mechanical springs and double-coupled one-dimensional photonic crystal cavities are used to pump the “optical spring.” The dynamic characteristics of this hybrid system are measured and analyzed at both low and high input optical powers. This study leads the physical phenomenon of optomechanics in complex nano-opto-electro-mechanical systems (NOEMS) and could benefit the future applications of NOEMS in chip-level communication and sensing.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2021

Subsurface Characterization and Machine Learning Predictions at Brady Hot Springs Results

Geothermal power plants typically show decreasing heat and power production rates over time. Mitigation strategies include optimizing the management of existing wells - increasing or decreasing the fluid flow rates across the wells - and drilling new wells at appropriate locations. The latter is expensive, time-consuming, and subject to many engineering constraints, but the former is a viable mechanism for periodic adjustment of the available fluid allocations. Data and supporting literature from a study describing a new approach combining reservoir modeling and machine learning to produce models that enable strategies for the mitigation of decreased heat and power production rates over time for geothermal power plants. The computational approach used enables translation of sets of potential flow rates for the active wells into reservoir-wide estimates of produced energy and discovery of optimal flow allocations among the studied sets. In our computational experiments, we utilize collections of simulations for a specific reservoir (which capture subsurface characterization and realize history matching) along with machine learning models that predict temperature and pressure timeseries for production wells. We evaluate this approach using an "open-source" reservoir we have constructed that captures many of the characteristics of Brady Hot Springs, a commercially operational geothermal field in Nevada, USA. Selected results from a reservoir model of Brady Hot Springs itself are presented to show successful application to an existing system. In both cases, energy predictions prove to be highly accurate: all observed prediction errors do not exceed 3.68% for temperatures and 4.75% for pressures. In a cumulative energy estimation, we observe prediction errors that are less than 4.04%. A typical reservoir simulation for Brady Hot Springs completes in approximately 4 hours, whereas our machine learning models yield accurate 20-year predictions for temperatures, pressures, and produced energy in 0.9 seconds. This paper aims to demonstrate how the models and techniques from our study can be applied to achieve rapid exploration of controlled parameters and optimization of other geothermal reservoirs. Includes a synthetic, yet realistic, model of a geothermal reservoir, referred to as open-source reservoir (OSR). OSR is a 10-well (4 injection wells and 6 production wells) system that resembles Brady Hot Springs (a commercially operational geothermal field in Nevada, USA) at a high level but has a number of sufficiently modified characteristics (which renders any possible similarity between specific characteristics like temperatures and pressures as purely random). We study OSR through CMG simulations with a wide range of flow allocation scenarios. Includes a dataset with 101 simulated scenarios that cover the period of time between 2020 and 2040 and a link to the published paper about this project, where we focus on the Machine Learning work for predicting OSR's energy production based on the simulation data, as well as a link to the GitHub repository where we have published the code we have developed (please refer to the repository's readme file to see instructions on how to run the code). Additional links are included to associated work led by the USGS to identify geologic factors associated with well productivity in geothermal fields. Below are the high-level steps for applying the same modeling + ML process to other geothermal reservoirs: 1. Develop a geologic model of the geothermal field. The location of faults, upflow zones, aquifers, etc. need to be accounted for as accurately as possible 2. The geologic model needs to be converted to a reservoir model that can be used in a reservoir simulator, such as, for instance, CMG STARS, TETRAD, or FALCON 3. Using native state modeling, the initial temperature and pressure distributions are evaluated, and they become the initial conditions for dynamic reservoir simulations 4....

15 GEOTHERMAL ENERGY↗
DOE OSTI2016

Is there a geomorphic expression of interbasin groundwater flow in watersheds? Interactions between interbasin groundwater flow, springs, streams, and geomorphology.

Interbasin groundwater flow (IGF) can play a significant role in the generation and geochemical evolution of streamflow. However, it is exceedingly difficult to identify IGF, and to determine the location and quantity of water that is exchanged between watersheds. How does IGF affect landscape/watershed geomorphic evolution? Can geomorphic metrics be used to identify the presence of IGF? We examine these questions in two adjacent sedimentary watersheds in northern New Mexico using a combination of geomorphic/landscape metrics, springflow residence times, and spatial geochemical patterns. IGF is expressed geomorphically in the landscape placement of springs, and flow direction and shape of stream channels. Springs emerge preferentially on one side of stream valleys where landscape incision has intercepted IGF flowpaths. Stream channels grow toward the IGF source and show little bifurcation. In addition, radiocarbon residence times of springs decrease and the geochemical composition of springs changes as the connection to IGF is lost.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Abundance of spring‐ and winter‐active arthropods declines with warming

Abstract Because ectotherm activity and metabolism are sensitive to temperature, terrestrial arthropods may be especially responsive to ongoing climatic warming. Here, we quantified responses of arthropod abundance to two years of warming in an outdoor temperature manipulation experiment at Duke Forest, North Carolina, USA. Nine open‐top chambers were individually heated year‐round from 1.5° to 5.5°C above ambient temperature. From two years of monthly pitfall trapping, we collected and identified 4,468 arthropods representing 24 orders. We initially predicted that arthropods would experience the greatest negative effects of experimental warming during the summer months, when temperatures reach their yearly maximum and arthropods may be close to their maximum thermal tolerance limits. Instead, we found that the strongest negative effects on arthropod abundance occurred during the winter and spring, when ambient temperatures are relatively cooler, whereas the effects of experimental warming on abundance were not significant during the summer or fall. During the spring of 2012, the warmest spring on record for the southeastern USA, total arthropod abundance declined 20% per °C of experimental warming. Abundance declines were driven largely by flies (Diptera), which were the most abundant insect order, representing approximately a third of all arthropods collected. The most abundant arthropod family, Mycetophilidae (fungus gnats), declined 64% per °C of warming during the spring of 2012. Although previous research on climatic warming has focused on the impact of maximum yearly temperatures on organismal performance, our results are more consistent with the cool‐season sensitivity hypothesis, which posits that arthropods adapted for cooler conditions are likely to face the strongest negative effects of warming during the cooler seasons.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Using long‐term data from a whole ecosystem warming experiment to identify best spring and autumn phenology models

Abstract Predicting vegetation phenology in response to changing environmental factors is key in understanding feedbacks between the biosphere and the climate system. Experimental approaches extending the temperature range beyond historic climate variability provide a unique opportunity to identify model structures that are best suited to predicting phenological changes under future climate scenarios. Here, we model spring and autumn phenological transition dates obtained from digital repeat photography in a boreal Picea ‐ Sphagnum bog in response to a gradient of whole ecosystem warming manipulations of up to +9°C, using five years of observational data. In spring, seven equally best‐performing models for Larix utilized the accumulation of growing degree days as a common driver for temperature forcing. For Picea , the best two models were sequential models requiring winter chilling before spring forcing temperature is accumulated. In shrub, parallel models with chilling and forcing requirements occurring simultaneously were identified as the best models. Autumn models were substantially improved when a CO 2 parameter was included. Overall, the combination of experimental manipulations and multiple years of observations combined with variation in weather provided the framework to rule out a large number of candidate models and to identify best spring and autumn models for each plant functional type.

Schädel, Christina↗
DOE OSTI2020

Deconstruction of plant biomass by a Cellulomonas strain isolated from an ultra-basic (lignin-stripping) spring

Plant material falling into the ultra-basic (pH 11.5-11.9) springs within The Cedars, an actively serpentinizing site in Sonoma County, California, is subject to conditions that mimic the industrial pretreatment of lignocellulosic biomass for biofuel production. In this research, we sought to obtain hemicellulolytic/cellulolytic bacteria from The Cedars springs that are capable of withstanding the extreme alkaline conditions wherein calcium hydroxide-rich water removes lignin, making cell wall polysaccharides more accessible to microorganisms and their enzymes. We enriched for such bacteria by adding plant debris from the springs into a synthetic alkaline medium with ground tissue of the biofuel crop switchgrass (Panicum virgatum L.) as the sole source of carbon. From the enrichment culture we isolated the facultative anaerobic bacterium Cellulomonas sp. strain FA1 (NBRC 114238), which tolerates high pH and catabolizes the major plant cell wall-associated polysaccharides cellulose, pectin, and hemicellulose. Strain FA1 in monoculture colonized the plant material and degraded switchgrass at a faster rate than the community from which it was derived. Cells of strain FA1 could be acclimated through subculturing to grow at a maximal concentration of 13.4% ethanol. A strain FA1-encoded β-1, 4-endoxylanase expressed in E. coli was active at a broad pH range, displaying near maximal activity at pH 6-9. Discovery of this bacterium illustrates the value of extreme alkaline springs in the search for microorganisms with potential for consolidated bioprocessing of plant biomass to biofuels and other valuable bio-inspired products.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2019

Mechanisms causing east Australian spring rainfall differences between three strong El Niño events

Strong El Niño events have had significant impacts on society through their association with extreme events, such as droughts and floods. However, questions remain as to the robustness of strong El Niño events in forcing regional climate variability. The strong 1982, 1997 and 2015 El Niño events were of similar type and strength, but in eastern Australia they were associated with differing spring rainfall anomaly magnitudes and patterns. To understand these differences, we first determined the most important processes for teleconnecting the El Niño signal to east Australian spring rainfall using historical relationships with winds and sea level pressure. Then, using a 60-member atmospheric model ensemble, we estimated the influence of sea surface temperatures (SSTs) on Australian atmospheric circulation and rainfall during these three El Niño events relative to internal variability. We found that the different east Australian spring rainfall anomalies for each of the three El Niño events are best explained by differences in the strength of the meridional wind component of the regional circulation. All three El Niño events exhibited a positive sea level pressure anomaly to the south of Australia, which was associated with rainfall deficits along the southeast Australian coast. The experiments indicate the regional atmospheric circulation and rainfall differences were forced by SSTs during spring of 1982 and 1997, with their influence on the circulation in 2015 remaining unclear. We also show that SSTs adjacent to Australia further contributed to the modelled rainfall differences mainly by regulating moisture availability.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2013

Modeling Study of the Effect of Anthropogenic Aerosols on Late Spring Drought in South China

In this study, the mechanisms underlying the decadal variability of late spring precipitation in south China are investigated using the latest version 1 of Community Earth System Model (CESM1). We aim to unravel the effects of different climate forcing agents, such as aerosols and greenhouse gases (GHGs), on the decadal variation of precipitation with transient experiments from pre-industry (for year 1850) to present-day (for year 2000). Our results reveal that: (1) CESM1 can reproduce the climatological features of atmospheric circulation and precipitation for the late spring in south China; (2) Only simulations including the forcing of anthropogenic aerosols can reproduce the observed decreasing trend of late spring precipitation from 1950-2000 in south China; (3) Aerosols affect the decadal change of precipitation mainly by altering the large scale atmospheric circulation, and to a less extent by increasing the lower-tropospheric stability to inhibit the convective precipitation; and (4) In comparison, other climate forcing agents, such as GHGs, have much smaller effects on the decadal change of spring precipitation in south China. Key words: precipitation, aerosols, climate change, south China, Community Earth System Model

Anthropogenic aerosols↗
DOE OSTI2025

Nitrogen fixation in Pampinifervens , a new species-rich genus of Aquificaceae that inhabits a wide pH range in terrestrial hot springs

Members of the Aquificota play important roles in hydrogen, sulfur, and carbon cycles in geothermal systems as ubiquitous and abundant chemolithoautotrophs; however, their roles in the nitrogen cycle are poorly defined. Here, we show that Aquificaceae isolate T-2 T from Tengchong, China, fixes nitrogen based on growth with dinitrogen as the sole nitrogen source and incorporation of 15 N atoms when grown with 15 N 2 . We further show evidence that suggests its nitrogen fixation (nif) genes are transcribed in situ in a nearby spring. We propose the name Pampinifervens diazotrophicum gen. et sp. nov., with strain T-2 T (= JCM 35475 T = DSM 116324 T ) as the nomenclatural type. Its close relative designated Pampinifervens florentissimum sp. nov. T-8 T (= CGMC 1.5214 T = JCM 33569 T ) does not fix nitrogen but respires nitrate. Analysis of 104 metagenome-assembled genomes from 84 metagenomes allowed us to circumscribe the genus Pampinifervens and identify at least 16 sympatric Pampinifervens species that dominate the Aquificaceae populations in diverse hot springs in southwest China, with distinct species globally. Analysis of these Pampinifervens genomes revealed variable presence of nif and denitrification genes and frequent gene loss and horizontal transfer. Genes for pH homeostasis were also present in Pampinifervens genomes, with a proliferation in species from Tengchong, consistent with the wide pH growth range of both Pampinifervens isolates and the prevalence of Pampinifervens in both alkaline and acidic springs. The dynamic evolution of nif and denitrification genes, along with pH homeostasis genes, may facilitate the diversification of Pampinifervens into diverse springs with different nitrogen availability.

Aquificae↗
DOE OSTI2018

Spring Onset Predictability in the North American Multimodel Ensemble

Abstract The predictability of spring onset is assessed using an index of its interannual variability (the “extended spring index” or SI‐x) and output from the North American Multimodel Ensemble reforecast experiment. The input data to compute SI‐x were treated with a daily joint bias correction approach, and the SI‐x outputs computed from the North American Multimodel Ensemble were postprocessed using an ensemble model output statistic approach—nonhomogeneous Gaussian regression. This ensemble model output statistic approach was used to quantify the effects of training period length and ensemble size on forecast skill. The lead time for predicting the timing of spring onset is found to be from 10 to 60 days, with the higher end of this range located along a narrow band between 35°N to 45°N in the eastern United States. Using continuous rank probability scores and skill score (SS) thresholds, this study demonstrates that ranges of positive predictability of SI‐x fall into two categories: 10–40 and 40–60 days. Using higher skill thresholds (SS equal to 0.1 and 0.2), predictability is confined to a lower range with values around 10–30 days. The postprocessing work using joint bias correction improves the predictive skill for SI‐x relative to the untreated input data set. Using nonhomogeneous Gaussian regression, a positive change in the SS is noted in regions where the skill with joint bias correction shows evidence of improvement. These findings suggest that the start of spring might be predictable on intraseasonal time horizons, which in turn could be useful for farmers, growers, and stakeholders making decisions on these time scales.

Carrillo, Carlos M.↗
DOE OSTI2021

Tower-Based Remote Sensing Reveals Mechanisms Behind a Two-phased Spring Transition in a Mixed-Species Boreal Forest

The boreal forest is a major contributor to the global climate system, therefore, reducing uncertainties in how the forest will respond to a changing climate is critical. One source of uncertainty is the timing and drivers of the spring transition. Remote sensing can provide important information on this transition, but persistent foliage greenness, seasonal snow cover, and a high prevalence of mixed forest stands (both deciduous and evergreen species) complicate interpretation of these signals. We collected tower-based remotely sensed data (reflectance-based vegetation indices and Solar-Induced Chlorophyll Fluorescence [SIF]), stem radius measurements, gross primary productivity, and environmental conditions in a boreal mixed forest stand. Evaluation of this data set shows a two-phased spring transition. The first phase is the reactivation of photosynthesis and transpiration in evergreens, marked by an increase in relative SIF, and is triggered by thawed stems, warm air temperatures, and increased available soil moisture. The second phase is a reduction in bulk photoprotective pigments in evergreens, marked by an increase in the Chlorophyll-Carotenoid Index. Deciduous leaf-out occurs during this phase, marked by an increase in all remotely sensed metrics. The second phase is controlled by soil thaw. Our results demonstrate that remote sensing metrics can be used to detect specific physiological changes in boreal tree species during the spring transition. The two-phased transition explains inconsistencies in remote sensing estimates of the timing and drivers of spring recovery. Our results imply that satellite-based observations will improve by using a combination of vegetation indices and SIF, along with species distribution information.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

A complete spectroscopic catalogue of local galaxies in the northern spring sky: Gas properties and nuclear activity in different environments

With the aim of providing the complete demography of galaxies in the local Universe, including their nuclear properties, we present SPRING, a complete census of local galaxies limited to the spring quarter of the northern sky (10h < RA < 16h; 0° < Dec < 65°). The SPRING catalogue is a flux- and volume-limited sample (r < 17.7 mag, cz < 10 000 km s -1 ) of 30 597 galaxies, including the Virgo, Coma, and A1367 clusters. Images and spectra were individually examined to clear the sample from unwanted entries. To inspect possible secular and environmental dependencies of the various nuclear excitation properties (star-forming versus active nuclei), we performed a multi-dimensional analysis by dividing the total sample according to: (i) their position in the (NUV - i) versus M star diagram, (ii) the local galaxy density, (iii) the stellar mass, (iv) the halo mass of the group to which galaxies belong, and (v) the neutral hydrogen content. We present a new calibration of the optical diameter-based H I-deficiency parameter H I def , employing a reference sample of isolated galaxies extracted from SPRING. At intermediate distances between Virgo and Coma, we identify a ring-like structure of galaxies constituted by three large filaments, each with a length of approximately 20h -1 Mpc, mostly composed of blue-cloud galaxies with stellar masses M star ≲ 10 10 M ⊙ . The fraction of H I-deficient galaxies within the filament (~30%) suggests that filaments are a transitioning environment between lower- and higher-overdensity environments in terms of H I content, as we find a clear progression from field galaxies to the filament and cluster galaxies for an increasing H I def parameter. We classify the nuclear spectra according to the four-line Baldwin-Phillips-Terlevich (BPT) and the two-line EWHα versus [NII]/Hα (WHAN) diagnostic diagrams, and investigate the variation in the fraction of active nuclei hosts with stellar mass, as well as their colours and environments. We observe that the fraction of low-ionisation nuclear emitting regions (LINERs) is a steep function of stellar mass, for example, it is consistent with zero up to M star ≲ 10 9.5 M ⊙ and becomes ~40% for M star ≳ 101 0.5 M ⊙ , whereas, for M star ≲ 10 9 - 9.5 M ⊙ , almost the entire spectroscopic sample is constituted of galaxies with star-forming nuclei. We investigate whether the nuclear-excitation fractions depend predominantly on the stellar mass or, conversely, on the galaxy environment. In general, we observe that the mass dependence of the fraction of Seyfert nuclei is not very sensitive to the galaxy environment, whereas the fraction of star-forming nuclei is a steeper function of stellar mass in lower-density environments and in blue-cloud galaxies. We find that the fraction of LINERs depends on galaxy colour and, for M star ≳ 10 9.5 - 10 M ⊙ , increases in galaxies belonging to the green valley.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2015

The energy of naturally curved elastic rods with an application to the stretching and contraction of a free helical spring as a model for DNA

We give a contemporary and direct derivation of a classical, but insufficiently familiar, result in the theory of linear elasticity—a representation for the energy of a stressed elastic rod with central axis that intrinsically takes the shape of a general space curve. We show that the geometric torsion of the space curve, while playing a crucial role in the bending energy, is physically unrelated to the elastic twist. We prove that the twist energy vanishes in the lowest-energy states of a rod subject to constraints that do not restrict the twist. The stretching and contraction energies of a free helical spring are computed. There are local high-energy minima. We show the possibility of using the spring to model the chirality of DNA. We then compare our results with an available atomic level energy simulation that was performed on DNA unconstrained in the same sense as the free spring. We find some possible reflections of springlike behavior in the mechanics of DNA, but, unsurprisingly, the base pairs lend a material substance to the core of DNA that a spring does not capture.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2012

Causes of spring vegetation growth trends in the northern mid–high latitudes from 1982 to 2004

The Community Land Model version 4 (CLM4) is applied to explore the spatial–temporal patterns of spring (April–May) vegetation growth trends over the northern mid–high latitudes (NMH) (>25°N) between 1982 and 2004. During the spring season through the 23 yr period, both the satellite-derived and simulated normalized difference vegetation index (NDVI) anomalies show a statistically significant correlation and an overall greening trend within the study area. Consistently with the observed NDVI–temperature relation, the CLM4 NDVI shows a significant positive association with the spring temperature anomaly for the NMH, North America and Eurasia. Large study areas experience temperature discontinuity associated with contrasting NDVI trends. Before and after the turning point (TP) of the temperature trends, climatic variability plays a dominant role, while the other environmental factors exert minor effects on the NDVI tendencies. Simulated vegetation growth is broadly stimulated by the increasing atmospheric CO 2 . Trends show that nitrogen deposition increases NDVI mostly in southeastern China, and decreases NDVI mainly in western Russia after the temperature TP. Furthermore, land use-induced NDVI trends vary roughly with the respective changes in land management practices (crop areas and forest coverage). Furthermore, our results highlight how non-climatic factors mitigate or exacerbate the impact of temperature on spring vegetation growth, particularly across regions with intensive human activity.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2015

Single-Cell-Genomics-Facilitated Read Binning of Candidate Phylum EM19 Genomes from Geothermal Spring Metagenomes

Here, the vast majority of microbial life remains uncatalogued due to the inability to cultivate these organisms in the laboratory. This “microbial dark matter” represents a substantial portion of the tree of life and of the populations that contribute to chemical cycling in many ecosystems. In this work, we leveraged an existing single-cell genomic data set representing the candidate bacterial phylum “ Calescamantes ” (EM19) to calibrate machine learning algorithms and define metagenomic bins directly from pyrosequencing reads derived from Great Boiling Spring in the U.S. Great Basin. Compared to other assembly-based methods, taxonomic binning with a read-based machine learning approach yielded final assemblies with the highest predicted genome completeness of any method tested. Read-first binning subsequently was used to extract Calescamantes bins from all metagenomes with abundant Calescamantes populations, including metagenomes from Octopus Spring and Bison Pool in Yellowstone National Park and Gongxiaoshe Spring in Yunnan Province, China. Metabolic reconstruction suggests that Calescamantes are heterotrophic, facultative anaerobes, which can utilize oxidized nitrogen sources as terminal electron acceptors for respiration in the absence of oxygen and use proteins as their primary carbon source. Despite their phylogenetic divergence, the geographically separate Calescamantes populations were highly similar in their predicted metabolic capabilities and core gene content, respiring O 2 , or oxidized nitrogen species for energy conservation in distant but chemically similar hot springs.

59 BASIC BIOLOGICAL SCIENCES↗