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DOE OSTI2023

BONCAT-FACS-Seq reveals the active fraction of a biocrust community undergoing a wet-up event

Determining which microorganisms are active within soil communities remains a major technical endeavor in microbial ecology research. One promising method to accomplish this is coupling bioorthogonal non-canonical amino acid tagging (BONCAT) with fluorescence activated cell sorting (FACS) which sorts cells based on whether or not they are producing new proteins. Combined with shotgun metagenomic sequencing (Seq), we apply this method to profile the diversity and potential functional capabilities of both active and inactive microorganisms in a biocrust community after being resuscitated by a simulated rain event. We find that BONCAT-FACS-Seq is capable of discerning the pools of active and inactive microorganisms, especially within hours of applying the BONCAT probe. The active and inactive components of the biocrust community differed in species richness and composition at both 4 and 21 h after the wetting event. The active fraction of the biocrust community is marked by taxa commonly observed in other biocrust communities, many of which play important roles in species interactions and nutrient transformations. Among these, 11 families within the Firmicutes are enriched in the active fraction, supporting previous reports indicating that the Firmicutes are key early responders to biocrust wetting. We highlight the apparent inactivity of many Actinobacteria and Proteobacteria through 21 h after wetting, and note that members of the Chitinophagaceae, enriched in the active fraction, may play important ecological roles following wetting. Based on the enrichment of COGs in the active fraction, predation by phage and other bacterial members, as well as scavenging and recycling of labile nutrients, appear to be important ecological processes soon after wetting. To our knowledge, this is the first time BONCAT-FACS-Seq has been applied to biocrust samples, and therefore we discuss the potential advantages and shortcomings of coupling metagenomics to BONCAT to intact soil communities such as biocrust. In all, by pairing BONCAT-FACS and metagenomics, we are capable of highlighting the taxa and potential functions that typifies the microbes actively responding to a rain event.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2025

In anaerobic reactors the microbial community structure depends on feed type, with no “keystone” species tied to COD removal

Two-stage anaerobic digestion (AD) systems provide treatment for high strength wastewater with high stability and performance. Encapsulation technology can intensify AD to facilitate the separation of the solids retention time from the hydraulic retention time (HRT), offering lower HRTs, smaller reactors, and high effluent quality. To support successful deployment, however, the encapsulated community must contain all the needed microorganisms for successful treatment and be flexible enough to treat a variety of wastewaters. Here, a two-stage system was investigated in which microbial cultures were enriched on various high-strength wastewaters in suspended flow-through systems to determine how feed type influenced performance and microbial community structure. The hypothesis was that specific genera, or so-called “keystone species” would positively correlate to organic carbon degradation for a given feed, enabling construction of a well-functioning community for encapsulation. Results showed that the number of total bacteria (as 16S rRNA gene copies) did not correlate to soluble chemical oxygen demand (sCOD) removal, indicating that the community structure and/or members were important for good performance. Results also showed that feed type strongly influenced carbon removal and microbial community structure for 1st-stage fermenting communities, but not 2nd-stage methanogenic communities. In this study, the “core” community members were defined as organisms common to all of either the 1st- or 2nd-stage reactors irrespective of the feed they received and were present in at least 50% of the samples throughout the entire experiment. “Unique” community members were specific to a single feed, and hence, only present in either the 1st- or 2nd-stage reactors receiving that feed. In both 1st- and 2nd-stage communities, only one core genera and no unique genera were positively and significantly correlated to sCOD removal. Verification experiments performed with encapsulated communities showed that organisms identified in flow-through system and correlated with carbon degradation, though not significantly, seemed to be important for performance. Our results suggest that one cannot construct a community containing specific populations in lieu of enrichment. Nevertheless, a single diverse encapsulated anaerobic community should provide good (>80%) carbon removal when fed a variety of influents, if time is provided for enrichment after deployment.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Rich Dynamics of a General Producer–Grazer Interaction Model under Shared Multiple Resource Limitations

Organism growth is often determined by multiple resources interdependently. However, growth models based on the Droop cell quota framework have historically been built using threshold formulations, which means they intrinsically involve single-resource limitations. In addition, it is a daunting task to study the global dynamics of these models mathematically, since they employ minimum functions that are non-smooth (not differentiable). To provide an approach to encompass interactions of multiple resources, we propose a multiple-resource limitation growth function based on the Droop cell quota concept and incorporate it into an existing producer–grazer model. The formulation of the producer’s growth rate is based on cell growth process time-tracking, while the grazer’s growth rate is constructed based on optimal limiting nutrient allocation in cell transcription and translation phases. We show that the proposed model captures a wide range of experimental observations, such as the paradox of enrichment, the paradox of energy enrichment, and the paradox of nutrient enrichment. Together, our proposed formulation and the existing threshold formulation provide bounds on the expected growth of an organism. Moreover, the proposed model is mathematically more tractable, since it does not use the minimum functions as in other stoichiometric models.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2023

Dynamic Reconfiguration of Switchgrass Proteomes in Response to Rust ( Puccinia novopanici ) Infection

Switchgrass (Panicum virgatum L.) can be infected by the rust pathogen (Puccinia novopanici) and results in lowering biomass yields and quality. Label-free quantitative proteomics was conducted on leaf extracts harvested from non-infected and infected plants from a susceptible cultivar (Summer) at 7, 11, and 18 days after inoculation (DAI) to follow the progression of disease and evaluate any plant compensatory mechanisms to infection. Some pustules were evident at 7 DAI, and their numbers increased with time. However, fungal DNA loads did not appreciably change over the course of this experiment in the infected plants. In total, 3830 proteins were identified at 1% false discovery rate, with 3632 mapped to the switchgrass proteome and 198 proteins mapped to different Puccinia proteomes. Across all comparisons, 1825 differentially accumulated switchgrass proteins were identified and subjected to a STRING analysis using Arabidopsis (A. thaliana L.) orthologs to deduce switchgrass cellular pathways impacted by rust infection. Proteins associated with plastid functions and primary metabolism were diminished in infected Summer plants at all harvest dates, whereas proteins associated with immunity, chaperone functions, and phenylpropanoid biosynthesis were significantly enriched. At 18 DAI, 1105 and 151 proteins were significantly enriched or diminished, respectively. Many of the enriched proteins were associated with mitigation of cellular stress and defense.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2021

As-Built Simulation of the High Flux Isotope Reactor

The Oak Ridge National Laboratory High Flux Isotope Reactor (HFIR) is an 85 MWt flux trap-type research reactor that supports key research missions, including isotope production, materials irradiation, and neutron scattering. The core consists of an inner and an outer fuel element containing 171 and 369 involute-shaped plates, respectively. The thin fuel plates consist of a U 3 O 8 -Al dispersion fuel (highly enriched), an aluminum-based filler, and aluminum cladding. The fuel meat thickness is varied across the width of the involute plate to reduce thermal flux peaks at the radial edges of the fuel elements. Some deviation from the designed fuel meat shaping is allowed during manufacturing. A homogeneity scan of each fuel plate checks for potential anomalies in the fuel distribution by scanning the surface of the plate and comparing the attenuation of the beam to calibration standards. While typical HFIR simulations use homogenized fuel regions, explicit models of the plates were developed under the Low-Enriched Uranium Conversion Program. These explicit models typically include one inner and one outer fuel plate with nominal fuel distributions, and then the plates are duplicated to fill the space of the corresponding fuel element. Therefore, data extracted from these simulations are limited to azimuthally averaged quantities. To determine the reactivity and physics impacts of an as-built outer fuel element and generate azimuthally dependent data in the element, 369 unique fuel plate models were generated and positioned. This model generates the three-dimensional (i.e., radial–axial–azimuthal) plate power profile, where the azimuthal profile is impacted by features within the adjacent control element region and beryllium reflector. For an as-built model of the outer fuel element, plate-specific homogeneity data, 235 U loading, enrichment, and channel thickness measurements were translated into the model, yielding a much more varied azimuthal power profile encompassed by uncertainty factors in analyses. These models were run with the ORNL-TN and Shift Monte Carlo tools, and they contained upwards of 500,000 cells and 100,000 unique tallies.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

DOE OSTI2022

Investigation of Nano-Scale Segregation in Nanostructured Ferritic Alloy 14YWT after Heavy Ion Irradiation

Oxide-dispersion-strengthened (ODS) steels, which contain nano-scale Y-Ti-O particles, are being considered for high-temperature radiation environments of nuclear reactors. It is important to accurately characterize the structure of grain boundaries and understand the behavior of segregation at grain boundaries in ODS steels during irradiation. The effect of heavy ion irradiation at 700 °C on Nanostructured Ferritic Alloy 14YWT was investigated using Atom Probe Tomography. Enrichment of Cr occurs at the grain boundaries as well as at nano oxide particle surfaces in the unirradiated sample. The enrichment of Ti and Y at a grain boundary corresponds with Y-Ti-O nano oxide particles with larger size compared to those in the grain, and the Cr enrichment is particularly accentuated at these larger nano oxide particles. The segregation of W occurs at the grain boundaries that are without nano oxide particles. O is segregated at grain boundaries without oxide particles after irradiation. The segregation behavior of Cr, W, Ti, and Y at the grain boundary in the irradiated samples is similar to that in the unirradiated sample. The nano oxide particles embedded in the grain boundary are a primary reason for the increase in Cr segregation at the grain boundary.

36 MATERIALS SCIENCE↗

DOE OSTI2020

Carbon–Oxygen Classical Novae Are Galactic 7 Li Producers as well as Potential Supernova Ia Progenitors

Here, we report on studies of classical nova (CN) explosions where we follow the evolution of thermonuclear runaways (TNRs) on carbon–oxygen (CO) white dwarfs (WDs). We vary both the mass of the WD (from 0.6 M ⊙ to 1.35 M ⊙ ) and the composition of the accreted material. Our simulations are guided by the results of multidimensional studies of TNRs in WDs, which find that sufficient mixing with WD core material occurs after the TNR is well underway, and levels of enrichment are reached that agree with observations of CN ejecta abundances. We use NOVA (our one-dimensional hydrodynamic code) to accrete solar matter until the TNR is ongoing and then switch to a mixed composition (either 25% WD material and 75% solar or 50% WD material and 50% solar). Because the amount of accreted material is inversely proportional to the initial 12 C abundance, by first accreting solar matter the amount of material taking part in the outburst is larger than in those simulations where we assume a mixed composition from the beginning. Our results show large enrichments of 7 Be in the ejected gases, implying that CO CNe may be responsible for a significant fraction (~100 M ⊙ ) of the 7 Li in the galaxy (~1000 M ⊙ ). Although the ejected gases are enriched in WD material, the WDs in these simulations eject less material than they accrete. We predict that the WD is growing in mass as a consequence of the accretion–outburst–accretion cycle, and CO CNe may be an important channel for SN Ia progenitors.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

DOE OSTI2020

Chemical Analysis of the Ultrafaint Dwarf Galaxy Grus II. Signature of High-mass Stellar Nucleosynthesis

We present a detailed abundance analysis of the three brightest member stars at the top of the giant branch of the ultrafaint dwarf (UFD) galaxy Grus II. All stars exhibit a higher than expected [Mg/Ca] ratio compared to metal-poor stars in other UFD galaxies and in the Milky Way (MW) halo. Nucleosynthesis in high-mass ( 20 M ⊙) core-collapse supernovae has been shown to create this signature. The abundances of this small sample (three) stars suggests the chemical enrichment of Grus II could have occurred through substantial high-mass stellar evolution, and is consistent with the framework of a top-heavy initial mass function. However, with only three stars it cannot be ruled out that the abundance pattern is the result of a stochastic chemical enrichment at early times in the galaxy. The most metal-rich of the three stars also possesses a small enhancement in rapid neutron-capture (r-process) elements. The abundance pattern of the r-process elements in this star matches the scaled r-process pattern of the solar system and r-process enhanced stars in other dwarf galaxies and in the MW halo, hinting at a common origin for these elements across a range of environments. All current proposed astrophysical sites of r-process element production are associated with high-mass stars, thus the possible top-heavy initial mass function of Grus II would increase the likelihood of any of these events occurring. The time delay between the α and r-process element enrichment of the galaxy favors a neutron star merger as the origin of the r-process elements in Grus II.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2024

Hydrodynamic Simulations of Oxygen–Neon Classical Novae as Galactic 7 Li Producers and Potential Accretion-induced Collapse Progenitors*

Abstract We report on studies of classical nova (CN) explosions where we follow the evolution of thermonuclear runaways (TNRs) on oxygen–neon (ONe) white dwarfs (WDs). Using NOVA, a 1D hydrodynamic computer code, we accrete solar matter until the TNR is ongoing and then switch to a mixed composition. This approach is guided by the results of multidimensional studies of TNRs in WDs, which find that sufficient mixing with WD core material occurs after the TNR is well underway, and levels of enrichment of the CNONeMg elements are reached that agree with observations of CN ejecta abundances. Because the amount of accreted material is inversely proportional to the oxygen abundance, by first accreting solar matter, the amount of accreted material is larger than in those simulations with an initially enriched composition. We vary the mass of the WD (from 0.6 M ⊙ to 1.35 M ⊙ ) and the composition of the mixed materials. Our results show large enrichments of 7 Be in the ejected gases, implying that ONe CNe and CO CNe may be responsible for a significant fraction (∼100 M ⊙ ) of the Galactic 7 Li (∼1000 M ⊙ ). The production of 22 Na and 26 Al in CN explosions and the γ -ray emission predicted by our simulations are discussed. The WDs in all our simulations eject less material than they accrete and we predict that the WD is growing in mass as a consequence of the CN outburst. ONe CNe, therefore, may be an important channel for accretion-induced collapse events.

Starrfield, Sumner (ORCID:0000000213596312)↗

DOE OSTI2023

Reconstructing atmospheric H 2 over the past century from bi-polar firn air records

Abstract. Historical atmospheric H2 levels were reconstructed using firn air measurements from two sites in Greenland (NEEM and Summit) and two sites in Antarctica (South Pole and Megadunes). A joint reconstruction based on the two Antarctic sites yields H2 levels monotonically increasing from about 330 ppb in 1900 to 550 ppb in the late 1990s, leveling off thereafter. These results are similar to individual reconstructions published previously (Patterson et al., 2020, 2021). Interpretation of the Greenland firn air measurements is complicated by challenges in modeling enrichment induced by pore close-off at these sites. We used observations of neon enrichment at NEEM and Summit to tune the parameterization of enrichment induced by pore close-off in our firn air model. The joint reconstruction from the Greenland data shows H2 levels rising 30 % between 1950 and the late 1980s, reaching a maximum of 530 ppb. After 1990, reconstructed atmospheric H2 levels over Greenland are roughly constant, with a small decline of 3 % over the next 25 years. The reconstruction shows good agreement with the available flask measurements of H2 at high northern latitudes.

Geology↗

DOE OSTI2024

Technical note: Optimizing the in situ cosmogenic 36 Cl extraction and measurement workflow for geologic applications

Abstract. In situ cosmogenic 36Cl analysis by accelerator mass spectrometry (AMS) is routinely employed to date Quaternary surfaces and assess rates of landscape evolution. However, standard laboratory preparation procedures for 36Cl dating require the addition of large amounts of isotopically enriched chlorine spike solution; these solutions are expensive and increasingly difficult to acquire from commercial sources. In addition, the typical workflow for 36Cl dating involves measuring both 35Cl/37Cl and 36Cl/Cl concurrently on the high-energy (post-accelerator) end of the AMS system, but 35Cl/37Cl determinations using this technique can be complicated by isotope fractionation and system memory during measurement. The traditional workflow also does not provide 36Cl extraction laboratories with the data needed to calculate native Cl concentrations in advance of 36Cl/Cl measurements. In light of these concerns, we present an improved workflow for extracting and measuring chlorine in geologic materials. Our initial step is to characterize 35Cl/37Cl on sample aliquots of up to ∼1 g prepared in Ag(Cl, Br) matrices, which greatly reduces the amount of isotopically enriched spike solution required to measure native Cl content in each sample. To avoid potential issues with isotope fractionation through the accelerator, 35Cl/37Cl is measured on the low-energy, pre-accelerator end of the AMS line. Then, for 36Cl/Cl measurements, we extract Cl as AgCl or Ag(Cl, Br) in analytical batches with a consistent total Cl load across all samples; this step is intended to minimize source memory effects during 36Cl/Cl measurements and allows the preparation of AMS standards that are customized to match known Cl contents in the samples. To assess the efficacy of this extraction and measurement workflow, we compare chlorine isotope ratio measurements on seven geologic samples prepared using standard procedures and the updated workflow. Measurements of 35Cl/37Cl and 36Cl/Cl are consistent between the two workflows, and 35Cl/37Cl values measured using our methods have considerably higher precision than those measured following standard protocols. The chemical preparation and measurement workflow presented here (1) reduces the amount of isotopically enriched chlorine spike used per rock sample by up to 95 %; (2) identifies rocks with high native Cl concentrations, which may be lower priority for 36Cl surface exposure dating, at an early stage of analysis; and (3) allows laboratory users to maintain control over the total chlorine content within and across analytical batches. These methods can be incorporated into existing laboratory and AMS protocols for 36Cl analyses and will increase the accessibility of 36Cl dating for geologic applications.

58 GEOSCIENCES↗

DOE OSTI2026

CAZyme domain architectures suggest fine-scale functional differentiation among anaerobic fungi and bacteria during lignocellulose conversion to volatile fatty acids

Anaerobic fermentation with microbial communities (microbiomes) is an emerging platform for conversion of lignocellulosic biomass to biofuels and bioproducts. The process relies on diverse anaerobic microbes that interact to deconstruct and convert lignocellulosic biomass into a range of products, such as volatile fatty acids (VFAs), which can be achieved by arresting methanogenesis during fermentation. However, defining the distinct functional roles played by various fungi and bacteria during anaerobic biodegradation remains poorly understood. Here, we performed parallel enrichment experiments from cow faeces, goat faeces, and anaerobic digester sludge, selecting for fungal or bacterial dominated communities that convert sorghum biomass into VFAs. Subsequently we reconstructed metabolic networks across these enrichments based on recovered bacterial metagenome-assembled genomes (MAGs) and fungal isolate genomes and profiled their metabolic activity using metatranscriptomics to identify potential functional niches. Our findings implicate diverse bacteria affiliated with the Bacteroidales and Lachnospiraceae in the direct conversion of lignocellulosic biomass to propionate and butyrate, respectively, whereas Neocallimastix-dominated fungal enrichments converted lignocellulose to lactate, acetate and formate. Analysis of carbohydrate-active enzymes (CAZymes) revealed fine-scale differences between microbes that expressed unique multi-functional enzymes linking two or more CAZymes together with distinct carbohydrate binding motifs, implicating lignocellulose structure as a key driver of selection and niche differentiation. Most of these multi-functional enzymes localized complementary degradation functions together, likely conferring synergistic degradation effects within and between microbiome members. We anticipate that these findings will help inform efforts to develop synthetic microbiomes with tailored functionality for low-cost conversion of lignocellulosic biomass to fuels and bio-based chemicals.

Lawson, Christopher E [University of Toronto;]↗

NASA NTRS1976

A status of progress for the Laser Isotope Separation (LIS) process

An overview of the Laser Isotope Separation (LIS) methodology is given together with illustrations showing a simplified version of the LIS technique, an example of the two-photon photoionization category, and a diagram depicting how the energy levels of various isotope influence the LIS process. Applications were proposed for the LIS system which, in addition to enriching uranium, could in themselves develop into programs of tremendous scope and breadth. These include the treatment of radioactive wastes from light-water nuclear reactors, enriching the deuterium isotope to make heavy-water, and enriching the light isotopes of such elements as titanium for aerospace weight-reducing programs. Economic comparisons of the LIS methodology with the current method of gaseous diffusion indicate an overwhelming advantage; the laser process promises to be 1000 times more efficient. The technique could also be utilized in chemical reactions with the tuned laser serving as a universal catalyst to determine the speed and direction of a chemical reaction.

Delionback, L. M.↗

NASA NTRS1975

Heavy particle emission of unusual composition from the sun

Sustained emission of low energy (0.6-4 MeV/nuc) solar particles with a composition richer in iron than in oxygen is observed in three time periods of 1974. The relative abundances of Ne, Mg, Si, and S-Ca to O are also enhanced as compared to those of the sun and of solar cosmic rays. During all three periods, a large H-3/H-4 isotope ratio was also observed; for two cases, it is in the order of unity. On the other hand, the d/H-4 and the T/He-4 are less than 0.04 and 0.02 respectively. The solar activity during the time periods of the reported emission was low. At present, it is not clear whether the emission processes which yielded enriched heavy ions also produced the He-3 enhancement. It seems that any explanation of heavy ion enrichments in solar cosmic rays has to explain also the He-3 enrichment.

Hovestadt, D.↗

NASA NTRS1976

Extralunar sulfur in Apollo 16 and 17 lunar fines

An evaluation of Apollo 16 and 17 lunar fines data by the use of mixing models demonstrates evidence of extralunar sulfur in the fines. Fines are enriched in sulfur with respect to their component rocks. The enrichment of sulfur in 25 Apollo 16 and 17 fines samples shows a positive correlation with a CC-1 like meteoritic component as estimated from siderophilic element concentrations. Mixing models were calculated with variations in mare basalt sulfur concentration values to account for possible variability in mare basalt contribution due to reduction and sulfur loss during flow implacement. Implantation of sulfur by meteoritic processes provides a source for sulfur during regolith maturation and a mechanism for exposure related enrichment in S-34.

Cripe, J. D.↗

NASA NTRS1977

'Mysterite' - A late condensate from the solar nebula

An attempt is made to clarify the nature of 'mysterite', a material that had been postulated to explain the overabundance of Tl, Bi, and Ag in certain chondrites. Four dark clasts and a vein sample from the H6 chondrite Supuhee were analyzed by radiochemical neutron activation analysis for Ag, Au, Bi, Br, Cd, Cs, Ge, In, Ir, Ni, Os, Rb, Re, Sb, Se, Te, Tl, and Zn. One of the clasts is enriched in all volatile elements, while the other four samples are enriched only in the siderophile volatiles Ag, Bi, and Tl. The enrichments range up to 100 times typical H6 chondrite abundances. The proportions of Ag, Bi, and Tl suggest the presence of at least two, Tl-rich and Tl-poor, varieties of mysterite. The former seems to dominate in Supuhee and Krymka, and the latter in Mezo-Madaras. Apparently mysterite is a late condensate from the solar nebula that collected volatiles left behind by earlier generations of chondrites. It was incorporated in Supuhee and perhaps in other chondrites (mainly of low petrologic types) during brecciation events.

Higuchi, H.↗

NASA NTRS1978

Noble gases in the Murchison meteorite - Possible relics of s-process nucleosynthesis

The Murchison carbonaceous chondrite contains a new type of xenon component, enriched by up to 50 percent in five of the nine stable xenon isotopes, mass numbers 128 to 132. This component is released at 1200 to 1600 C from a severely etched mineral fraction. Krypton shows a similar but smaller enrichment in the isotopes 80 and 82. Neon and helium released in the same interval also are quite anomalous, being highly enriched in the isotopes 22 and 3. These patterns are strongly suggestive of three nuclear processes believed to take place in red giants: the s process (neutron capture on a slow time scale), helium burning, and hydrogen shell burning. If this interpretation is correct, then primitive meteorites contain yet another kind of alien, presolar material: dust grains ejected from red giants.

Srinivasan, B.↗

NASA NTRS1975

Genetic relations between the moon and meteorites

The moon is shown to have an oxygen isotope distribution similar to that of the earth and the differentiated meteorites (achondrites, mesosiderites, pallasites, irons) but, according to the same criterion, the moon is unrelated to the ordinary chondrites or carbonaceous chondrites. The principal differences between the inferred chemical composition of the moon and that of chondritic meteorites is the depletion of volatile and semivolatile elements, the enrichment of uranium by a factor of 10-15, and the enrichment of the source regions of mare basalts in LIL elements by a factor of 5-10. The reported data support the theory that the moon was formed by the capture of differentiated meteorites. Volatile-element depletion and 'refractory' element enrichment are considered.

Clayton, R. N.↗