bluuebunny/crossref_metadata_2025_split huggingface dataset:
Light Under Arctic Sea Ice in Observations and Earth System Models
Authors: Lebrun Marion , Vancoppenolle Martin , Madec Gurvan , Babin Marcel , Becu Guislain , Lourenço Antonio , Nomura Daiki , Vivier Frederic , Delille Bruno 
Published: February 2023

AbstractThe intensity and spectrum of light under Arctic sea ice, key to the energy budget and primary productivity of the Arctic Ocean, are tedious to observe. Earth System Models (ESMs) are instrumental in understanding the large‐scale properties and impacts of under‐ice light. To date, however, ESM parameterizations of radiative transfer have been evaluated with a few observations only. From observational programs conducted over the past decade at four locations in the Northern Hemisphere sea ice zone, 349 observational records of under‐ice light and coincident environmental characteristics were compiled. This data set was used to evaluate seven ESM parameterizations. Snow depth, melt pond presence and, to some extent, ice thickness explain the observed variance in light intensity, in agreement with previous work. The effects of Chlorophyll‐a are also detected, with rather low intensity. The spectral distribution of under‐ice light largely differs from typical open ocean spectra but weakly varies among the 349 records except for a weak effect of snow depth on the blue light contribution. Most parameterizations considered reproduce variations in under‐ice light intensity. Large errors remain for individual records, on average by a factor of ∼3, however. Skill largely improves if more predictors are considered (snow and ponds in particular). Residual errors are attributed to missing physics in the parametrizations, inconsistencies in the model‐observation comparison protocol, and measurement errors. We provide recommendations to improve the representation of light under sea ice in the ice‐ocean model NEMO, which may also apply to other ESMs and help improve next‐generation ESMs.
Impact of Extratropical Northeast Pacific SST on U.S. West Coast Precipitation
Authors: Beaudin É. , Di Lorenzo E. , Miller A. J. , Seo H. , Joh Y. 
Published: February 2023

AbstractThe rainfall over the U.S. West Coast is known to be highly influenced by large‐scale atmospheric circulation and tropical climate teleconnections. However, the role of North Pacific oceanic variability is less understood. Using high‐resolution regional atmospheric model simulations forced by sustained positive and negative phases of the extratropical Pacific Decadal Oscillation sea surface temperature anomalies (SSTa), we diagnose the precipitation changes over the U.S. West Coast during 2010–2020. We find that precipitation anomalies are up to 60% stronger (weaker) for the warm (cold) cases, especially over Northern and Central California during wintertime, and Baja California in the summertime. In both seasons, precipitation is predominantly modulated through changes in the water vapor flux, which are directed toward the coast in wintertime and away from the coast during summertime. These flux anomalies are primarily driven by large‐scale changes in the wind associated with the atmospheric adjustment to the strong ocean SSTa.
A Long‐Term Earthquake Catalog for the Endeavour Segment: Constraints on the Extensional Cycle and Evidence for Hydrothermal Venting Supported by Propagating Rifts
Authors: Krauss Zoe , Wilcock William S. D. , Heesemann Martin , Schlesinger Angela , Kukovica Jacob , Farrugia Joseph J. 
Published: February 2023

AbstractWe use ocean bottom seismometer data from the Endeavour segment of the Juan de Fuca ridge to construct a long‐term earthquake catalog for an intermediate spreading rate mid‐ocean ridge. We present >50,000 new earthquake locations for 2016–2021 from the Ocean Networks Canada NEPTUNE cabled observatory and relocate earthquakes from two autonomous networks in 1995 and 2003–2006. The catalog comprises >85,000 earthquakes located using three‐dimensional segment‐scale P and S wave velocity models from a prior tomography experiment. Despite the small footprints of networks near the segment center, locations show good agreement with geologic features at segment ends. The improved locations show that the northern Endeavour segment ruptured southwards from 48.3°N to 48.05°N during two diking events in early 2005, possibly accompanied by diking on the West Valley (WV) propagator. Persistent off‐axis seismicity near the segment center appears to be related to the WV and Cobb propagating rifts which we infer extend ∼10 km closer to the Endeavour segment center than is apparent in bathymetry. We suggest that the proximity of the propagators to the Endeavour vent fields (VFs) contributes to the localization, vigor, and longevity of the fields by focusing permeability through ongoing fracturing and by limiting extrusive magmatism through degassing of the axial magma lens. Increasing rates of seismicity beneath the VFs beginning in late 2018 and a deepening of earthquakes in 2020 indicate that the central portion of the segment may be entering the later stages of the eruptive cycle.
Microphysical Pathways Active Within Thunderstorms and Their Sensitivity to CCN Concentration and Wind Shear
Authors: Barrett Andrew I. , Hoose Corinna 
Published: February 2023

AbstractThe impact of cloud condensation nuclei (CCN) concentration on microphysical processes within thunderstorms and the resulting surface precipitation is not fully understood yet. In this work, an analysis of the microphysical pathways occurring in these clouds is proposed to systematically investigate and understand these sensitivities. Thunderstorms were simulated using convection‐permitting (1 km horizontal grid spacing) idealized simulations with the ICON model, which included a 2‐moment microphysics parameterization. Cloud condensation nuclei concentrations were increased from 100 to 3,200 CCN/cm3, in five different wind shear environments ranging from 18 to 50 m/s. Large and systematic decreases of surface precipitation (up to 35%) and hail (up to 90%) were found as CCN was increased. Wind shear changes the details, but not the sign, of the sensitivity to CCN. The microphysical process rates were tracked throughout each simulation, closing the mass budget for each hydrometeor class, and collected together into “microphysical pathways,” which quantify the different growth processes leading to surface precipitation. Almost all surface precipitation occurred through the mixed‐phase pathway, where graupel and hail grow by riming and later melt as they fall to the surface. The mixed‐phase pathway is sensitive to CCN concentration changes as a result of changes to the riming rate, which were systematically evaluated. Supercooled water content was almost insensitive to increasing CCN concentration, but decreased cloud drop size led to a large reduction in the riming efficiency (from 0.79 to 0.24) between supercooled cloud drops and graupel or hail, resulting in less surface precipitation.
Negligible role of TRAIL death receptors in cell death upon endoplasmic reticulum stress in B-cell malignancies
Authors: Favaro Francesca , Both Demi , Derks Ingrid A. M. , Spaargaren Marcel , Muñoz-Pinedo Cristina , Eldering Eric 
Published: February 2023

AbstractImpairments in protein folding in the endoplasmic reticulum (ER) lead to a condition called ER stress, which can trigger apoptosis via the mitochondrial or the death receptor (extrinsic) pathway. There is controversy concerning involvement of the death receptor (DR)4 and DR5-Caspase-8 –Bid pathway in ER stress-mediated cell death, and this axis has not been fully studied in B-cell malignancies. Using three B-cell lines from Mantle Cell Lymphoma, Waldenström’s macroglobulinemia and Multiple Myeloma origins, we engineered a set of CRISPR KOs of key components of these cell death pathways to address this controversy. We demonstrate that DR4 and/or DR5 are essential for killing via TRAIL, however, they were dispensable for ER-stress induced-cell death, by Thapsigargin, Brefeldin A or Bortezomib, as were Caspase-8 and Bid. In contrast, the deficiency of Bax and Bak fully protected from ER stressors. Caspase-8 and Bid were cleaved upon ER-stress stimulation, but this was DR4/5 independent and rather a result of mitochondrial-induced feedback loop subsequent to Bax/Bak activation. Finally, combined activation of the ER-stress and TRAIL cell-death pathways was synergistic with putative clinical relevance for B-cell malignancies.
Opposing effects of clozapine and brexpiprazole on β-aminoisobutyric acid: Pathophysiology of antipsychotics-induced weight gain
Authors: Fukuyama Kouji , Motomura Eishi , Okada Motohiro 
Published: February 2023

AbstractClozapine is one of the most effective antipsychotics and has the highest risk of weight gain and metabolic complications; however, the detailed pathophysiology of its clinical action and adverse reactions remains to be clarified. Therefore, the present study determined the chronic effects of clozapine (high risk of weight gain) and brexpiprazole (relatively low risk of weight gain) on intracellular and extracellular levels of β-aminoisobutyric acid (BAIBA) enantiomers, which are endogenous activators of AMP-activated protein kinase (AMPK). L-BAIBA is the dominant BAIBA enantiomer in the rat hypothalamus and cultured astrocytes, whereas L-BAIBA accounts for only approximately 5% of the total plasma BAIBA enantiomers. L-BAIBA displayed GABAB receptor agonistic action in the extracellular space and was released through activated astroglial hemichannels, whereas in the intracellular space, L-BAIBA activated AMPK signalling. Chronic administration of the effective doses of clozapine increased intracellular and extracellular levels of L-BAIBA in the hypothalamus and cultured astrocytes, whereas that of brexpiprazole decreased them. These results suggest that enhancing hypothalamic AMPK signalling by increasing intracellular L-BAIBA levels is, at least partially, involved in the pathophysiology of clozapine-induced weight gain and metabolic complications.
Telomere-to-mitochondria signalling by ZBP1 mediates replicative crisis
Authors: Nassour Joe , Aguiar Lucia Gutierrez , Correia Adriana , Schmidt Tobias T. , Mainz Laura , Przetocka Sara , Haggblom Candy , Tadepalle Nimesha , Williams April , Shokhirev Maxim N. , Akincilar Semih C. , Tergaonkar Vinay , Shadel Gerald S. , Karlseder Jan 
Published: February 2023

AbstractCancers arise through the accumulation of genetic and epigenetic alterations that enable cells to evade telomere-based proliferative barriers and achieve immortality. One such barrier is replicative crisis—an autophagy-dependent program that eliminates checkpoint-deficient cells with unstable telomeres and other cancer-relevant chromosomal aberrations1,2. However, little is known about the molecular events that regulate the onset of this important tumour-suppressive barrier. Here we identified the innate immune sensor Z-DNA binding protein 1 (ZBP1) as a regulator of the crisis program. A crisis-associated isoform of ZBP1 is induced by the cGAS–STING DNA-sensing pathway, but reaches full activation only when associated with telomeric-repeat-containing RNA (TERRA) transcripts that are synthesized from dysfunctional telomeres. TERRA-bound ZBP1 oligomerizes into filaments on the outer mitochondrial membrane of a subset of mitochondria, where it activates the innate immune adapter protein mitochondrial antiviral-signalling protein (MAVS). We propose that these oligomerization properties of ZBP1 serve as a signal amplification mechanism, where few TERRA–ZBP1 interactions are sufficient to launch a detrimental MAVS-dependent interferon response. Our study reveals a mechanism for telomere-mediated tumour suppression, whereby dysfunctional telomeres activate innate immune responses through mitochondrial TERRA–ZBP1 complexes to eliminate cells destined for neoplastic transformation.
The structural basis for HIV-1 Vif antagonism of human APOBEC3G
Authors: Li Yen-Li , Langley Caroline A. , Azumaya Caleigh M. , Echeverria Ignacia , Chesarino Nicholas M. , Emerman Michael , Cheng Yifan , Gross John D. 
Published: February 2023

AbstractThe APOBEC3 (A3) proteins are host antiviral cellular proteins that hypermutate the viral genome of diverse viral families. In retroviruses, this process requires A3 packaging into viral particles1–4. The lentiviruses encode a protein, Vif, that antagonizes A3 family members by targeting them for degradation. Diversification of A3 allows host escape from Vif whereas adaptations in Vif enable cross-species transmission of primate lentiviruses. How this ‘molecular arms race’ plays out at the structural level is unknown. Here, we report the cryogenic electron microscopy structure of human APOBEC3G (A3G) bound to HIV-1 Vif, and the hijacked cellular proteins that promote ubiquitin-mediated proteolysis. A small surface explains the molecular arms race, including a cross-species transmission event that led to the birth of HIV-1. Unexpectedly, we find that RNA is a molecular glue for the Vif–A3G interaction, enabling Vif to repress A3G by ubiquitin-dependent and -independent mechanisms. Our results suggest a model in which Vif antagonizes A3G by intercepting it in its most dangerous form for the virus—when bound to RNA and on the pathway to packaging—to prevent viral restriction. By engaging essential surfaces required for restriction, Vif exploits a vulnerability in A3G, suggesting a general mechanism by which RNA binding helps to position key residues necessary for viral antagonism of a host antiviral gene.
Respiratory patterns and baroreflex function in heart failure
Authors: Radaelli Alberto , Mancia Giuseppe , Balestri Giulia , Bonfanti Daniela , Castiglioni Paolo 
Published: February 2023

AbstractLittle is known on the effects of respiratory patterns on baroreflex function in heart failure (HF). Patients with HF (n = 30, age 61.6 ± 10 years, mean ± SD) and healthy controls (CNT, n = 10, age 58.9 ± 5.6 years) having their R–R interval (RRI, EKG), systolic arterial blood pressure (SBP, Finapres) and respiratory signal (RSP, Respitrace) monitored, were subjected to three recording sessions: free-breathing, fast- (≥ 12 bpm) and slow- (6 bpm) paced breathing. Baroreflex sensitivity (BRS) and power spectra of RRI, SBP, and RSP signals were calculated. During free-breathing, compared to CNT, HF patients showed a significantly greater modulation of respiratory volumes in the very-low-frequency (< 0.04 Hz) range and their BRS was not significantly different from that of CNT. During fast-paced breathing, when very-low-frequency modulations of respiration were reduced, BRS of HF patients was significantly lower than that of CNT and lower than during free breathing. During slow-paced breathing, BRS became again significantly higher than during fast breathing. In conclusion: (1) in free-breathing HF patients is present a greater modulation of respiratory volumes in the very-low-frequency range; (2) in HF patients modulation of respiration in the very-low and low frequency (around 0.1 Hz) ranges contributes to preserve baroreflex-mediated control of heart rate.
Green synthesis and characterization of silver nanoparticles for reducing the damage to sperm parameters in diabetic compared to metformin
Authors: Ali Iman A. Mohammed , Ahmed Ali Ben , Al-Ahmed Hazim Ismail 
Published: February 2023

AbstractThe present study used physics to synthesize silver nanoparticles using aqueous extract of fresh garlic as reducing and as a stabilizing agent silver nitrate solution. This method has proven to be environmentally friendly and safe for the synthesis of stable silver nanoparticles. The acquisition of silver nanoparticles was confirmed by optical detection, that is, by changing the color of the liquid to transparent orange and then blackish brown. Then, the characterization was confirmed using other assays. In this study, it was found that the absorption peak of silver nanoparticles was at a wavelength of 420 nm and the particle size ranged between [50–350] nm. The surface roughness of silver oxide/silver nanoparticles was 9.32 nm with an average square roughness of 21.19 nm, and the energy dispersive spectra showed that the absorption peak was in the region of 3 keV, indicating that the nanoparticles contained crystalline silver. In this study, the stability of the silver nanoparticles was good, as ZP reached (− 19.5). The results confirm that the conductivity increases with the increase in frequency due to the high energy of the photons, which causes the electrons to vibrate in the energy levels and thus increase the energy in the mitochondria and increase the movement of sperm in the Diabetic mice treated with doses of silver nanoparticles. The toxic effect of silver nanoparticles has been evaluated in other studies, in addition to evaluating antioxidants, antifungals, treating cancer cells, regulating cholesterol levels, the effect of these nanoparticles on sex cells in pregnant female mice, heart tension, and many other tests. In this study, the activities and efficacy of silver nanoparticles on sperms were determined in male mice with diabetes caused by STZ, and the treatment period was long (35 days) so that the evaluation period was a complete life cycle of male sex cells and within a long period of time and at an average nano size. This has not been studied in other previous studies. The results indicate that the biosynthesis of silver nanoparticles using garlic plant led to positive results on sperm treatments by contributing to an increase in the number of sperm with reactivation and a decrease in abnormalities in addition to a decrease in mortality due to diabetes. This is evidence that the synthesis of silver nanoparticles using garlic plant size (50–350 nm) can treat impotence and be used in the future in the treatment of many diseases without side effects.
Larger error negativity peak amplitudes for accuracy versus speed instructions may reflect more neuro-cognitive alignment, not more intense error processing
Authors: Mattes André , Porth Elisa , Niessen Eva , Kummer Kilian , Mück Markus , Stahl Jutta 
Published: February 2023

AbstractUnderstanding human error processing is a highly relevant interdisciplinary goal. More than 30 years of research in this field have established the error negativity (Ne) as a fundamental electrophysiological marker of various types of erroneous decisions (e.g. perceptual, economic) and related clinically relevant variations. A common finding is that the Ne is more pronounced when participants are instructed to focus on response accuracy rather than response speed, an observation that has been interpreted as reflecting more thorough error processing. We challenge this wide-spread interpretation by demonstrating that when controlling for the level of non-event-related noise in the participant-average waveform and for single-trial peak latency variability, the significant speed-accuracy difference in the participant-average waveform vanishes. This suggests that the previously reported Ne differences may be mostly attributable to a more precise alignment of neuro-cognitive processes and not (only) to more intense error processing under accuracy instructions, opening up novel perspectives on previous findings.
Spatial helicity response metric to quantify particle size and turbidity of heterogeneous media through circular polarization imaging
Authors: Singh Michael D. , Vitkin I. Alex 
Published: February 2023

AbstractBackscattered circularly polarized light from turbid media consists of helicity-flipped and helicity-preserved photon sub-populations (i.e., photons of perpendicular and parallel circular handedness). Their intensities and spatial distributions are found to be acutely sensitive to average scatterer size and modestly sensitive to the scattering coefficient (medium turbidity) through an interplay of single and multiple scattering effects. Using a highly sensitive intensified-CCD camera, helicity-based images of backscattered light are captured, which, with the aid of corroborating Monte Carlo simulation images and statistics, enable (1) investigation of subsurface photonic pathways and (2) development of the novel ‘spatial helicity response’ metric to quantify average scatterer size and turbidity of tissue-like samples. An exciting potential application of this work is noninvasive early cancer detection since malignant tissues exhibit alterations in scatterer size (larger nuclei) and turbidity (increased cell density).
Investigation of the acoustic emission and fractal characteristics of coal with varying water contents during uniaxial compression failure
Authors: Ali Muhammad , Wang Enyuan , Li Zhonghui , Khan Naseer Muhammad , Sabri Sabri Mohanad Muayad , Ullah Barkat 
Published: February 2023

AbstractTo investigate the effect of water on the mechanical properties and acoustic emission (AE) characteristics of coal in the failure and deformation processes. Coal samples of different content were subjected to uniaxial compression tests and AE signals were monitored. The characteristics of the AE signals were further analyzed using fractal analysis. The results show that saturated coal samples have substantially reduced mechanical properties such as uniaxial compressive strength (UCS), dissipation energy, peak stress, and elastic modulus. Under loading, stress–strain curves are characterized by five distinct stages: (1) compaction; (2) linear elastic; (3) crack stable propagation; (4) crack accelerating propagation; and (5) post-peak and residual stages. Using phase-space theory, a novel Grassberger Procaccia (GP) algorithm was utilized to find the AE fractal characteristics of coal samples in different stages. It is significant to note that AE energy does not exhibit fractal characteristics in either the first or second stages. Contrary to the first two stages, the third stage showed obvious fractal characteristics. Fractal analysis of AE time sequences indicates that fractal dimension values change as stress increases, indicating the initiation of complex microcracks in coal. In the fourth stage, the fractal dimension rapidly declines as the strength reaches its limit, indicating the occurrence of macrocracks. However, fractal dimensions continued to decrease further or increased slightly in the fifth stage. Consequently, the coal begins to collapse, potentially resulting in a disaster and failure. It is, therefore, possible to accurately predict coal and rock dynamic failures and microcrack mechanisms by observing the subsequent sudden drop in the correlation dimension of the AE signals in response to different stages of loading.
Variations in cochlea shape reveal different evolutionary adaptations in primates and rodents
Authors: del Rio Joaquin , Taszus Roxana , Nowotny Manuela , Stoessel Alexander 
Published: February 2023

AbstractThe presence of a coiled cochlea is a unique feature of the therian inner ear. While some aspects of the cochlea are already known to affect hearing capacities, the full extent of the relationships between the morphology and function of this organ are not yet understood—especially when the effect of body size differences between species is minimized. Here, focusing on Euarchontoglires, we explore cochlear morphology of 33 species of therian mammals with a restricted body size range. Using μCT scans, 3D models and 3D geometric morphometrics, we obtained shape information of the cochlea and used it to build phylogenetically corrected least square models with 12 hearing variables obtained from the literature. Our results reveal that different taxonomic groups differ significantly in cochlea shape. We further show that these shape differences are related to differences in hearing capacities between these groups, despite of similar cochlear lengths. Most strikingly, rodents with good low-frequency hearing display “tower-shaped” cochleae, achieved by increasing the degree of coiling of their cochlea. In contrast, primates present relatively wider cochleae and relative better high frequency hearing. These results suggest that primates and rodents increased their cochlea lengths through different morpho-evolutionary trajectories.