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DOE OSTI2025

Quorum sensing modulates microbial community structure through regulation of secondary metabolites

Bacteria are recognized for their diverse metabolic capabilities, yet the impact of microbe-microbe interactions on multispecies community structure and dynamics is poorly understood. Cell-to-cell signaling in the form of quorum sensing (QS) often regulates secondary metabolite production and microbial interactions. Here, we examine how acylhomoserine lactone (AHL)-mediated QS impacts microbial community structure in a 10-member synthetic community of isolates from Populus deltoides . To explore the role of QS in microbial community structure and dynamics, we disrupted AHL signaling by exogenous addition of AiiA-lactonase, an enzyme that cleaves the lactone ring. Microbial community structure resulting from signal inactivation, as measured by 16S rRNA amplicon sequencing and secondary metabolite production, was assessed after successive passaging of the community. Further, we investigated the impact of quorum quenching on specific microbe-microbe interactions using pairwise inhibition assays. Our results indicate that AHL inactivation alters the relative abundance of dominant community members at later passages but does not impact the overall membership in the community. Quorum quenching significantly alters the metabolic profile in lactonase-treated communities. This metabolic alteration impacts microbe-microbe interactions through decreased inhibition of other community members. Together, these results indicate that QS impacts microbial community structure through the regulation of secondary metabolites in dominant members and that the membership of microbial communities can be relatively stable despite changes in metabolic profiles.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS2011

Space Radiation Effects on Human Cells: Modeling DNA Breakage, DNA Damage Foci Distribution, Chromosomal Aberrations and Tissue Effects

Future long-tem space travel will face challenges from radiation concerns as the space environment poses health risk to humans in space from radiations with high biological efficiency and adverse post-flight long-term effects. Solar particles events may dramatically affect the crew performance, while Galactic Cosmic Rays will induce a chronic exposure to high-linear-energy-transfer (LET) particles. These types of radiation, not present on the ground level, can increase the probability of a fatal cancer later in astronaut life. No feasible shielding is possible from radiation in space, especially for the heavy ion component, as suggested solutions will require a dramatic increase in the mass of the mission. Our research group focuses on fundamental research and strategic analysis leading to better shielding design and to better understanding of the biological mechanisms of radiation damage. We present our recent effort to model DNA damage and tissue damage using computational models based on the physics of heavy ion radiation, DNA structure and DNA damage and repair in human cells. Our particular area of expertise include the clustered DNA damage from high-LET radiation, the visualization of DSBs (DNA double strand breaks) via DNA damage foci, image analysis and the statistics of the foci for different experimental situations, chromosomal aberration formation through DSB misrepair, the kinetics of DSB repair leading to a model-derived spectrum of chromosomal aberrations, and, finally, the simulation of human tissue and the pattern of apoptotic cell damage. This compendium of theoretical and experimental data sheds light on the complex nature of radiation interacting with human DNA, cells and tissues, which can lead to mutagenesis and carcinogenesis later in human life after the space mission.

Ponomarev, A. L.↗

DOE OSTI2024

Spinodal enhancement of fluctuations in nucleus-nucleus collisions

Subensemble Acceptance Method (SAM) [1, 2] is an essential link between measured event-by-event fluctuations and their grand canonical theoretical predictions such as lattice QCD. The method allows quantifying the global conservation law effects in fluctuations. In its basic formulation, SAM requires a sufficiently large system such as created in central nucleus-nucleus collisions and sufficient space-momentum correlations. Directly in the spinodal region of the First Order Phase Transition (FOPT) different approximations should be used that account for finite size effects. Thus, we present the generalization of SAM applicable in both the pure phases, metastable and unstable regions of the phase diagram [3]. Obtained analytic formulas indicate the enhancement of fluctuations due to crossing the spinodal region of FOPT and are tested using molecular dynamics simulations. A rather good agreement is observed. Using transport model calculations with interaction potential we show that the spinodal enhancement of fluctuations survives till the later stages of collision via the memory effect [4]. However, at low collision energies the space-momentum correlation is not strong enough for this signal to be transferred to second and third order cumulants measured in momentum subspace. This result agrees well with recent HADES data on proton number fluctuations at $\sqrt{S_{NN}}$ = 2.4 GeV which are found to be consistent with the binomial momentum space acceptance [5].

Poberezhnyuk, Roman↗

NASA NTRS1982

Linkage between gravity perception and response in the grass leaf-sheath pulvinus

Cellulose synthesis inhibitors 2,6-dichlorobenzonitrile and coumarin inhibit the normal gravitropic response of the leaf-sheath pulvini in several grasses. These inhibitors induce thickenings that are mostly distributed in the radial walls. Their distribution patterns follow a previously published equation that describes the geometry of asymmetric growth in the leaf-sheath pulvinus. It is proposed that radial transport of growth promotors may account for the observed asymmetric growth rather than the classical concept of lateral downward transport in an horizontally placed shoot. Electron microscopic observation of an interaction between the tonoplast membrane and statoliths suggests that such an interaction might be a basis for gravity perception in grass leaf-sheath pulvini.

Dayanandan, P.↗

NASA NTRS2023

Fluid Inclusions in Extraterrestrial Samples: Failures, Successes, Possibilities, and A Note of Caution

Over the past half century the search for life in the solar system and beyond has become a major research focus, with much effort devoted to finding evidence for liquid H2O and reduced carbon-bearing (organic) species in extraterrestrial samples. The most direct and convincing evidence for the presence of water and organic molecules is provided by fluid inclusions (FI)trapped in minerals that formed on the parent bodies. Beginning in the 1970s, reports of FI in extraterrestrial samples generated much enthusiasm within the planetary sciences community. However, many of the reported FI were determined to be artifacts of sample preparation, or incomplete characterization of features that appear to be FI, or were inconsistent with the inferred PT history of the meteorite sample. An early report of aqueous (and hydrocarbon-bearing) FI in stony meteorites and the subsequent follow-up study that showed that most or all of the “FI” contained water used during cutting and polishing of the samples led to a general unwillingness to believe later reports of FI in meteorites. One of the first confirmed occurrences of extraterrestrial aqueous (liquid) fluid inclusions in a meteorite was reported by Zolensky et al. (1999; Science), who described aqueous inclusions in halite in the Monahans and later the Zag meteorites. These meteorite falls were collected shortly after landing on earth and were prepared without using water or other fluids that could introduce artifacts. The oxygen and hydrogen isotopic composition of water in FI in these same samples was later measured, showing that the fluids represent various degrees of water-rock interaction on the parent body .In more recent years, careful studies of FI trapped in extraterrestrial samples combining synchrotron X-ray computed tomography to locate FI in samples followed by cryo-TOF-SIMS analysis of the FI have identified the presence of molecular fragments suggesting the presence of H2O and various organic molecules in the fluids. Challenges associated with studying FI in extraterrestrial samples include the limited abundance of potential host phases for FI, such as carbonates and phosphates, the often poor optical quality of the host phases, and the small size of the FI, with few as large as 5 microns and most less than 1-2 microns in maximum dimension

Robert Bodnar↗

DOE OSTI2025

EVT 16s Data and Large Supplementary Files

Soil microorganisms often interact to carry out decomposition of complex organic carbon and nitrogen compounds, such as chitin, but the high diversity and complexity of the soil microbiome and habitat has posed a challenge to elucidating such interactions between soil microorganisms. Here, we seek to address this challenge through analysis of a model soil consortium (MSC-2) of eight soil bacterial species. Our aim was to elucidate specific roles of the member species during chitin metabolism. Samples were collected from MSC-2 incubated in chitin-enriched soil over three months. Multi-omics was used to understand how the community composition, transcripts, proteins and chitin decomposition shifted over time. The data clearly and consistently revealed a temporal shift during chitin decomposition with defined contributions by individual species. A Streptomyces genus member (sp001905665) was a key player in early steps of chitin decomposition, with other MSC-2 members being central in carrying out later steps. These results illustrate how multi-omics applied to a defined consortium untangles interactions between soil microorganisms.

McClure, Ryan [Pacific Northwest National Laborato↗

NASA NTRS1987

Two-phase measurements of a spray in the wake of a bluff body

The dynamics of spray drop interaction with the turbulent, recirculating wake of a flat disk bluff body were investigated using a phase Doppler particle analyzer to determine drop size and velocity and the gas-phase velocity. Detailed measurements obtained included spray drop size, axial and radial velocity, angle of trajectory, and size-velocity correlations. The gas-phase velocity was determined from seeding of the two-phase flow. Results showed dramatic differences in drop behavior for various size classes when interacting with the turbulent flow field. Small drops were quickly entrained and recirculated, while initially, the larger drops continued in the general direction of the spray cone. Further downstream, significant numbers of large drops recirculated, generating a bifurcated size-velocity correlation. These lateral convections and streamwise accelerations and decelerations strongly influenced the number density along with size and velocity distributions. The complex interaction of the spray with the turbulent air-flow points out the need for spatially-resolved measurements that determine drop behavior for individual size classes, rather than characterizing a spray only via simple integral quantities such as the Sauter mean diameter.

Rudoff, R. C.↗

NASA NTRS1999

The timing of galvanic vestibular stimulation affects responses to platform translation

We compared the effects of galvanic vestibular stimulation applied at 0, 0.5, 1.5 and 2.5 s prior to a backward platform translation on postural responses. The effect of the galvanic stimulation was largest on the final equilibrium position of the center of pressure (CoP). The largest effects occurred for the 0.5 and 0-s pre-period, when the dynamic CoP pressure changes in response to both the galvanic stimulus and the platform translation coincided. The shift in the final equilibrium position was also larger than the sum of the shifts for the galvanic stimulus and the platform translation alone for the 0.5 and 0-s pre-periods. The initial rate of change of the CoP response to the platform translation was not significantly affected in any condition. Changes in the peak CoP position could be accounted for by local interaction of CoP velocity changes induced by the galvanic and translation responses alone, but the changes in final equilibrium position could only be accounted for by a change in global body orientation. These findings suggest that the contribution of vestibulospinal information is greatest during the dynamic phase of the postural response, and that the vestibular system contributes most to the later components of the postural response, particularly to the final equilibrium position. These findings suggest that a nonlinear interaction between the vestibular signal induced by the galvanic current and the sensory stimuli produced by the platform translation occurs when the two stimuli are presented within 1 s, during the dynamic phase of the postural response to the galvanic stimulus. When presented at greater separations in time, the stimuli appear to be treated as independent events, such that no interaction occurs. Copyright 1999 Elsevier Science B.V.

Non-NASA Center↗

NASA NTRS1986

Pristine lunar glasses - Criteria, data, and implications

The examination of glasses from all of the Apollo landing sites has led to the identification of 25 groups of pristine glass. The nickel found in these glasses is shown to be indigenous, not meteoritic contamination, and to be correlated with Mg. Chemical data indicate that these glasses are more suitable for primary magma than most crystalline mare basalts. In addition, these pristine glasses support the view that assimilative processes involving two cumulative systems in the differentiated mantle operated during mare petrogenesis. Two linear arrays found among the chemistries of the glasses attest to the existence of these interactions. Data suggest that these cumulate components in the mantle continue for 1000 km (laterally) and therefore are likely to be products of a magma ocean that existed early in lunar history.

Delano, J. W.↗

NASA NTRS2020

The Atacama Cosmology Telescope: arcminute-resolution maps of 18,000 square degrees of the microwave sky from ACT 2008-2018 data combined with Planck

This paper presents a maximum-likelihood algorithm for combining sky maps with disparate sky coverage, angular resolution and spatially varying anisotropic noise into a single map of the sky. We use this to merge hundreds of individual maps covering the 2008–2018 ACT observing seasons, resulting in by far the deepest ACT maps released so far. We also combine the maps with the full Planck maps, resulting in maps that have the best features of both Planck and ACT: Planck’s nearly white noise on intermediate and large angular scales and ACT’s high-resolution and sensitivity on small angular scales. The maps cover over 18 000 square degrees, nearly half the full sky, at 100, 150 and 220 GHz. They reveal 4 000 optically-confirmed clusters through the Sunyaev Zel’dovich effect (SZ) and 18 500 point source candidates at > 5σ, the largest single collection of SZ clusters and millimeter wave sources to date. The multi-frequency maps provide millimeter images of nearby galaxies and individual Milky Way nebulae, and even clear detections of several nearby stars. Other anticipated uses of these maps include, for example, thermal SZ and kinematic SZ cluster stacking, CMB cluster lensing and galactic dust science. The method itself has negligible bias. However, due to the preliminary nature of some of the component data sets, we caution that these maps should not be used for precision cosmological analysis. The maps are part of ACT DR5, and will be made available on LAMBDA no later than three months after the journal publication of this article, along with an interactive sky atlas.

Sigurd Naess↗

DOE OSTI2025

Multi-omics of a model bacterial consortium deciphers details of chitin decomposition in soil

Soil microorganisms interact to carry out decomposition of complex organic carbon and nitrogen compounds, such as chitin, but the high diversity and complexity of the soil microbiome and habitat have posed a challenge to elucidating such interactions. Here, we sought to address this challenge by analysis of a model soil consortium (MSC-2) consisting of eight soil bacterial species. Our aim was to elucidate the specific roles of the member species during chitin metabolism. Samples were collected from MSC-2 incubated in chitin-enriched soil over 3 months. Multi-omics was used to understand how the community composition, transcripts, proteins, and chitin decomposition shifted over time. The data clearly and consistently revealed a temporal shift during chitin decomposition with defined contributions by individual species. A Streptomyces genus member (sp001905665) was a key player in early steps of chitin decomposition, with other MSC-2 members being central in carrying out later steps. These results illustrate how multi-omics applied to a defined consortium untangles the interactions between soil microorganisms.

chitin↗

DOE OSTI2025

Knowledge graph-aided Bayesian active learning for top- K genetic interaction discovery

In silico methods for predicting the effects of multi-gene perturbations hold great promise for advancing functional genomics, computational drug discovery, and disease modeling. However, the development of these predictive algorithms for mammalian systems has been hampered by limited datasets and high experimental costs. In this study, we present a Bayesian active learning framework designed to discover pairwise host gene knockdowns that effectively inhibit viral proliferation in an in vitro HIV-1 infection model. Our method leverages a biological knowledge graph as side information and employs a computationally efficient batch diversification approach. We evaluated this framework using a dataset of viral load measurements obtained from multi-day dual-gene depletion experiments, encompassing all possible pairwise knockdowns of over 350 host genes associated with HIV infection. We demonstrate that our framework rapidly identifies the most effective gene knockdown pairs for reducing viral load. Furthermore, we show that incorporating side information enhances performance during the early stages of active learning (low data regime), while our batch diversification strategy significantly boosts performance in later stages (high data regime). This framework is general and can be adapted to explore gene interactions in other contexts, such as synthetic lethality prediction and mapping epistatic effects across quantitative trait loci.

Computational biology and bioinformatics↗

DOE OSTI2025

A Novel Measurement of the Anomalous Muon Spin Precession Frequency in the Muon $g-2$ Experiment at Fermilab

The Muon $g-2$ Experiment operated at Fermi National Accelerator Laboratory (FNAL, or Fermilab) between 2018 and 2023 to produce the world's most precise measurement of the muon's \textit{anomalous magnetic moment}, $a_\mu = \frac{g_\mu - 2}{2}$, which expresses the relative deviation in the muon's $g$-factor from a baseline theoretical expectation that $g_\mu = 2$. In the Standard Model of particle physics, $g_\mu > 2$ and hence $a_\mu > 0$ by a calculable amount that depends on all possible interactions between the muon and all other fundamental particles, including any potentially undiscovered interactions beyond the Standard Model. For this reason, measurements of the electron anomaly $a_e$ and later the muon anomaly $a_\mu$ have helped guide the development of the Standard Model since the inception of quantum field theory, and the measured value of $a_\mu$ provides a valuable constraint for new hypotheses that extend the Standard Model. As of 2006, the leading measurement and Standard Model prediction for $a_\mu$ exhibited tension at the level of about three standard deviations, motivating an improved measurement at Fermilab that could test the tension more precisely. The experiment functions by storing a polarized beam of $\mu^+$ in a uniform magnetic field, which simultaneously induces circular motion and spin precession. As the stored muons undergo the Michel decay $\mu^+ \to e^+ + \nu_e + \bar{\nu}_\mu$, mediated by the parity-violating weak interaction, the rest-frame $e^+$ emission direction is correlated with the parent $\mu^+$ spin orientation. Boosting into the laboratory frame encodes this correlation in the decay $e^+$ energy, which is higher when the emission (i.e. $\mu^+$ spin direction) is aligned with the $\mu^+$ momentum, and lower when opposite. Detectors then count the rate of high-energy decay $e^+$, which modulates at the difference between the $\mu^+$ revolution and spin precession frequencies. This observed frequency, called the \textit{anomalous spin precession frequency} $\omega_a$, is directly proportional to $a_\mu$. The extraction of $\omega_a$ proceeds by fitting the time spectrum of detected $e^+$, which requires precise modeling of the $\omega_a$ oscillation as well as any perturbations from beam dynamics and detector acceptance. Using the $\omega_a$ analysis presented in this work, based on Runs 4 -- 6 of the Muon $g-2$ Experiment at Fermilab, we find that $a_\mu = 0.001\,165\,920\,738(162)$ with a relative uncertainty of 139 parts per billion.

Barrett, Tyler [Cornell U.]↗

DOE OSTI2025

Plant-microbial interplay for organic nitrogen mediated by functional specificity of root compartments

The organic form of nitrogen (N) is a critical intermediate in mutualistic and competitive root-microbial interactions, mediated by extracellular enzymes. Visualization of the hotspots of organic N and proteolytic activity might be valuable for revealing root functional specificity in N acquisition and transformation at the level of individual roots and compartments. For the first time, we used time-lapse amino-mapping and zymography to co-localize and map the spatial distribution of amino-N and leucine aminopeptidase (LAP) activity in the soil and different root parts of maize (Zea mays L.). Amino-N distribution was mainly associated with seminal roots and root tips, where it overlapped with LAP activity hotspots. In the lateral roots and bulk soil, however, LAP activity was decoupled from amino-N. Distinct functional traits revealed themselves as the highest amino-N content and LAP activity in seminal root tips and as the largest relative extent of the rhizosphere in lateral root tips. Co-localized amino-N and LAP activities highlighted different nutrient acquisition strategies mediated by root-microbe interactions, depending on the root compartment. Seminal roots and their tips appeared to adopt mutualistic strategies, potentially attracting root-associated microorganisms through releasing oligo- and polypeptides. In contrast, lateral roots, with amino-N detected only at their tips, demonstrated stronger N competition, relying on the enzyme activity of the rhizosphere microbial community for N acquisition. These insights emphasized the role of root functional specialization in shaping plant-microbe interactions, offering pathways to enhance nutrient use efficiency.

Maize (Zea mays L.)↗

NASA NTRS1990

Dynamics of Multistage Gear Transmission with Effects of Gearbox Vibrations

A comprehensive approach is presented in analyzing the dynamic behavior of multistage gear transmission systems with the effects of gearbox induced vibrations and mass imbalances of the rotor. The modal method, with undamped frequencies and planar mode shapes, is used to reduce the degrees of freedom of the gear system for time-transient dynamic analysis. Both the lateral and torsional vibration modes of each rotor-bearing-gear stage as well as the interstage vibrational characteristics are coupled together through localized gear mesh tooth interactions. In addition, gearbox vibrations are also coupled to the rotor-bearing-gear system dynamics through bearing support forces between the rotor and the gearbox. Transient and steady state dynamics of lateral and torsional vibrations of the geared system are examined in both time and frequency domains to develop interpretations of the overall modal dynamic characteristics under various operating conditions. A typical three-stage geared system is used as an example. Effects of mass imbalance and gearbox vibrations on the system dynamic behavior are presented in terms of modal excitation functions for both lateral and torsional vibrations. Operational characteristics and conclusions are drawn from the results presented.

Choy, F. K.↗

NASA NTRS2000

Environmental Effects on Volcanic Eruptions:From Deep Ocean to Deep Space. Chapter 3. Volcanism and Ice Interactions on Earth and Mars

CONCLUSION Volcano/ice interactions produce meltwater. Meltwater can enter the groundwater cycle and under the influence of hydrothermal systems, it can be later discharged to form channels and valleys or cycled upward to melt permafrost. Water or ice-saturated ground can erupt into phreatic craters when covered by lava. Violent mixing of meltwater and volcanic material and rapid release can generate lahars or jokulhlaups, that have the ability to freight coarse material, great distances downslope from the vent. Eruption into meltwater generate unique appearing edifices, that are definitive indicators of volcano/ice interaction. These features are hyaloclastic ridges or mounds and if capped by lava, tuyas. On Earth, volcano/ice interactions are limited to alpine regions and ice-capped polar and temperate regions. On Mars, where precipitation may be an ancient phenomenon, these interactions may be limited to areas of ground ice accumulation or the northern lowlands where water may have ponded fairly late in martian history. The recognition of features caused by volcano/ice interactions could provide strong constraints for the history of volatiles on Mars.

Chapman, Mary G.↗

NASA NTRS1991

Spaceborne centrifugal relays for spacecraft propulsion

Acceleration using centrifugal relays is a recently discovered method for the acceleration of spaceborne payloads to high velocity at high thrust. Centrifugal relays are moving rotors which progressively accelerate reaction mass to higher velocities. One important engineering problem consists of accurately tracking the position of the projectiles and rotors and guiding each projectile exactly onto the appropriate guide tracks on each rotor. The topics of this research are the system kinematics and dynamics and the computerized guidance system which will allow the projectile to approach each rotor with exact timing with respect to the rotor rotation period and with very small errors in lateral positions. Kinematics studies include analysis of rotor and projectile positions versus time and projectile/rotor interactions. Guidance studies include a detailed description of the tracking mechanism (interrupt of optical beams) and the aiming mechanism (electromagnetic focusing) including the design of electromagnetic deflection coils and the switching circuitry.

Ouzidane, Malika↗

NASA NTRS1975

Wind tunnel and flight development of spoilers for general aviation aircraft

Wind tunnel tests have been carried out to develop a spoiler lateral control system for use with the GA(W)-1 airfoil with a 30% Fowler flap. Tests show that unfavorable aerodynamic interactions can occur between spoiler and flap for large flap deflections. Providing venting of lower surface air through the spoiler opening substantially improves performance. Results of tests with a number of spoiler and cavity shapes are presented and discussed. Applications of two-dimensional wind tunnel results to the design of satisfactory manual lateral control systems are discussed.

Wentz, W. H., Jr.↗