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At least 595 records · Page 33
All sourcesNASA NTRSDOE OSTI
DOE OSTI2024

Comprehensive SNP Data for 1,323 GWAS Population in Populus trichocarpa and Combined Annotation Files for P. trichocarpa v3.0 and v3.1

The VCF dataset includes genetic variations found in 1,323 Populus trichocarpa genotypes, providing valuable information for scientists studying plant genetics. Researchers have generated this dataset using whole-genome DNA short-read sequencing on the Illumina Genome Analyzer, HiSeq 2000, and HiSeq 2500 platforms. This sequencing effort ensured a minimum expected sequencing depth of 15×. The dataset comprises more than 9.7 million single nucleotide polymorphisms (SNPs) and indel variants. The combined annotation files are derived from P. trichocarpa v3.0 and v3.1. We merged these files to create a comprehensive annotation file used for GWAS analysis. In total, 38,830 genes overlapped between the two versions. For overlapping genes, we defined the start as the smaller and the end as the larger among the two versions to increase the likelihood of locating candidate genetic loci. Additionally, we included 2,505 unique genes from v3.0 and 4,120 unique genes from v3.1, resulting in a total of 45,455 genes in the updated annotation file.

09 BIOMASS FUELS↗
DOE OSTI2025

Assessing the cumulative effects of nearshore habitat restoration actions for multiple populations of juvenile salmon in Whidbey Basin, Washington: foundation and approach for synthesis and evaluation

Ecosystem restoration is a common tool for re-establishing ecosystem processes, structures, and functions to improve biodiversity and services in coastal and estuarine ecosystems. In the Salish Sea, salmon habitats have been fragmented, reduced in size, and diminished in quality, and the ecosystem processes that form and sustain these habitats have been degraded and disrupted as well. This loss is especially prevalent in estuaries, where up to 90% of former salmon habitat has been lost or compromised. Salmon species are integral to the identities and cultures of people in the Pacific Northwest, yet salmon abundances remain at historic lows, especially in urbanized areas. Recent investments in restoration are creating rearing habitat and repairing lost ecosystem function. However, restoration efforts in this region have largely proceeded at the site scale, with less attention to big-picture thinking regarding how restoration will effectively recover degraded or lost habitats for target species. As a result, no landscape-scale evaluation program exists, and the cumulative benefits of multiple interventions are unknown. We describe innovative methods for science synthesis related to the evaluation of cumulative effects of ecosystem restoration for Pacific salmon, using years of existing, but disparate data. Building from previous work on cumulative effects evaluation and incorporating a hierarchy of hypotheses approach, we propose using causal inference across numerous hypotheses in a framework to assess the cumulative benefits to Pacific salmon from multiple estuarine restoration projects. We present the framework as a method that can be used to address many complex questions and provide examples from the Salish Sea where the approach is being implemented. The framework draws on science synthesis from numerous fields and uses a hierarchy of hypotheses, causal analysis at multiple scales, and a new hierarchy of synthesis for assessing multiple lines of evidence documenting restoration effects on Pacific salmon. We propose causal inference to synthesize dissimilar data streams, in our case, to identify various manifestations of cumulative effects of restoration and benefits to salmon, and to further inform restoration and recovery planning. A unifying framework would allow for the detection of thresholds at which restoration provides measurable improvement and would greatly advance understanding of the effects of restoration on ecosystems.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Assessing heterogeneity of patient and health system delay among TB in a population with internal migrants in China

Backgrounds The diagnostic delay of tuberculosis (TB) contributes to further transmission and impedes the implementation of the End TB Strategy. Therefore, we aimed to describe the characteristics of patient delay, health system delay, and total delay among TB patients in Shanghai, identify areas at high risk for delay, and explore the potential factors of long delay at individual and spatial levels. Method The study included TB patients among migrants and residents in Shanghai between January 2010 and December 2018. Patient and health system delays exceeding 14 days and total delays exceeding 28 days were defined as long delays. Time trends of long delays were evaluated by Joinpoint regression. Multivariable logistic regression analysis was employed to analyze influencing factors of long delays. Spatial analysis of delays was conducted using ArcGIS, and the hierarchical Bayesian spatial model was utilized to explore associated spatial factors. Results Overall, 61,050 TB patients were notified during the study period. Median patient, health system, and total delays were 12 days (IQR: 3–26), 9 days (IQR: 4–18), and 27 days (IQR: 15–43), respectively. Migrants, females, older adults, symptomatic visits to TB-designated facilities, and pathogen-positive were associated with longer patient delays, while pathogen-negative, active case findings and symptomatic visits to non-TB-designated facilities were associated with long health system delays (LHD). Spatial analysis revealed Chongming Island was a hotspot for patient delay, while western areas of Shanghai, with a high proportion of internal migrants and industrial parks, were at high risk for LHD. The application of rapid molecular diagnostic methods was associated with reduced health system delays. Conclusion Despite a relatively shorter diagnostic delay of TB than in the other regions in China, there was vital social-demographic and spatial heterogeneity in the occurrence of long delays in Shanghai. While the active case finding and rapid molecular diagnosis reduced the delay, novel targeted interventions are still required to address the challenges of TB diagnosis among both migrants and residents in this urban setting.

Sun, Ruoyao↗
DOE OSTI2020

Alterations in Progesterone Receptor Isoform Balance in Normal and Neoplastic Breast Cells Modulates the Stem Cell Population

To investigate the role of PR isoforms on the homeostasis of stem cells in the normal and neoplastic mammary gland, we used PRA and PRB transgenic mice and the T47D human breast cancer cell line and its derivatives, T47D YA and YB (manipulated to express only PRA or PRB, respectively). Flow cytometry and mammosphere assays revealed that in murine breast, overexpression of PRB leads to an increase in luminal and basal progenitor/stem cells. Ovariectomy had a negative impact on the luminal compartment and induced an increase in mammosphere-forming capacity in cells derived from WT and PRA mice only. Treatment with ICI 182,780 augmented the mammosphere-forming capacity of cells isolated from WT and PRA mice, whilst those from PRB remained unaltered. T47D YB cells showed an increase in the CD44+/CD24Low/- subpopulation; however, the number of tumorspheres did not vary relative to T47D and YA, even though they were larger, more irregular, and had increased clonogenic capacity. T47D and YA tumorspheres were modulated by estrogen/antiestrogens, whereas YB spheres remained unchanged in size and number. Our results show that alterations in PR isoform balance have an impact on normal and tumorigenic breast progenitor/stem cells and suggest a key role for the B isoform, with implications in response to antiestrogens.

stem cells↗
DOE OSTI2020

Variability in the Massive Open Cluster NGC 1817 from K2: A Rich Population of Asteroseismic Red Clump, Eclipsing Binary, and Main-sequence Pulsating Stars

We present a survey of variable stars detected in K2 Campaign 13 within the massive intermediate-age (∼1 Gyr) open cluster NGC 1817. We identify a complete sample of 44 red clump stars in the cluster, and have measured asteroseismic quantities (ν {sub max} and/or Δν) for 29 of them. Five stars showed suppressed dipole modes, and the occurrence rates indicate that mode suppression is unaffected by evolution through core helium burning. A subset of the giants in NGC 1817 (and in the similarly aged cluster NGC 6811) have ν {sub max} and Δν values at or near the maximum observed for core helium–burning stars, indicating they have core masses near the minimum for fully nondegenerate helium ignition. Further asteroseismic study of these stars can constrain the minimum helium core mass in red clump stars and the physics that determines this limit. Two giant stars show photometric variations on timescales similar to previously measured spectroscopic orbits. Thirteen systems in the field show eclipses, but only five are probable cluster members. We identify 32 δ Sct pulsators, 27 γ Dor candidates, and 7 hybrids that are probable cluster members, with most being new detections. We used the ensemble properties of the δ Sct stars to identify stars with possible radial pulsation modes. Among the oddities we have uncovered are: an eccentric orbit for a short-period binary containing a δ Sct pulsating star; a rare subgiant within the Hertzsprung gap showing δ Sct pulsations; and two hot γ Dor pulsating star candidates.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2021

Radial Segregation between Red Giant Populations in the Globular Cluster NGC 3201: Tentative Role of Varying Mass among the Progenitors

In the globular cluster NGC 3201, we study subpopulations (SPs) of red giants (RGs) distinguished by their characteristics. In its central part, we make use of multicolor Hubble Space Telescope (HST) photometry coupled with spectroscopy of RGs spread out over a larger cluster face. In the color index CI = (m{sub F275W}−m{sub F336W}) −(m{sub F336W}−m{sub F439W}), RGs commonly referred to as first generation, SPI, are separated from the counterparts of the second generation, SPII. The latter are more concentrated than the former at a confidence level of P = 93%, within the field covered by the HST photometry. Their minor portion (∼28%, SPIIm) located in the middle of the δCI range spanned across the split RG branch relative to the splitting edge is more centrally concentrated at a higher confidence level of 96%. We found, from the [Na/Fe]−δCI plot for RGs in common between the photometry and spectroscopy, that SPI and SPII are mostly overlapped within 0.0 < [Na/Fe] < 0.3. RGs with [Na/Fe] < 0.0 (mostly SPI) keep their lower concentration to the cluster center over larger radial distance as compared to SPII RGs with [Na/Fe] > 0.3 at a confidence level of P = 88%. It is increased up to 95% if a restriction on [O/Fe] is imposed. The obtained result, particularly in the central part, is a clue that SPIIm RGs are the descendants of more massive progenitors. Of these RGs approximately one-third probably originate from recent (within the past 1.5 Gyr) blue stragglers with M {sub BS} > 1.1M {sub ☉}, and the other two-thirds could be accounted for by older collision products of primordial MS stars.

47 OTHER INSTRUMENTATION↗
DOE OSTI2021

Stellar Radial Velocities in the Old Open Cluster M67 (NGC 2682). II. The Spectroscopic Binary Population

We present and analyze 120 spectroscopic binary and triple cluster members of the old (4 Gyr) open cluster M67 (NGC 2682). As a cornerstone of stellar astrophysics, M67 is a key cluster in the WIYN Open Cluster Study (WOCS); radial-velocity (RV) observations of M67 are ongoing and extend back over 45 yr, incorporating data from seven different telescopes, and allowing us to detect binaries with orbital periods ≲10{sup 4} days. Our sample contains 1296 stars (604 cluster members) with magnitudes of 10 ≤ V ≤ 16.5 (about 1.3–0.7 M {sub ⊙}), from the giants down to ∼4 mag below the main-sequence turnoff, and extends in radius to 30′ (7.4 pc at a distance of 850 pc, or ∼7 core radii). This paper focuses primarily on the main-sequence binaries, but orbital solutions are also presented for red giants, yellow giants, and sub-subgiants. Out to our period detection limit and within our magnitude and spatial domain, we find a global main-sequence incompleteness-corrected binary fraction of 34% ± 3%, which rises to 70% ± 17% in the cluster center. We derive a tidal circularization period of P{sub circ}=11.0{sub −1.0}{sup +1.1} days. We also analyze the incompleteness-corrected distributions of binary orbital elements and masses. The period distribution rises toward longer periods. The eccentricity distribution, beyond P {sub circ}, is consistent with a uniform distribution. The mass-ratio distribution is also consistent with a uniform distribution. Overall, these M67 binaries are closely consistent with similar binaries in the galactic field, as well as with the old (7 Gyr) open cluster NGC 188. WOCS. 83.

47 OTHER INSTRUMENTATION↗
DOE OSTI2021

New Subgrouping of Multiple Stellar Populations in NGC 2808 Based on Low-resolution Spectroscopy

We performed low-resolution spectroscopy for the red giant branch stars in an intriguing globular cluster (GC) NGC 2808, which hosts subpopulations with extreme helium and light-element abundances. In order to trace N, C, and Ca abundance differences among subpopulations, we measured CN, CH, and Ca ii H&K spectral indices, respectively. We identified four subpopulations (G1, G2, G3, and G4) from CN and CH strength, with CN-weak/CH-strong G1, CN-intermediate/CH-strong G2, CN-strong/CH-intermediate G3, and CN-strong/CH-weak G4. Compared to [Na/O] from high-resolution spectroscopy, we show that CN index can more clearly separate G1 and G2. Since CN traces N abundance in a GC, it implies that G1 and G2 would show a larger difference in [N/Fe] compared to [Na/Fe], as predicted by chemical evolution models. Later generation stars G3 and G4, however, are better separated with high-resolution spectroscopy. We also found that G4 shows a stronger Ca ii H&K line strength compared to that of G1, but we suspect this to be a result of unusually strong He enhancement and/or Mg depletion in G4 of this GC. This work illustrates that combining low- and high-resolution spectroscopic studies can improve the separation of subpopulations in GCs.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2021

Forward Modeling Populations of Flares from Tidal Disruptions of Stars by Supermassive Black Holes

Detections of the tidal disruption flares (TDFs) of stars by supermassive black holes (SMBHs) are rapidly accumulating as optical surveys improve. These detections may provide constraints on SMBH demographics, stellar dynamics, and stellar evolution in galaxies. To maximize this scientific impact, we require a better understanding of how astrophysical parameters interact with survey selection effects in setting the properties of detected flares. In this study, we develop a framework for modeling the distributions of optical TDF detections in surveys across attributes of the host galaxies and the flares themselves. This model folds in effects of the stellar disruption rate in each galaxy, the flare luminosity and temperature distributions, the effects of obscuration and reddening by dust in the host galaxy, and survey selection criteria. We directly apply this model to the sample of TDFs detected by the Zwicky Transient Facility, and find that the overall flare detection rate is in line with simple theoretical expectation. The model can also reproduce the distribution of total stellar mass and redshift of the host galaxies, but fails to match all details of the detected flares, such as their luminosity and temperature distributions. We also find that dust obscuration likely plays an important role in suppressing the TDF detection rate in star-forming galaxies. While we do not find that the unusual preference of TDFs to have hosts in post-starburst galaxies in the "green valley" can be entirely explained by selection effects, our model can help to quantify the true rate enhancement in those galaxies.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2021

Modeling the Galactic Neutron Star Population for Use in Continuous Gravitational-wave Searches

Searches for continuous gravitational waves (GW) from unknown Galactic neutron stars provide limits on the shapes of neutron stars. A rotating neutron star will produce GW if asymmetric deformations exist in its structure that are characterized by the star's ellipticity. Here, in this study, we use a simple model of the spatial and spin distribution of Galactic neutron stars to estimate the total number of neutron stars probed, using GW, to a given upper limit on the ellipticity. This may help optimize future searches with improved sensitivity. The improved sensitivity of third-generation GW detectors may increase the number of neutron stars probed, to a given ellipticity, by factors of 100 to 1000.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2023

A Dynamically Distinct Stellar Population in the Leading Arm of the Sagittarius Stream

We present a chemical and dynamical analysis of the leading arm (LA) and trailing arm (TA) of the Sagittarius (Sgr) stream, as well as for the Sgr dwarf galaxy core (SC), using red giant branch, main-sequence, and RR Lyrae stars from large spectroscopic survey data. The different chemical properties among the LA, TA, and SC generally agree with recent studies and can be understood by a radial metallicity gradient established in the progenitor of the Sgr dwarf, followed by preferential stellar stripping from the outer part of the Sgr progenitor. One striking finding is a relatively larger fraction of low-eccentricity stars (e < 0.4) in the LA than in the TA and SC. The TA and SC exhibit very similar distributions. Considering that a tidal tail stripped off from a dwarf galaxy maintains the orbital properties of its progenitor, we expect that the e-distribution of the LA should be similar to that of the TA and SC. Thus, the disparate behavior of the e-distribution of the LA is of particular interest. Following the analysis of Vasiliev et al., we attempt to explain the different e-distribution by introducing a time-dependent perturbation of the Milky Way by the Large Magellanic Cloud's (LMC) gravitational pull, resulting in substantial evolution of the angular momentum of the LA stars to produce the low-e stars. In addition, we confirm from RR Lyrae stars with high eccentricity (e > 0.6) that the TA stars farther away from the SC are also affected by disturbances from the LMC.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2025

Axion lines from nuclear de-excitations in galactic stellar populations

We show that mono-energetic axions are produced in abundance through nuclear de-excitations in nearby galaxies such as M87, which is the central galaxy of the Virgo cluster, and the starburst galaxy M82. If the axion couples to both nucleons and photons and is ultralight, then monochromatic hard X-ray signatures are induced by the subsequent axion-to-photon conversion in the magnetic fields permeating these systems. We search for evidence of such signals using NuSTAR data, focusing specifically on the $^{57}$Fe de-excitation line at 14.4 keV, and we catalog other potentially relevant nuclear lines. We find no evidence for axions from M87 or M82 and set leading constraints on the combined axion-nucleon and axion-photon coupling at the level of $|g_{ann} \times g_{aγγ}| \lesssim 1.1 \times 10^{-22}$ GeV$^{-1}$ in the limit $m_a \lesssim 10^{-10}$ eV, at 95% confidence.

Astrophysics of Galaxies (astro-ph.GA)↗
DOE OSTI2024

Population genomics identify the requirement of BAP2 in the sufficiency of IRE1 in the UPR

Sequencing reads archived here are part of a project studying natural variation in ER stress responses in Arabidopsis reported in Pastor-Cantizano et al. 2024. The project focused on contrasting alleles derived from Na-1 (tolerant) and Est-0 (susceptible) accessions when exposed to a ER stress inducer. These accession were crossed, F3 progeny were phenotyped, and the top and bottom 10% of relative performance under ER stress (42 individuals from each tail) were pooled and sequenced. Candidate genomic regions were identified by looking for allele frequency differences among the two pools in a standard QTL-seq approach

programmed cell death↗