bluuebunny/crossref_metadata_2025_split huggingface dataset:
Molecular composition of skeletal muscle in infants and adults: a comparative proteomic and transcriptomic study
Authors: Schaiter Alexander , Hentschel Andreas , Kleefeld Felix , Schuld Julia , Umathum Vincent , Procida-Kowalski Tara , Nelke Christopher , Roth Angela , Hahn Andreas , Krämer Heidrun H. , Ruck Tobias , Horvath Rita , van der Ven Peter F. M. , Bartkuhn Marek , Roos Andreas , Schänzer Anne 
Published: October 2024

AbstractTo gain a deeper understanding of skeletal muscle function in younger age and aging in elderly, identification of molecular signatures regulating these functions under physiological conditions is needed. Although molecular studies of healthy muscle have been conducted on adults and older subjects, there is a lack of research on infant muscle in terms of combined morphological, transcriptomic and proteomic profiles. To address this gap of knowledge, we performed RNA sequencing (RNA-seq), tandem mass spectrometry (LC–MS/MS), morphometric analysis and assays for mitochondrial maintenance in skeletal muscle biopsies from both, infants aged 4–28 months and adults aged 19–65 years. We identified differently expressed genes (DEGs) and differentially expressed proteins (DEPs) in adults compared to infants. The down-regulated genes in adults were associated with functional terms primarily related to sarcomeres, cellular maintenance, and metabolic, immunological and developmental processes. Thus, our study indicates age-related differences in the molecular signatures and associated functions of healthy skeletal muscle. Moreover, the findings assert that processes previously associated solely with aging are indeed part of development and healthy aging. Hence, combined findings of this study also indicate that age-dependent controls are crucial in muscle disease studies, as otherwise the comparative results may not be reliable.
Development of novel rectal/uterine clamping device
Authors: Urabe Shoichiro , Hata Taishi , Kobayashi Eiji , Ishii Yuji , Ushimaru Yuki , Takeda Mitsunobu , Sekido Yuki , Hata Tsuyoshi , Hamabe Atsushi , Ogino Takayuki , Miyoshi Norikatsu , Uemura Mamoru , Yamamoto Hirofumi , Doki Yuichiro , Eguchi Hidetoshi , Nakajima Kiyokazu 
Published: October 2024

AbstractWe developed a novel clamping device for laparoscopic surgery, free from conventional pinch structure, capable of uniformly occluding any ductal organ. This study aimed to evaluate performance of the new clamper compared to the pinch-type clamper. The new clamper consists of two metal bars with ties at each end, which enables parallel clamping. A resected porcine stomach was used, with an infusion tube at the anal end to increase intra-luminal pressure. The oral side of the stomach was clamped with either the new clamper or the pinch-type clamper, and their performances were evaluated in qualitative and semi-quantitative manner. Qualitative evaluation involved imaging the clamping site at intra-gastric pressures from 0 to 15 mmHg using microfocus computed tomography. The new clamper showed no gap even under increased intra-luminal pressure, while the pinch-type clamper showed a gap on the distal side. Quantitative evaluation measured bursting pressure under continuous air insufflation. Air leakages were observed in the new clamper at higher intra-luminal pressures than in the pinch-type clamper (46.1 mmHg vs. 13.6 mmHg, P < 0.01). Our new clamping device showed superior performance in preclinical setting compared to the conventional pinch-type clamper. We are currently working on its design freezing and aiming for early commercialization.
Sexual dimorphism in a mouse model of Friedreich’s ataxia with severe cardiomyopathy
Authors: Salinas Lili , Montgomery Claire B. , Figueroa Francisco , Thai Phung N. , Chiamvimonvat Nipavan , Cortopassi Gino , Dedkova Elena N. 
Published: October 2024

AbstractFriedreich’s ataxia (FA) is an autosomal recessive disorder caused by reduced frataxin (FXN) expression in mitochondria, where the lethal component is cardiomyopathy. Using the conditional Fxnflox/null::MCK-Cre knock-out (Fxn-cKO) mouse model, we discovered significant sex differences in the progression towards heart failure, with Fxn-cKO males exhibiting a worse cardiac phenotype, low survival rate, kidney and reproductive organ deficiencies. These differences are likely due to a decline in testosterone in Fxn-cKO males. The decrease in testosterone was related to decreased expression of proteins involved in cholesterol transfer into the mitochondria: StAR and TSPO on the outer mitochondrial membrane, and the cholesterol side-chain cleavage enzyme P450scc and ferredoxin on the inner mitochondrial membrane. Expression of excitation-contraction coupling proteins (L-type calcium channel, RyR2, SERCA2, phospholamban and CaMKIIδ) was decreased significantly more in Fxn-cKO males. This is the first study that extensively investigates the sexual dimorphism in FA mouse model with cardiac calcium signaling impairment.
Multiple measures for self-identification improve matching donors with patients in unrelated hematopoietic stem cell transplant
Authors: Damotte Vincent , Zhao Chao , Lin Chris , Williams Eric , Louzoun Yoram , Madbouly Abeer , Kotlarz Rochelle , McDaniel Marissa , Norman Paul J. , Wang Yong , Maiers Martin , Hollenbach Jill A. 
Published: October 2024

AbstractBackgroundQuestions persist around whether and how to use race or geographic ancestry in biomedical research and medicine, but these forms of self-identification serve as a critical tool to inform matching algorithms for human leukocyte antigen (HLA) of varying levels of resolution for unrelated hematopoietic stem cell transplant in large donor registries.MethodsHere, we examined multiple self-reported measures of race and ancestry from a survey of a cohort of over 100,000 U.S. volunteer bone marrow donors alongside their high-resolutionHLAgenotype data.ResultsWe find that these self-report measures are often non-overlapping, and that no single self-reported measure alone provides a better fit toHLAgenetic ancestry than a combination including both race and geographic ancestry. We also found that patterns of reporting for race and ancestry appear to be influenced by participation in direct-to-consumer genetic ancestry testing.ConclusionsWhile these data are not used directly in matching for transplant, our results demonstrate that there is a place for the language of both race and geographic ancestry in the critical process of facilitating accurate prediction ofHLAin the donor registry context.
C4 grasses employ distinct strategies to acclimate rubisco activase to heat stress
Authors: Stainbrook Sarah C. , Aubuchon Lindsey N. , Chen Amanda , Johnson Emily , Si Audrey , Walton Laila , Ahrendt Angela J. , Strenkert Daniela , Jez Joseph M. 
Published: October 2024

Abstract
Rising temperatures due to the current climate crisis will soon have devastating impacts on crop performance and resilience. In particular, CO2 assimilation is dramatically limited at high temperatures. CO2 assimilation is accomplished by rubisco, which is inhibited by the binding of inhibitory sugar phosphates to its active site. Plants therefore utilize the essential chaperone rubisco activase (RCA) to remove these inhibitors and enable continued CO2 fixation. However, RCA does not function at moderately high temperatures (42°C), resulting in impaired rubisco activity and reduced CO2 assimilation. We set out to understand temperature-dependent RCA regulation in four different C4 plants, with a focus on the crop plants maize (two cultivars) and sorghum, as well as the model grass Setaria viridis (setaria) using gas exchange measurements, which confirm that CO2 assimilation is limited by carboxylation in these organisms at high temperatures (42°C). All three species express distinct complements of RCA isoforms and each species alters the isoform and proteoform abundances in response to heat; however, the changes are species-specific. We also examine whether the heat-mediated inactivation of RCA is due to biochemical regulation rather than simple thermal denaturation. We reveal that biochemical regulation affects RCA function differently in different C4 species, and differences are apparent even between different cultivars of the same species. Our results suggest that each grass evolved different strategies to maintain RCA function during stress and we conclude that a successful engineering approach aimed at improving carbon capture in C4 grasses will need to accommodate these individual regulatory mechanisms.
A conceptual framework proposal for the implementation of Prognostic and Health Management in production systems
Authors: Abbate Raffaele , Franciosi Chiara , Voisin Alexandre , Fera Marcello 
Published: October 2024

AbstractPrognostic and Health Management (PHM) is an emerging maintenance concept that is highly regarded by the scientific community and practitioners, as its adoption can bring economic, technical and environmental benefits to a company. PHM fully reflects the smart maintenance paradigm encompassing data collection, data manipulation, state detection, health assessment, prognostic assessment and advisory generation. Despite the undeniable benefits, there is still a large gap between the scientific and the real world. Several authors have investigated on the barriers to PHM implementation for companies, highlighting among them the lack of systematic approaches to its design and implementation. As a first contribution to this topic, the authors conducted a systematic literature review (SLR) to investigate the use of Decision Support Systems (DSSs) to support the PHM implementation. The SLR highlighted that few DSS had been developed and were limited to critical unit identification, maintenance strategy selection and data acquisition phase of PHM. Therefore, a conceptual framework for PHM implementation was provided as a second contribution. This framework summarises the decisions that should be addressed by a practitioner wishing to implement PHM services; moreover, it could lay the foundations for the development/improvement of the missing/existing DSSs for PHM implementation.
Design and implementation of passive impedance adapter to damp resonances between VSC‐HVDC and AC systems
Authors: Zou Changyue , Feng Junjie , Zhao Xiaobin , Yuan Yi , Hou Ting 
Published: October 2024

AbstractIt has been known that resonances often occur when high‐voltage direct current (HVDC) systems are connected into the AC system via voltage‐source converters (VSCs). The resonances may lead to system failure and even damage primary equipment under some severe conditions. However, the existing damping methods are inadequate to ensure the system is always stable. To solve it, this article introduces the passive impedance adapter (PIA) in parallel with VSC to compensate the negative impedance of VSC‐HVDC system especially at mid‐ and high‐frequency ranges. A novel design and implementation method for the PIA is then proposed with the reduced volume and power loss to ensure the whole system impedance always positive. By this way, no resonance exists and the system is stable under any practical condition, such as the different cable lengths and impedances. Finally, a simulation platform is built to verify the effectiveness of the proposed PIA method in compensating the VSC‐HVDC impedance.
Microlensing analysis of 14.5-year light curves in SDSS J1004+4112: Quasar accretion disk size and intracluster stellar mass fraction
Authors: Forés-Toribio R. , Muñoz J. A. , Fian C. , Jiménez-Vicente J. , Mediavilla E. 
Published: October 2024

Context. The gravitational lens system SDSS J1004+4112 was the first known example of a quasar lensed by a galaxy cluster. The interest in this system has been renewed following the publication of r-band light curves spanning 14.5 years and the determination of the time delays between the four brightest quasar images.
Aims. We constrained the quasar accretion disk size and the fraction of the lens mass in stars using the signature of microlensing in the quasar image light curves.
Methods. We built the six possible histograms of microlensing magnitude differences between the four quasar images and compared them with simulated model histograms, using a χ2 test to infer the model parameters.
Results. We infer a quasar disk half-light radius of
R1/2 = (0.70 ± 0.04)RE = (6.4 ± 0.4) √M/0.3M⊙
light-days at 2407 Å in the rest frame and stellar mass fractions at the quasar image positions of αA > 0.059,
αB = 0.056+0.021-0.027,
αC = 0.030+0.031-0.021, and
αD = 0.072+0.034-0.016.

Conclusions. The inferred disk size is broadly compatible with most previous estimates, and the stellar mass fractions are within the expected ranges for galaxy clusters. In the region where image C lies, the stellar mass fraction is compatible with a stellar contribution from the brightest cluster galaxy, galaxy cluster members, and intracluster light, but the values at images B, D, and especially A are slightly larger, possibly suggesting the presence of extra stellar components.
S-process nucleosynthesis in chemically peculiar binaries
Authors: Dimoff A. J. , Hansen C. J. , Stancliffe R. , Kubátová B. , Stateva I. , Kučinskas A. , Dobrovolskas V. 
Published: October 2024

Context. Around half of the heavy elements in the Universe are formed through the slow neutron capture (s-) process, which takes place in thermally pulsing asymptotic giant branch (AGB) stars with masses of 1 − 6 M⊙. The nucleosynthetic imprint of the s-process can be studied by observing the material on the surface of binary barium (Ba), carbon (C), CH, and carbon-enhanced metal-poor (CEMP) stars.
Aims. We study the s-process by observing the luminous components of binary systems polluted by a previous AGB companion. Our radial velocity (RV) monitoring program establishes an ongoing collection of binary stars exhibiting enrichment in s-process material for the study of elemental abundances, the production of s-process material, and binary mass transfer.
Methods. From high-resolution optical spectra, we measured RVs for 350 stars and derived stellar parameters for approximately 150 stars using ATHOS. For a subsample of 24 chemically interesting stars, we refined our atmospheric parameters using ionization and excitation balance with the Xiru program. We used the MOOG code to compute one-dimensional local thermodynamic equilibrium (1D-LTE) abundances of carbon, magnesium, s-process elements (Sr, Y, Zr, Mo, Ba, La, Ce, Nd, Pb), and Eu to investigate neutron capture events and stellar chemical composition. We estimated dynamical stellar masses via orbital optimization using Markov chain Monte Carlo techniques in the ELC program, and we compared our results with low-mass AGB models in the FUll-Network Repository of Updated Isotopic Tables & Yields (FRUITY) database.
Results. In our abundance subsample, we find enhancements in s-process material in spectroscopic binaries, a signature of AGB mass transfer. We add the element Mo to the abundance patterns, and for 12 stars we add Pb detections or upper limits, as these are not known in the literature. Computed abundances are in general agreement with the literature. Comparing our abundances to dilution-modified FRUITY yields, we find correlations in s-process enrichment and AGB mass, which are supported by dynamical modeling from RVs.
Conclusions. From our high-resolution observations, we expand heavy element abundance patterns and highlight binarity in our chemically interesting systems. We find trends in s-process element enhancement from AGB stars, and agreement between theoretical and dynamically modeled masses. We investigate evolutionary stages for a small subset of our stars.
Impact of H I cooling and study of accretion disks in asymptotic giant branch wind-companion smoothed particle hydrodynamic simulations
Authors: Malfait J. , Siess L. , Esseldeurs M. , De Ceuster F. , Wallström S. H. J. , de Koter A. , Decin L. 
Published: October 2024

Context. High-resolution observations reveal that the outflows of evolved low- and intermediate-mass stars harbour complex morphological structures that are linked to the presence of one or multiple companions. Hydrodynamical simulations provide a way to study the impact of a companion on the shaping of the asymptotic giant branch (AGB) star out-flow.
Aims. Using smoothed particle hydrodynamic (SPH) simulations of an AGB star undergoing mass loss, which also has a binary companion, we study the impact of including H I atomic line cooling on the flow morphology. We also study how this affects the properties of the accretion disks that form around the companion.
Methods. We used the PHANTOM code to perform high-resolution 3D SPH simulations of the interaction of a solar-mass companion with the outflow of an AGB star, using different wind velocities and eccentricities. We compared the model properties, computed with and without the inclusion of H I cooling.
Results. The inclusion of H I cooling produces a sizeable decrease in the temperature, up to one order of magnitude, in the region closely surrounding the companion star. As a consequence, the morphological irregularities and relatively energetic (bipolar) outflows that were obtained without H I cooling no longer appear. In the case of an eccentric orbit and a low wind velocity, these morphologies are still highly asymmetric, but the same structures recur at every orbital period, making the morphology more regular. Flared accretion disks, with a (sub-)Keplerian velocity profile, are found to form around the companion in all our models with H I cooling, provided the accretion radius is small enough. The disks have radial sizes ranging from about 0.4 to 0.9 au and masses around 10−7−10−8 M⊙. For the considered wind velocities, mass accretion onto the companion is up to a factor of 2 higher than predicted by the standard Bondi Hoyle Littleton rate, ranging between ~4 to 21% of the AGB wind mass loss rate. The lower the wind velocity at the location of the companion, the larger and the more massive the disk and the higher the mass accretion efficiency. In eccentric systems, the disk size, disk mass, and mass accretion efficiency vary, depending on the orbital phase.
Conclusions. H I cooling is an essential ingredient to properly model the medium around the companion where density-enhanced wind structures form and it favours the formation of an accretion disk.
Modeling long carbon-chain species formation with porous multiphase models
Authors: Song Ziwen , Chang Qiang , Meng Qingkuan , Zhang Xia 
Published: October 2024

Context. Recent studies show that multiphase models trap too many volatile species such as CH4 inside ice mantles, so they usually underestimate the abundances of long carbon-chain species observed toward warm carbon-chain chemistry (WCCC) sources.
Aims. We propose a new multiphase model that allows more volatile species to diffuse out of the ice mantle upon warming. The new multiphase model is used to study the synthesis of long carbon-chain molecules in WCCC sources.
Methods. We included porous structure in the ice mantles. The porous structure can enlarge the active layers of ice mantles so that fewer volatile species are trapped. The porous multiphase models were simulated using an accelerated Gillespie algorithm.
Results. The abundances of long carbon-chain species predicted by the porous multiphase models can be more than one order of magnitude higher than those predicted by the multiphase model at temperatures relevant to WCCC sources. Moreover, the porous multiphase models predict more abundant long carbon-chain species as the porosity of the ice mantles increases. On the other hand, the two-phase model still estimates higher long carbon-chain species abundances than the porous multiphase models do. The abundances of long carbon-chain species predicted by our porous multiphase models agree reasonably well with observations toward three WCCC sources, L483, L1527, and B228.
Conclusions. Our porous multiphase model solves the problem of too many volatile species being trapped in ice mantles in the multiphase models.
Identifying the mechanisms of water maser variability during the accretion burst in NGC6334I
Authors: Vorster J. M. , Chibueze J. O. , Hirota T. , MacLeod G. C. , van der Walt D. J. , Vorobyov E. I. , Sobolev A. M. , Juvela M. 
Published: October 2024

Context. High-mass young stellar objects gain most of their mass in short intense bursts of accretion. Maser emission is an invaluable tool in discovering and probing these accretion bursts.
Aims. Our aim was to observe the 22 GHz water maser response induced by the accretion burst in NGC6334I-MM1B and to identify the underlying maser variability mechanisms.
Methods. We report seven epochs of very long baseline interferometry (VLBI) observations of 22 GHz water masers in NGC6334I with the VLBI Exploration of Radio Astrometry (VERA) array, from 2014 to 2016, spanning the onset of the accretion burst in 2015.1. We also report 2019 Atacama Large Millimeter/submillimeter Array (ALMA) observations of 321 GHz water masers and 22 GHz single-dish maser monitoring by the Hartebeesthoek Radio Astronomical Observatory (HartRAO). We analysed long-term variability patterns and used proper motions with the 22 GHz to 321 GHz line ratio to distinguish between masers in non-dissociative C-shocks and dissociative J-shocks. We also calculated the burst-to-quiescent variance ratio of the single-dish time series.
Results. We detected a water maser distribution resembling a bipolar outflow morphology. The constant mean proper motion before and after the burst indicates that maser variability is due to excitation effects from variable radiation rather than jet ejecta. For the whole region, we find that the flux density variance ratio in the single-dish time series can identify maser efficiency variations in 22 GHz masers. The northern region, CM2-W2, is excited in C-shocks and showed long-term flaring with velocity-dependent excitation of new maser features after the onset of the burst. We propose that radiative heating of H2 due to high-energy radiation from the accretion burst be the main mechanism for the flaring in CM2-W2. The southern regions are excited by J-shocks, which have shown short-term flaring and dampening of water masers. We attribute the diverse variability patterns in the southern regions to the radiative transfer of the burst energy in the complex source geometry.
Conclusions. Our results indicate that the effects of source geometry, shock type, and incident radiation spectrum are fundamental factors affecting 22 GHz maser variability. Investigating water masers in irradiated shocks will improve their use as a diagnostic in time-variable radiation environments, such as accretion bursting sources.