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At least 541 records · Page 30

Engineering well-expressed, V2-immunofocusing HIV-1 envelope glycoprotein membrane trimers for use in heterologous prime-boost vaccine regimens

HIV-1 vaccine immunofocusing strategies may be able to induce broadly-reactive neutralizing antibodies (NAbs). Here, we engineered a panel of diverse, membrane-resident native HIV-1 trimers vulnerable to two broad targets—the V2 apex and fusion peptide (FP). Selection criteria included i) high expression and ii) infectious function, so that trimer neutralization sensitivity can be profiled in pseudovirus (PV) assays. Initially, we boosted the expression of 17 candidate trimers by truncating gp41 and introducing a gp120-gp41 SOS disulfide to prevent gp120 shedding. "Repairs" were made to fill glycan holes and eliminate other strain-specific aberrations. A new neutralization assay allowed PV infection when our standard assay was insufficient. Trimers with exposed V3 loops, a target of non-NAbs, were discarded. To try to increase V2-sensitivity, we removed clashing glycans and modified the C-strand. Notably, a D167N mutation improved V2-sensitivity in several cases. Glycopeptide analysis of JR-FL trimers revealed near complete sequon occupation and that filling the N197 glycan hole was well-tolerated. In contrast, sequon optimization and inserting/removing glycans at other positions frequently had global "ripple" effects on glycan maturation and sequon occupation throughout the gp120 outer domain and gp41. V2 MAb CH01 selectively bound to trimers with small high mannose glycans near the base of the V1 loop, thereby avoiding clashes. Knocking in a rare N49 glycan was found to perturb gp41 glycans, increasing FP NAb sensitivity—and sometimes improving expression. Finally, a biophysical analysis of VLPs revealed that i) ~25% of particles bear Env spikes, ii) spontaneous particle budding is high and only increases 4-fold upon Gag transfection, and iii) Env+ particles express ~30–40 spikes. Taken together, we identified 7 diverse trimers with a range of sensitivities to two targets to allow rigorous testing of immunofocusing vaccine concepts.

60 APPLIED LIFE SCIENCES↗

Decovalex-2019 (Executive Summary)

The DECOVALEX Project is an on-going international research collaboration, established in 1992, to advance the understanding and modeling of coupled Thermal (T), Hydrological (H), Mechanical (M) and Chemical (C) processes in geological in geological systems. DECOVALEX was initially motivated by the recognition that prediction of these coupled effects is an essential part of the performance and safety assessment of geologic disposal systems for radioactive waste and spent nuclear fuel. Later it was realized that these processes also play a critical role in other subsurface engineering activities, such as subsurface CO 2 storage, enhanced geothermal systems, and unconventional oil and gas production through hydraulic fracturing. Research teams from many countries (e.g., Canada, China, Czech Republic, Finland, France, Germany, Japan, Republic of Korea, Spain, Sweden, Switzerland, Taiwan, United Kingdom, and the United States) various institutions have participated in the DECOVALEX Project over the years, providing a wide range of perspectives and solutions to these complex problems. These institutions represent radioactive waste management organizations, national research institutes, regulatory agencies, universities, as well as industry and consulting groups. The overall aim of DECOVALEX-2019 was to increase the understanding of various thermo-hydro-mechanical-chemical processes of importance for radionuclide release and transport from a repository to the biosphere and how they can be described and modelled using mathematical models. The scientific and technical objectives are: to increase the basic understanding of T-H-M-C coupled processes in fractured rocks (crystalline, sedimentary, argillaceous) and buffer materials; to investigate the predictive capabilities of different codes to field experiments and to perform verification of codes; to exchange experimental data, and improve the understanding of the constitutive behavior of crystalline and argillaceous rock masses and buffer materials; and to perform THMC calculations in a performance/safety assessment context.

58 GEOSCIENCES↗

Decovalex-2019 (Task A Final Report)

The DECOVALEX Project is an on-going international research collaboration, established in 1992, to advance the understanding and modeling of coupled Thermal (T), Hydrological (H), Mechanical (M) and Chemical (C) processes in geological in geological systems. This document is the final report of Task A which was proposed by the DECOVALEX Project and coordinated by the British Geological Survey (BGS), presenting the technical definitions of the problems studied, approaches applied, achievements made and outstanding issues for future research. The purpose of Task A under DECOVALEX-2019 is to better understand the processes governing the advective movement of gas in both low-permeability argillaceous repository host rocks and clay-based engineered barriers. Special attention is given to the mechanisms controlling gas entry, flow and pathway sealing and their impact on the performance of the engineered clay barrier. Previous work suggests gas flow may be accompanied by the creation of dilatant pathways whose properties change temporally and spatially within the medium. Thus, new numerical representations for the quantitative prediction of gas migration fluxes through argillaceous rock formations have been developed. These provide an invaluable tool with which to assess the impact of gas flow on repository layout and therefore design of any future facility. In addition, experience gained through this task is of direct relevance to other clay-based engineering issues where immiscible gas flow is a consideration including shale gas, hydrocarbon migration, carbon capture and storage and landfill design.

58 GEOSCIENCES↗

DECOVALEX-2023: Task B Final Report

In all repository concepts for the geological disposal of radioactive waste, an engineered barrier system (EBS) is used to encapsulate the waste canister, or, to act as borehole or gallery seals. These systems are often based on bentonite clays due to their low permeability and high swelling capacity enabling the closure of engineering voids. However, in all repository concepts gases will be generated through the corrosion of metallic materials (under anoxic conditions), the radioactive decay of waste and the radiolysis of water. Thus, understanding the processes and mechanisms controlling the advective movement of gas (as a discrete phase) in clay-based materials is a key aspect when assessing the impact of gas flow in a repository safety case.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Multiparameter Constraints on Empirical Infrasound Period-Yield Relations for Bolides and Implications for Planetary Defense

How effective are methods for estimating bolide energies from infrasound signal period-yield relationships? A single global period–energy relation can obscure significant variability introduced by parameters such as the atmospheric Doppler wind profile and the bolide’s energy deposition profile as a function of altitude. Bolide speed, entry angle, burst altitude, and multiepisode fragmentation may all play a role in defining the detected period of the shockwave. By leveraging bolide light-curve data from the Center for Near Earth Object Studies, we re-examined the period–energy relation as a function of these parameters. Through a bootstrap approach, we show that various event subsets can deviate from widely cited period–energy models and we identify which specific conditions most strongly reshape the period–energy scaling. The results define both the fidelity and reliability of period–energy relations when no additional data beyond the infrasound record is available and improve the outcome when supporting data from bolide trajectories and light curves are included. Ultimately, these findings expand the scope of earlier models, providing a nuanced and robust framework for infrasound-only yield estimation under a range of bolide scenarios.

Planetary science↗

Measurements of Effective Optical Depth in the Lyα Forest from the BOSS DR12 Quasar Sample

We measure the effective optical depth in the Lyα forest using 40,035 quasar spectra from the Twelfth Data Release (DR12) of the Baryon Oscillation Spectroscopic Survey of Sloan Digital Sky Survey IV. A rigorous selection based on spectral index and the equivalent width of the C iv emission line is applied to choose seven uniform samples with minimal intrinsic variations across redshifts. Modeling the redshift evolution of the effective optical depth with a power law, ${\tau }_{\mathrm{eff}}={\tau }_{0}{(1+z)}^{\gamma },$ produces ${\tau }_{0}=(5.54\pm 0.64)\times {10}^{-3}$ and $\gamma =3.182\pm 0.074$. The 2.2% precision estimate on γ is dominated by systematic errors, likely arising from the bias and uncertainties in spectral index estimates. Even after incorporating the systematic errors, this work provides the most precise estimates of optical depth parameters to date. Finally, using the reconstructed Lyα forest continuum to directly measure the transmitted flux ratio as a function of redshift, we find deviations of less than 2.5% from the predictions from the global model and no convincing evidence for signal associated with He ii reionization.

79 ASTRONOMY AND ASTROPHYSICS↗

The Completed SDSS-IV Extended Baryon Oscillation Spectroscopic Survey: Baryon Acoustic Oscillations with Ly$α$ Forests

Here, we present a measurement of baryonic acoustic oscillations (BAO) from Lyman-α (Lyα) absorption and quasars at an effective redshift $z = 2.33$ using the complete extended Baryonic Oscillation Spectroscopic Survey (eBOSS). The sixteenth and final eBOSS data release (SDSS DR16) contains all data from eBOSS and its predecessor, the Baryonic Oscillation Spectroscopic Survey (BOSS), providing 210,005 quasars with $z_q > 2.10$ that are used to measure Lyα absorption. We measure the BAO scale both in the auto-correlation of Ly$α$ absorption and in its cross correlation with 341,468 quasars with redshift $z_q > 1.77$. Apart from the statistical gain from new quasars and deeper observations, the main improvements over previous work come from more accurate modeling of physical and instrumental correlations and the use of new sets of mock data. Combining the BAO measurement from the auto- and cross-correlation yields the constraints of the two ratios $D_H(z = 2.33)/r_d = 8.99 ± 0.19$ and $D_M(z = 2.33)/r_d = 37.5 ± 1.1$, where the error bars are statistical. These results are within $1.5σ$ of the prediction of the flat-ΛCDM cosmology of Planck (2016). The analysis code, picca, the catalog of the flux-transmission field measurements, and the $Δ\chi^2$ surfaces are publicly available.

79 ASTRONOMY AND ASTROPHYSICS↗

The 16th Data Release of the Sloan Digital Sky Surveys: First Release from the APOGEE-2 Southern Survey and Full Release of eBOSS Spectra

The Sloan Digital Sky Surveys (SDSS) have been observing the skies from Apache Point Observatory (APO) since 1998 (using the 2.5m Sloan Foundation Telescope, Gunn et al. 2006) and from Las Campanas Observatory (LCO) since 2017 (using the du Pont 2.5m Telescope). Representing the fourth phase of SDSS, SDSS-IV (Blanton et al. 2017) consists of three main surveys; the Extended Baryon Oscillation Spectroscopic Survey (eBOSS; Dawson et al. 2016), Mapping Nearby Galaxies at APO (MaNGA; Bundy et al. 2015), and the APO Galactic Evolution Experiment 2 (APOGEE-2; Majewski et al. 2017). Within eBOSS, SDSS-IV has also conducted two smaller programs: the SPectroscopic IDentification of ERosita Sources (SPIDERS; Clerc et al. 2016; Dwelly et al. 2017) and the Time Domain Spectroscopic Survey (TDSS; Morganson et al. 2015). These programs have investigated a broad range of cosmological scales, including cosmology with large-scale structure in eBOSS, the population of quasars and variable or X-ray-emitting stars with TDSS and SPIDERS; nearby galaxies in MaNGA; and the Milky Way and its stars in APOGEE-2.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

The Sloan Digital Sky Survey Quasar Catalog: Sixteenth Data Release

We present the final Sloan Digital Sky Survey IV (SDSS-IV) quasar catalog from Data Release 16 of the extended Baryon Oscillation Spectroscopic Survey (eBOSS). This catalog comprises the largest selection of spectroscopically confirmed quasars to date. The full catalog includes two subcatalogs (the current versions are DR16Q_v4 and DR16Q_Superset_v3 at https://data.sdss.org/sas/dr16/eboss/qso/DR16Q/): a "superset" of all SDSS-IV/eBOSS objects targeted as quasars containing 1,440,615 observations and a quasar-only catalog containing 750,414 quasars, including 225,082 new quasars appearing in an SDSS data release for the first time, as well as known quasars from SDSS-I/II/III. We present automated identification and redshift information for these quasars alongside data from visual inspections for 320,161 spectra. Here, the quasar-only catalog is estimated to be 99.8% complete with 0.3%-1.3% contamination. Automated and visual inspection redshifts are supplemented by redshifts derived via principal component analysis and emission lines. We include emission-line redshifts for Hα, Hβ, Mg II, C III], C IV, and Lyα. Identification and key characteristics generated by automated algorithms are presented for 99,856 broad absorption-line quasars and 35,686 damped Lyman alpha quasars. In addition to SDSS photometric data, we also present multiwavelength data for quasars from the Galaxy Evolution Explorer, UKIDSS, the Wide-field Infrared Survey Explorer, FIRST, ROSAT/2RXS, XMM-Newton, and Gaia. Calibrated digital optical spectra for these quasars can be obtained from the SDSS Science Archive Server.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

EP 250108a/SN 2025kg: Observations of the Most Nearby Broad-line Type Ic Supernova Following an Einstein Probe Fast X-Ray Transient

With a small sample of fast X-ray transients (FXTs) with multiwavelength counterparts discovered to date, their progenitors and connections to γ-ray bursts (GRBs) and supernovae (SNe) remain ambiguous. Here, we present photometric and spectroscopic observations of SN 2025kg, the SN counterpart to the FXT EP 250108a. At z = 0.17641, this is the closest known SN discovered following an Einstein Probe (EP) FXT. We show that SN 2025kg’s optical spectra reveal the hallmark features of a broad-lined Type Ic SN. Its light-curve evolution and expansion velocities are comparable to those of GRB-SNe, including SN 1998bw, and two past FXT-SNe. We present JWST/NIRSpec spectroscopy taken around SN 2025kg’s maximum light, and find weak absorption due to He I 1.0830 μm and 2.0581 μm and a broad, unidentified emission feature at ∼4–4.5 μm. Further, we observe broadened Hα in optical data at 42.5 days that is not detected at other epochs, indicating interaction with H-rich material. From its light curve, we derive a 56 Ni mass of 0.2–0.6 M ⊙ . Together with our companion Letter, our broadband data are consistent with a trapped or low-energy (≲10 51 erg) jet-driven explosion from a collapsar with a zero-age main-sequence mass of 15–30 M ⊙ . Finally, we show that the sample of EP FXT-SNe supports past estimates that low-luminosity jets seen through FXTs are more common than successful (GRB) jets, and that similar FXT-like signatures are likely present in at least a few percent of the brightest Type Ic-BL SNe.

79 ASTRONOMY AND ASTROPHYSICS↗

CMIP7 data request: land and land ice priorities and opportunities

The Land and Land Ice Theme in the Coupled Model Intercomparison Project Phase 7 (CMIP7) represents the current understanding of physical processes in land surface ecosystems, hydrology, cryosphere, and their physical interactions with other Earth system components. Simulations from Earth system models (ESMs) could provide crucial information for assessing planetary safety, such as critical tipping elements, and be used to inform climate risks for improving climate impact assessments and policy decisions. This paper presents a collaborative effort to identify scientific opportunities in the Land and Land Ice Theme of the CMIP7 Data Request. The proposed opportunities build upon advances in ESMs, including new freshwater system and land ice processes being included in CMIP7, as well as the scientific community's demand for high-frequency and sub-grid-scale land surface outputs. In total, 25 variable groups that contain 716 variables have been identified to be potentially available to the broad scientific audience for performing analysis in land–atmosphere coupling, hydrological processes and freshwater systems, glacier and ice sheet mass balance and their influence on the sea levels, land use, and plant phenology. Key reflections from this data request effort include advocacy for closer engagement between the user community and modeling groups, reduction in the technical barriers to tracking existing parameters and defining new variables, and more streamlined variable management. These will be essential to enhance the usability and reliability of CMIP7 outputs for climate and Earth system research and applications to a broad audience that relies on the CMIP7 endeavor.

Li, Yue [Univ. of California, Los Angeles, CA (Uni↗

ROSAT-IUE All Sky Survey (RIASS): First results on active galaxies

To optimize the activity of the RIASS collaboration was established between IUE and Rosat projects. Some of the results obtained are given and the importance of such coordinated observations for the Spectral Energy Distribution (SED) definition of Active Galactic Nuclei is illustrated. All the participants in the AGN part of the RIASS program are listed. The RIASS observations allow for a comprehensive study of the overall spectral energy distribution of AGN's. For the first time, data from different instruments can be used to determine the SED, since the observations were simultaneous. A preliminary analysis shows that the energies radiated in the UV and the soft X-rays domains are closely related. The spectra of individual objects as well as the correlation found between the intensity of CIV lambda 1550 emission line and the soft X-rays luminosity, suggest that the excess detected in this band is the high energy tail of the big UV bump.

Wamsteker, W.↗

Predatory prokaryotes: predation and primary consumption evolved in bacteria

Two kinds of predatory bacteria have been observed and characterized by light and electron microscopy in samples from freshwater sulfurous lakes in northeastern Spain. The first bacterium, named Vampirococcus, is Gram-negative and ovoidal (0.6 micrometer wide). An anaerobic epibiont, it adheres to the surface of phototrophic bacteria (Chromatium spp.) by specific attachment structures and, as it grows and divides by fission, destroys its prey. An important in situ predatory role can be inferred for Vampirococcus from direct counts in natural samples. The second bacterium, named Daptobacter, is a Gram-negative, facultatively anaerobic straight rod (0.5 x 1.5 micrometers) with a single polar flagellum, which collides, penetrates, and grows inside the cytoplasm of its prey (several genera of Chromatiaceae). Considering also the well-known case of Bdellovibrio, a Gram-negative, aerobic curved rod that penetrates and divides in the periplasmic space of many chemotrophic Gram-negative bacteria, there are three types of predatory prokaryotes presently known (epibiotic, cytoplasmic, and periplasmic). Thus, we conclude that antagonistic relationships such as primary consumption, predation, and scavenging had already evolved in microbial ecosystems prior to the appearance of eukaryotes. Furthermore, because they represent methods by which prokaryotes can penetrate other prokaryotes in the absence of phagocytosis, these associations can be considered preadaptation for the origin of intracellular organelles.

Non-NASA Center↗

Atrial Septal Aneurysm and Patent Foramen Ovale as Risk Factors for Cryptogenic Stroke in Patients Less Than 55 Years of Age: A Study using Transesophageal Echocardiography

Background and Purpose: An association between atrial septal aneurysm and embolic events has been suggested. Atrial septal aneurysm has been shown to be associated with patent foramen ovale and,.in some reports, with mitral valve prolapse. These two latter cardiac disorder; have been identified as potential risk factors for ischemic stroke. The aim of this prospective study was to assess the role of atrial septal aneurysm as an independent risk factor for stroke, especially for cryptogenic stroke. Methods: We studied the prevalence of atrial septal aneurysm, patent foramen ovale, and mitral valve prolapse in 100 consecutive patients <55 years of age with ischemic stroke who underwent extensive etiological investigations. We compared these results with those in a control group of 50 consecutive patients. The diagnosis of atrial septal aneurysm and patent foramen ovale relied on transesophageal echocardiography with a contrast study and that of mitral valve prolapse, on two-dimensional transthoracic echocardiography. Results: Stepwise logistic regression analysis showed that atrial septal aneurysm (odds ratio, 4.3; 95% confidence interval, 1.3 to 14.6; P=.01) and patent foramen ovale (odds ratio, 3.9; 95% confidence interval, 1.5 to 10; P=.003) but not mitral valve prolapse were significantly associated with the diagnosis of cryptogenic stroke. The stroke odds of a patient with both atrial septal aneurysm and patent foramen ovale were 33.3 times (95% confidence interval, 4.1 to 270) the stroke odds of a patient with neither of these cardiac disorders. For a patient with atrial septal aneurysm of >lo-mm excursion, the stroke odds were approximately 8 times the stroke odds of a patient with atrial septal aneurysm of <10 mm. Conclusions: This study shows that atrial septal aneurysm and patent foramen ovale are both significantly associated with cryptogenic stroke and that their association has a marked synergistic effect. Atrial septal aneurysms of >lo-mm excursion are associated with a higher risk of stroke. (Stroke. 1993;24:1865-1873.) KEY WORDS aneurysm echocardiography foramen ovale, patent mitral valve prolapse o young adults

Cabanes, L.↗

Patent Foramen Ovale: Is Stroke Due to Paradoxical Embolism?

Background and Purpose: A patent foramen ovale has been reported to be significantly more frequent in young stroke patients than in matched control subjects, and paradoxical embolism has been suggested as the main mechanism of stroke in-this situation. The present study was designed to test this hypothesis. Methods: Sixty-eight consecutive patients under 55 years of age presenting with an ischemic stroke had an extensive workup, including transesophageal echocardiography with contrast. We compared the prevalence of criteria for the diagnosis of paradoxical embolism in patients with and without a patent foramen ovale. Results: A patent foramen ovale was found in 32 patients (47%). A Valsalva-provoking activity was present at stroke onset in six patients with a patent foramen ovale and in eight patients with no patent foramen ovale (X(sup 2)=0.1, nonsignificant). Clinical/radiological features suggestive of an embolic mechanism were not more frequent in patients with a patent foramen ovale. Clinical evidence of deep vein thrombosis was present in one patient with a patent foramen ovale and in none of the others. No occult venous thrombosis was found in a subgroup of patients with a patent foramen ovale and no definite cause for stroke who underwent venography (n=13). Conclusions. Our results do not support the hypothesis that paradoxical embolism is the primary mechanism of stroke in patients with a patent foramen ovale. (Stroke 1993;24:31-34) KEY WORDS e cerebral ischemia e embolism foramen ovale, patent

Ranoux, D.↗