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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 397 records · Page 22
All sourcesNASA NTRSDOE OSTI
DOE OSTI2024

Biosensors for the detection of chorismate and cis,cis -muconic acid in Corynebacterium glutamicum

Abstract Corynebacterium glutamicum ATCC 13032 is a promising microbial chassis for industrial production of valuable compounds, including aromatic amino acids derived from the shikimate pathway. In this work, we developed two whole-cell, transcription factor based fluorescent biosensors to track cis,cis-muconic acid (ccMA) and chorismate in C. glutamicum. Chorismate is a key intermediate in the shikimate pathway from which value-added chemicals can be produced, and a shunt from the shikimate pathway can divert carbon to ccMA, a high value chemical. We transferred a ccMA-inducible transcription factor, CatM, from Acinetobacter baylyi ADP1 into C. glutamicum and screened a promoter library to isolate variants with high sensitivity and dynamic range to ccMA by providing benzoate, which is converted to ccMA intracellularly. The biosensor also detected exogenously supplied ccMA, suggesting the presence of a putative ccMA transporter in C. glutamicum, though the external ccMA concentration threshold to elicit a response was 100-fold higher than the concentration of benzoate required to do so through intracellular ccMA production. We then developed a chorismate biosensor, in which a chorismate inducible promoter regulated by natively expressed QsuR was optimized to exhibit a dose-dependent response to exogenously supplemented quinate (a chorismate precursor). A chorismate–pyruvate lyase encoding gene, ubiC, was introduced into C. glutamicum to lower the intracellular chorismate pool, which resulted in loss of dose dependence to quinate. Further, a knockout strain that blocked the conversion of quinate to chorismate also resulted in absence of dose dependence to quinate, validating that the chorismate biosensor is specific to intracellular chorismate pool. The ccMA and chorismate biosensors were dually inserted into C. glutamicum to simultaneously detect intracellularly produced chorismate and ccMA. Biosensors, such as those developed in this study, can be applied in C. glutamicum for multiplex sensing to expedite pathway design and optimization through metabolic engineering in this promising chassis organism. One-Sentence Summary High-throughput screening of promoter libraries in Corynebacterium glutamicum to establish transcription factor based biosensors for key metabolic intermediates in shikimate and β-ketoadipate pathways.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Arp 70: an interacting galaxy with extreme outflows

ABSTRACT We analysed a Fabry–Pérot (FP) cube of the interacting pair of galaxies Arp 70, which was obtained from the CeSAM public repository of FP data. On the larger galaxy Arp 70b, we detected the spectral signature of two different outflows, one located in the centre and the other associated with a giant H ii region in the arm region. The central outflow is especially prominent, with the flux of the secondary peaks in the emission-line profiles due to the outflowing gas being similar to that of the main peak. We used an archive fibre spectrum from SDSS to confirm this detection in H α as well as in the [N ii] line and, in addition, to perform diagnostics on the nature of the ionization. The emission at the centre is consistent with a low-ionization nuclear emission-line region and a weak active galactic nucleus. Using the spatial distribution of the profiles in the FP cube, we estimated the shape of the outflow which is consistent with two cones of expanding material, one approaching and the other receding from us, and used this to estimate the physical parameters of the outflow, finding energies of order 1057 erg and masses of order 108 M⊙. On the giant H ii region, we found a very large expanding superbubble with a diameter of ∼5 kpc. The bubble has an energy of order 1054 erg and a mass of about 4 × 107 M⊙. We discuss the possible origins for both of these features and whether they could be associated with the interaction between the galaxies.

Camps-Fariña, A.↗
DOE OSTI2021

TOI-431/HIP 26013: a super-Earth and a sub-Neptune transiting a bright, early K dwarf, with a third RV planet

ABSTRACT We present the bright (Vmag = 9.12), multiplanet system TOI-431, characterized with photometry and radial velocities (RVs). We estimate the stellar rotation period to be 30.5 ± 0.7 d using archival photometry and RVs. Transiting Exoplanet Survey Satellite (TESS) objects of Interest (TOI)-431 b is a super-Earth with a period of 0.49 d, a radius of 1.28 ± 0.04 R⊕, a mass of 3.07 ± 0.35 M⊕, and a density of 8.0 ± 1.0 g cm−3; TOI-431 d is a sub-Neptune with a period of 12.46 d, a radius of 3.29 ± 0.09 R⊕, a mass of $9.90^{+1.53}_{-1.49}$ M⊕, and a density of 1.36 ± 0.25 g cm−3. We find a third planet, TOI-431 c, in the High Accuracy Radial velocity Planet Searcher RV data, but it is not seen to transit in the TESS light curves. It has an Msin i of $2.83^{+0.41}_{-0.34}$ M⊕, and a period of 4.85 d. TOI-431 d likely has an extended atmosphere and is one of the most well-suited TESS discoveries for atmospheric characterization, while the super-Earth TOI-431 b may be a stripped core. These planets straddle the radius gap, presenting an interesting case-study for atmospheric evolution, and TOI-431 b is a prime TESS discovery for the study of rocky planet phase curves.

Osborn, Ares↗
DOE OSTI2021

Star formation in CALIFA survey perturbed galaxies – II. Star-formation histories and oxygen abundances

ABSTRACT Galaxy evolution is generally affected by tidal interactions. First, in this series, we reported several effects that suggest that tidal interactions contribute to the regulation of star formation (SF). To confirm this, we now compare stellar mass assembly histories and SF look-back time annular profiles between CALIFA survey tidally and non-tidally perturbed galaxies. We pair their respective star-forming regions at the closest stellar mass surface densities to reduce the influence of stellar mass. The assembly histories and annular profiles show statistically significant differences so that higher star-formation rates characterize regions in tidally perturbed galaxies. These regions underwent a more intense (re)activation of SF in the last 1 Gyr. Varying shapes of the annular profiles also reflect fluctuations between suppression and (re)activation of SF. Since gas-phase abundances used to be lower in more actively than in less actively star-forming galaxies, we further explore the plausible presence of metal-poor gas inflows able to dilute such abundances. The resolved relations of oxygen (O) abundance with stellar mass density and with total gas fraction show slightly lower O abundances for regions in tidally perturbed galaxies. The single distributions of O abundances statistically validate this. Moreover, from a metallicity model based on stellar feedback, the mass rate differentials (inflows−outflows) show statistically valid higher values for regions in tidally perturbed galaxies. These differentials, and the metal fractions from the population synthesis, suggest dominant gas inflows in these galaxies. This dominance and the differences in SF through time confirm the previously reported effects of tidal interactions on SF.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2022

Investigating the architecture and internal structure of the TOI-561 system planets with CHEOPS, HARPS-N, and TESS

ABSTRACT We present a precise characterization of the TOI-561 planetary system obtained by combining previously published data with TESS and CHEOPS photometry, and a new set of 62 HARPS-N radial velocities (RVs). Our joint analysis confirms the presence of four transiting planets, namely TOI-561 b (P = 0.45 d, R = 1.42 R⊕, M = 2.0 M⊕), c (P = 10.78 d, R = 2.91 R⊕, M = 5.4 M⊕), d (P = 25.7 d, R = 2.82 R⊕, M = 13.2 M⊕), and e (P = 77 d, R = 2.55 R⊕, M = 12.6 R⊕). Moreover, we identify an additional, long-period signal (>450 d) in the RVs, which could be due to either an external planetary companion or to stellar magnetic activity. The precise masses and radii obtained for the four planets allowed us to conduct interior structure and atmospheric escape modelling. TOI-561 b is confirmed to be the lowest density (ρb = 3.8 ± 0.5 g cm−3) ultra-short period (USP) planet known to date, and the low metallicity of the host star makes it consistent with the general bulk density-stellar metallicity trend. According to our interior structure modelling, planet b has basically no gas envelope, and it could host a certain amount of water. In contrast, TOI-561 c, d, and e likely retained an H/He envelope, in addition to a possibly large water layer. The inferred planetary compositions suggest different atmospheric evolutionary paths, with planets b and c having experienced significant gas loss, and planets d and e showing an atmospheric content consistent with the original one. The uniqueness of the USP planet, the presence of the long-period planet TOI-561 e, and the complex architecture make this system an appealing target for follow-up studies.

Lacedelli, G. (ORCID:0000000241977374)↗
DOE OSTI2022

The effect of quasar redshift errors on Lyman-α forest correlation functions

ABSTRACT Using synthetic Lyman-α forests from the Dark Energy Spectroscopic Instrument (DESI) survey, we present a study of the impact of errors in the estimation of quasar redshift on the Lyman-α correlation functions. Estimates of quasar redshift have large uncertainties of a few hundred km s−1 due to the broadness of the emission lines and the intrinsic shifts from other emission lines. We inject Gaussian random redshift errors into the mock quasar catalogues, and measure the auto-correlation and the Lyman-α-quasar cross-correlation functions. We find a smearing of the BAO feature in the radial direction, but changes in the peak position are negligible. However, we see a significant unphysical correlation for small separations transverse to the line of sight which increases with the amplitude of the redshift errors. We interpret this contamination as a result of the broadening of emission lines in the measured mean continuum, caused by quasar redshift errors, combined with the unrealistically strong clustering of the simulated quasars on small scales.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2022

Neutron star crust can support a large ellipticity

ABSTRACT Non-axisymmetrical deformations of the crust on rapidly rotating neutron stars are one of the main targets of searches for continuous gravitational waves. The maximum ellipticity, or fractional difference in moments of inertia, which can be supported by deformations of the crust (known as ‘mountains’), provides an important upper limit on the strength of these continuous gravitational wave sources. We use the formalism developed by Gittins and Andersson, along with a deforming force that acts mainly in the transverse direction, to obtain a maximum ellipticity of 7.4 × 10−6. This is larger than the original results that Gittins and Andersson obtained but consistent with earlier calculations by Ushomirsky, Cutler, and Bildsten. This suggests that rotating neutron stars could be strong sources of continuous gravitational waves.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2023

The Alcock–Paczynski effect from Lyman- α forest correlations: analysis validation with synthetic data

The three-dimensional distribution of the Ly α forest has been extensively used to constrain cosmology through measurements of the baryon acoustic oscillations (BAO) scale. However, more cosmological information could be extracted from the full shapes of the Ly α forest correlations through the Alcock–Paczynski (AP) effect. In this work, we prepare for a cosmological analysis of the full shape of the Ly α forest correlations by studying synthetic data of the extended Baryon Oscillation Spectroscopic Survey (eBOSS). We use a set of 100 eBOSS synthetic data sets in order to validate such an analysis. These mocks undergo the same analysis process as the real data. We perform a full-shape analysis on the mean of the correlation functions measured from the 100 eBOSS realizations, and find that our model of the Ly α correlations performs well on current data sets. We show that we are able to obtain an unbiased full-shape measurement of D M /D H (z eff ), where D M is the transverse comoving distance, D H is the Hubble distance, and z eff is the effective redshift of the measurement. We test the fit over a range of scales, and decide to use a minimum separation of r min = 25 h –1 Mpc. Here, we also study and discuss the impact of the main contaminants affecting Ly α forest correlations, and give recommendations on how to perform such analysis with real data. While the final eBOSS Ly α BAO analysis measured D M /D H (z eff = 2.33) with 4 per cent statistical precision, a full-shape fit of the same correlations could provide an $\sim 2~{{\ \rm per\ cent}}$ measurement.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2023

Sub-m s−1 upper limits from a deep HARPS-N radial-velocity search for planets orbiting HD 166620 and HD 144579

ABSTRACT Minimizing the impact of stellar variability in radial velocity (RV) measurements is a critical challenge in achieving the 10 cm s−1 precision needed to hunt for Earth twins. Since 2012, a dedicated programme has been underway with HARPS-N, to conduct a blind RV rocky planets search (RPS) around bright stars in the Northern hemisphere. Here we describe the results of a comprehensive search for planetary systems in two RPS targets, HD 166620 and HD 144579. Using wavelength-domain line-profile decorrelation vectors to mitigate the stellar activity and performing a deep search for planetary reflex motions using a trans-dimensional nested sampler, we found no significant planetary signals in the data sets of either of the stars. We validated the results via data-splitting and injection recovery tests. Additionally, we obtained the 95th percentile detection limits on the HARPS-N RVs. We found that the likelihood of finding a low-mass planet increases noticeably across a wide period range when the inherent stellar variability is corrected for using scalpelsU-vectors. We are able to detect planet signals with Msin i ≤ 1 M⊕ for orbital periods shorter than 10 d. We demonstrate that with our decorrelation technique, we are able to detect signals as low as 54 cm s−1, which brings us closer to the calibration limit of 50 cm s−1 demonstrated by HARPS-N. Therefore, we show that we can push down towards the RV precision required to find Earth analogues using high-precision radial velocity data with novel data-analysis techniques.

Anna John, A. (ORCID:0000000217156939)↗
DOE OSTI2023

Analysis of the impact of broad absorption lines on quasar redshift measurements with synthetic observations

ABSTRACT Accurate quasar classifications and redshift measurements are increasingly important to precision cosmology experiments. Broad absorption line (BAL) features are present in 15–20 per cent of all quasars, and these features can introduce systematic redshift errors, and in extreme cases produce misclassifications. We quantitatively investigate the impact of BAL features on quasar classifications and redshift measurements with synthetic spectra that were designed to match observations by the Dark Energy Spectroscopic Instrument (DESI) survey. Over the course of 5 yr, DESI aims to measure spectra for 40 million galaxies and quasars, including nearly three million quasars. Our synthetic quasar spectra match the signal-to-noise ratio and redshift distributions of the first year of DESI observations, and include the same synthetic quasar spectra both with and without BAL features. We demonstrate that masking the locations of the BAL features decreases the redshift errors by about 1 per cent and reduces the number of catastrophic redshift errors by about 80 per cent. We conclude that identifying and masking BAL troughs should be a standard part of the redshift determination step for DESI and other large-scale spectroscopic surveys of quasars.

(galaxies:) quasars: absorption↗
DOE OSTI2023

The Dark Energy Spectroscopic Instrument: one-dimensional power spectrum from first Ly α forest samples with Fast Fourier Transform

ABSTRACT We present the one-dimensional Ly α forest power spectrum measurement using the first data provided by the Dark Energy Spectroscopic Instrument (DESI). The data sample comprises 26 330 quasar spectra, at redshift z > 2.1, contained in the DESI Early Data Release and the first 2 months of the main survey. We employ a Fast Fourier Transform (FFT) estimator and compare the resulting power spectrum to an alternative likelihood-based method in a companion paper. We investigate methodological and instrumental contaminants associated with the new DESI instrument, applying techniques similar to previous Sloan Digital Sky Survey (SDSS) measurements. We use synthetic data based on lognormal approximation to validate and correct our measurement. We compare our resulting power spectrum with previous SDSS and high-resolution measurements. With relatively small number statistics, we successfully perform the FFT measurement, which is already competitive in terms of the scale range. At the end of the DESI survey, we expect a five times larger Ly α forest sample than SDSS, providing an unprecedented precise one-dimensional power spectrum measurement.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2023

The ASAS-SN bright supernova catalogue – V. 2018–2020

We catalogue the 443 bright supernovae (SNe) discovered by the All-Sky Automated Survey for Supernovae (ASAS-SN) in 2018−2020 along with the 519 SNe recovered by ASAS-SN and 516 additional m peak ≤ 18 mag SNe missed by ASAS-SN. Our statistical analysis focuses primarily on the 984 SNe discovered or recovered in ASAS-SN g-band observations. The complete sample of 2427 ASAS-SN SNe includes earlier V-band samples and unrecovered SNe. For each SN, we identify the host galaxy, its UV to mid-IR photometry, and the SN’s offset from the centre of the host. Updated peak magnitudes, redshifts, spectral classifications, and host galaxy identifications supersede earlier results. With the increase of the limiting magnitude to g ≤ 18 mag, the ASAS-SN sample is nearly complete up to m peak = 16.7 mag and is 90 per cent complete for m peak ≤ 17.0 mag. This is an increase from the V-band sample, where it was roughly complete up to m peak = 16.2 mag and 70 per cent complete for m peak ≤ 17.0 mag.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2023

The Lyman-α forest catalogue from the Dark Energy Spectroscopic Instrument Early Data Release

We present and validate the catalogue of Lyman-α forest fluctuations for 3D analyses using the Early Data Release (EDR) from the Dark Energy Spectroscopic Instrument (DESI) survey. We used 88 511 quasars collected from DESI Survey Validation (SV) data and the first two months of the main survey (M2). We present several improvements to the method used to extract the Lyman-α absorption fluctuations performed in previous analyses from the Sloan Digital Sky Survey (SDSS). In particular, we modify the weighting scheme and show that it can improve the precision of the correlation function measurement by more than 20 percent. This catalogue can be downloaded from https://data.desi.lbl.gov/public/edr/vac/edr/lya/fuji/v0.3, and it will be used in the near future for the first DESI measurements of the 3D correlations in the Lyman-α forest.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2024

Optimal 1D Ly α forest power spectrum estimation – III. DESI early data

ABSTRACT The 1D power spectrum P1D of the Ly α forest provides important information about cosmological and astrophysical parameters, including constraints on warm dark matter models, the sum of the masses of the three neutrino species, and the thermal state of the intergalactic medium. We present the first measurement of P1D with the quadratic maximum likelihood estimator (QMLE) from the Dark Energy Spectroscopic Instrument (DESI) survey early data sample. This early sample of 54 600 quasars is already comparable in size to the largest previous studies, and we conduct a thorough investigation of numerous instrumental and analysis systematic errors to evaluate their impact on DESI data with QMLE. We demonstrate the excellent performance of the spectroscopic pipeline noise estimation and the impressive accuracy of the spectrograph resolution matrix with 2D image simulations of raw DESI images that we processed with the DESI spectroscopic pipeline. We also study metal line contamination and noise calibration systematics with quasar spectra on the red side of the Ly α emission line. In a companion paper, we present a similar analysis based on the Fast Fourier Transform estimate of the power spectrum. We conclude with a comparison of these two approaches and discuss the key sources of systematic error that we need to address with the upcoming DESI Year 1 analysis.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2025

Constraining the phase shift of relativistic species in DESI BAOs

In the early Universe, neutrinos decouple quickly from the primordial plasma and propagate without further interactions. The impact of free-streaming neutrinos is to create a temporal shift in the gravitational potential that impacts the acoustic waves known as baryon acoustic oscillations (BAOs), resulting in a non-linear spatial shift in the Fourier-space BAO signal. In this work, we make use of and extend upon an existing methodology to measure the phase shift amplitude $\beta _{\phi }$ and apply it to the Dark Energy Spectroscopic Instrument (DESI) Data Release 1 (DR1) BAOs with an anisotropic BAO fitting pipeline. We validate the fitting methodology by testing the pipeline with two publicly available fitting codes applied to highly precise cubic box simulations and realistic simulations representative of the DESI DR1 data. We find further study towards the methods used in fitting the BAO signal will be necessary to ensure accurate constraints on $\beta _{\phi }$ in future DESI data releases. Using DESI DR1, we present individual measurements of the anisotropic BAO distortion parameters and the $\beta _{\phi }$ for the different tracers, and additionally a combined fit to $\beta _{\phi }$ resulting in $\beta _{\phi } = 2.7 \pm 1.7$. After including a prior on the distortion parameters from constraints using Planck we find $\beta _{\phi } = 2.7^{+0.60}_{-0.67}$ suggesting $\beta _{\phi } > 0$ at 4.3$\sigma$ significance. This result may hint at a phase shift that is not purely sourced from the standard model expectation for $N_{\rm {eff}}$ or could be a upwards statistical fluctuation in the measured $\beta _{\phi }$; this result relaxes in models with additional freedom beyond Lambda-cold dark matter.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2022

MIBiG 3.0: a community-driven effort to annotate experimentally validated biosynthetic gene clusters

Abstract With an ever-increasing amount of (meta)genomic data being deposited in sequence databases, (meta)genome mining for natural product biosynthetic pathways occupies a critical role in the discovery of novel pharmaceutical drugs, crop protection agents and biomaterials. The genes that encode these pathways are often organised into biosynthetic gene clusters (BGCs). In 2015, we defined the Minimum Information about a Biosynthetic Gene cluster (MIBiG): a standardised data format that describes the minimally required information to uniquely characterise a BGC. We simultaneously constructed an accompanying online database of BGCs, which has since been widely used by the community as a reference dataset for BGCs and was expanded to 2021 entries in 2019 (MIBiG 2.0). Here, we describe MIBiG 3.0, a database update comprising large-scale validation and re-annotation of existing entries and 661 new entries. Particular attention was paid to the annotation of compound structures and biological activities, as well as protein domain selectivities. Together, these new features keep the database up-to-date, and will provide new opportunities for the scientific community to use its freely available data, e.g. for the training of new machine learning models to predict sequence-structure-function relationships for diverse natural products. MIBiG 3.0 is accessible online at https://mibig.secondarymetabolites.org/.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Metagenomics harvested genus-specific single-stranded DNA-annealing proteins improve and expand recombineering in Pseudomonas species

The widespread Pseudomonas genus comprises a collection of related species with remarkable abilities to degrade plastics and polluted wastes and to produce a broad set of valuable compounds, ranging from bulk chemicals to pharmaceuticals. Pseudomonas possess characteristics of tolerance and stress resistance making them valuable hosts for industrial and environmental biotechnology. However, efficient and high-throughput genetic engineering tools have limited metabolic engineering efforts and applications. To improve their genome editing capabilities, we first employed a computational biology workflow to generate a genus-specific library of potential single-stranded DNA-annealing proteins (SSAPs). Assessment of the library was performed in different Pseudomonas using a high-throughput pooled recombinase screen followed by Oxford Nanopore NGS analysis. Among different active variants with variable levels of allelic replacement frequency (ARF), efficient SSAPs were found and characterized for mediating recombineering in the four tested species. New variants yielded higher ARFs than existing ones in Pseudomonas putida and Pseudomonas aeruginosa, and expanded the field of recombineering in Pseudomonas taiwanensisand Pseudomonas fluorescens. These findings will enhance the mutagenesis capabilities of these members of the Pseudomonas genus, increasing the possibilities for biotransformation and enhancing their potential for synthetic biology applications.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2026

Exploration of Neutron-Rich Isotopes around N = 50 via the In-Flight Fission of a 345 MeV/Nucleon 238 U Beam

A search for new neutron-rich isotopes beyond $Z=28$ and $N=50$ was performed using a 345 MeV/nucleon $^{238}$U beam at RI Beam Factory in RIKEN Nishina Center. The BigRIPS separator and state-of-the-art radiation detectors were used to efficiently separate and identify the produced nuclei. For the first time, we have observed and determined the production cross sections for eight neutron-rich isotopes $^{72}$Cr, $^{74,75}$Mn, $^{77}$Fe, $^{79,80}$Co, $^{85}$Cu, and $^{90}$Ga. This study broadens our understanding of nuclear existence and paves the way for investigating the properties of neutron-rich medium-mass nuclei.

Shimizu, Yohei [RIKEN, Saitama (Japan); et al.]↗