bluuebunny/crossref_metadata_2025_split huggingface dataset:
Association of the coronavirus disease 2019 (COVID-19) pandemic with the incidence of healthcare-associated infections in California hospitals
Authors: Parriott Andrea M. , Kazerouni N. Neely , Epson Erin E. 
Published: November 2022

AbstractObjective:To assess the impact of the coronavirus disease 2019 (COVID-19) pandemic on the incidence of central-line–associated bloodstream infections (CLABSIs), Clostridioides difficile infections (CDIs), and methicillin-resistant Staphyloccocus aureus (MRSA) bloodstream infections (BSIs) in California acute-care hospitals.Design:Retrospective cohort and before-and-after study.Methods:We compared standardized infection ratios (SIRs) for CLABSI, CDI, and MRSA BSI from the second half of 2020 to the second half of 2019. We performed interrupted time-series (ITS) analyses for these infections to assess departures from long-term trends. We also examined the association between the proportion of facility beds that were occupied by COVID-19 patients in May and June of 2020 and the incidence of infections using negative binomial models. In addition, we compared standardized antimicrobial administration ratios (SAARs) for the second halves of 2019 and 2020.Results:We detected substantial and significant increases in the SIRs for CLABSI and MRSA BSI from 2019 to 2020. For the ITS analysis, CLABSI and had significant positive values for the pandemic onset level-change parameters, and CLABSI and MRSA BSI had significant positive values for the postinterruption slope-change parameters. We also detected a positive association between facility COVID-19 patient occupancy and CLABSI and MRSA BSI incidence. We did not detect associations with the onset of the pandemic or COVID-19 patient occupancy and CDI. The SAAR for all antibacterial drugs decreased slightly, but the SAAR for drugs with a high risk for CDI increased slightly.Conclusions:This study adds to a body of literature documenting increases in CLABSI and MRSA BSI incidence during the pandemic.
Vestibular neuronitis in a child with coronavirus disease 2019 infection and review of the literature
Authors: Goulioumis A , Angelopoulou M , Athanasopoulos M , Kourelis K 
Published: November 2022

AbstractObjectiveThis article presents the case of an adolescent with asymptomatic coronavirus disease 2019 infection who had vestibular neuronitis symptoms.Method and resultsThe new coronavirus disease 2019 demonstrates neurotropic properties, apart from airway symptoms. Early in the pandemic, coronavirus disease 2019 infection had been associated with olfactory disturbances. Accumulative evidence supports that both the infection with coronavirus disease 2019 and the vaccination against the virus may induce a condition of vestibular hypofunction, known as vestibular neuronitis. Coronavirus disease 2019 may directly affect the vestibular organs and ganglia, or indirectly damage them via immune-mediated mechanisms. In most cases, complete recovery is achieved with the typical therapeutic approaches for vestibular neuronitis, consisting of supportive measures and corticosteroids.ConclusionPhysicians may expect an increased incidence of vestibular neuronitis during the coronavirus disease 2019 pandemic. Conversely, coronavirus disease 2019 infection should be considered in patients with sudden vestibular symptoms.
Proxy‐Based Preformed Phosphate Estimates Point to Increased Biological Pump Efficiency as Primary Cause of Last Glacial Maximum CO2 Drawdown
Authors: Vollmer T. D. , Ito T. , Lynch‐Stieglitz J. 
Published: November 2022

AbstractUpwelling deep waters in the Southern Ocean release biologically sequestered carbon into the atmosphere, contributing to the relatively high atmospheric CO2 levels during interglacial climate periods. Paleoceanographic evidence suggests this “CO2 leak” was lessened during the last glacial maximum (LGM), potentially due to increased stratification, weaker and equatorward‐shifted winds, and/or enhanced biological carbon export. The collective influences of these mechanisms on the ocean's biological pump efficiency and amount of atmospheric CO2 can be quantified by determining preformed phosphate of deep waters. We quantify preformed PO4 (Ppre,AOU) and preformed () of LGM bottom waters using a compilation of published paleo‐temperature, nutrient and oxygen estimates from benthic foraminifera. Our results show that preformed phosphate of the Pacific and Indian deep oceans was reduced by about −0.53 ± 0.13 μM and suggest that much (64 ± 28 ppmv) of the Glacial‐Interglacial CO2 drawdown resulted from changes in the ocean's biological pump efficiency. Once carbonate compensation is accounted for, this can explain the entire CO2 drawdown (87 ± 40 ppmv). Preformed shows similar results. The reconstructed LGM Ppre,AOU and oxygen are qualitatively consistent with the changes produced by a suite of numerical sensitivity experiments that roughly simulate three proposed mechanisms for an increase in LGM biological pump efficiency: an increase in biological activity, a decrease in wind‐driven upwelling, and an increase in stratification in the Southern Ocean.
Effects of Water Source and Technology on Energy Use and Environmental Impacts of Rice Production in Northern Iran
Authors: Jamali Mohsen , Bakhshandeh Esmaeil , Emadi Mostafa 
Published: November 2022

AbstractTo assess the sustainability of rice production systems, it is essential to quantify its impact on the environment and energy flow. To analyze the energy flow and greenhouse gas emissions, a total of 200 paddy fields were selected based on the water source utilized for irrigation (river as the surface water source and well as the underground water source), transplanting methods (traditional and mechanical) and grain yield (low‐ and high‐yielding rice cultivars) based on a factorial experimental design (2 × 2 × 2 = 8 conditions). Data were collected in 2020 from 200 rice growers in northern Iran, using a face‐to‐face questionnaire survey. Results showed that the highest total energy use efficiency (EUE) (5.26 GJ ha−1) was observed under the surface water source + traditional + low‐yielding rice system. Although the total EUE in surface water source was higher than that in groundwater source (4.98 vs. 2.90). Water consumption by high‐yielding rice cultivars was higher, as compared to the low‐yielding ones. Electricity (35.2%) and nitrogen fertilizer (31.5%) inputs were the highest energy input for the groundwater and surface water sources, respectively. Average shares of the renewable and non‐renewable energies used in agroecosystems were 25.70% and 74.30% respectively, while the shares of the direct and indirect energies were 60.36% and 39.64%, respectively. The calculated global warming potential value in the paddy fields of northern Iran ranged from 878 to 2,666 kg eqCO2 ha−1. Amongst the studied conditions, the surface water source + traditional + high‐yielding rice system had the highest carbon efficiency and carbon sustainability index level. Overall, surface water source conditions were found to be a more environmentally‐friendly approach in northern Iran. These results, thus, demonstrated that there is a huge potential for improving energy efficiency in the studied conditions, especially for high‐yielding rice cultivars irrigated by surface water sources. These findings could help decision‐makers to better understand the linkage between various conditions, which is a prerequisite to any planning effort for future management strategies at national and international levels.
High‐Resolution Observation of Heater‐Induced Daytime Plasma Fluctuations at Arecibo
Authors: Henderson Brian S. , Sultan Peter J. , Sulzer Michael P. , Levine Edlyn V. 
Published: November 2022

AbstractIonospheric heating is known to induce density and temperature irregularities in the ionospheric plasma, which have been observed by various in‐situ and radar techniques. Analysis of incoherent scatter radar (ISR) plasma line spectra offers high resolution reconstruction of ionospheric features, but the plasma line profile is frequently difficult to reconstruct at altitudes where the heater is generating Langmuir turbulence and thus creating additional signals in the ISR spectrum. This work presents a novel, automated method based on Gabor filter image analysis to reconstruct plasma line spectra recorded with the coded long‐pulse technique. The method permits the unsupervised reconstruction of the Langmuir frequency with resolution in frequency (sub‐kHz) and altitude (∼300 m) typical of the coded long‐pulse technique even in regions directly coupling to the heater. The technique is applied to ISR data from the June 2019 Arecibo Observatory heating experiment, demonstrating the formation of field‐aligned irregularities of magnitude ∼0.5% in the Langmuir frequency during daytime conditions and spatial scale perpendicular to the magnetic field (fluctuation periodicity of several kilometers, corresponding to k ≈ 1 km−1) consistent with the patches of depletions of free electrons previously observed by in‐situ methods. Additionally, the method allows observation of the formation and evolution of the bunches over the course of several hours. Additional F‐layer irregularities were found in the ambient ionosphere in regions away from the heater coupling altitude. The automated nature of this technique offers the potential for precision analysis of Arecibo's ISR data archives for a variety of ionospheric physics applications.
Storm‐Time Magnetopause: Pressure Balance
Authors: Grygorov K. , Němeček Z. , Šafránková J. , Šimůnek J. , Gutynska O. 
Published: November 2022

AbstractThe magnetopause is treated as a boundary where the pressure of the incoming solar wind is balanced by the pressure of the geomagnetic field and the plasma pressure inside the magnetopause is often neglected. However, published studies of pressure balance at the magnetopause reveal an excess of the magnetosheath pressure. Moreover, our survey of about 50,000 THEMIS magnetopause crossings shows that about 1% of them exhibits even larger magnetic field in the magnetosheath than in the magnetosphere. A subsequent analysis of crossings observed in the subsolar region under a southward interplanetary magnetic field shows the pressure of the dense cold ion population as an important component of the total magnetospheric pressure. This component is too cold to be registered by standard ion analyzers but its density can reach 300 cm−3. The second effect connected with a presence of cold plasma population is a reduction of the reconnection rate that slows down the transport of the magnetic flux down the tail and leads to magnetic pile‐up in the subsolar magnetosheath.
A Statistical Study of Nighttime Ionospheric NmF2 Enhancement at Middle‐to‐High Latitudes in the Northern Hemisphere
Authors: Zhao Ling‐Xin , Zhang Qing‐He , Xu Tong , Xing Zan‐Yang , Balan N. , Wang Yong , Ma Yu‐Zhang , Gao Dong‐Xing 
Published: November 2022

AbstractThe electron density in the ionosphere usually continuously decreases during nighttime due to the vanishing of sunlit ionization. However, it sometimes increases unexpectedly, which has been called nighttime ionospheric enhancement. Previous researches studied this type of phenomenon mainly in the low‐to‐middle latitude regions. Here, we investigate the nighttime ionospheric NmF2 enhancement at middle‐to‐high latitudes in the northern hemisphere (NH) during solar cycles 23–24 by analyzing the ionosonde observations at Chilton (51.1°N, 359.4°E, geomagnetic 48.5°N), Juliusruh (54.6°N, 13.4°E, 51.7°N), Tromsø (69.9°N, 19.6°E, 66.9°N), and Qaanaaq (77.5°N, 290.8°E, 84.3°N), as well as comparing with the Empirical Canadian High Arctic Ionospheric Model (E‐CHAIM). The observations show that the nighttime NmF2 enhancement occurs mainly in the winter solstice months (November–February), and the occurrence rate and relative amplitude of the enhancement are inversely related to solar activity. The observed results are in good agreement with the results obtained from E‐CHAIM. Furthermore, the model shows the spatial distribution of the enhancement at the middle‐to‐high latitudes in NH in winter, most obvious in geomagnetic latitude between 50°N and 65°N, and have longitudinal minima centered at 30°W and maxima centered at 120°W and 75°E. From these results, this unique phenomenon at middle latitude is explained probably by the plasma flux from the higher altitudes (e.g., topside ionosphere and plasmasphere) diffusing downward into the ionospheric F2 layer. However, at polar regions, under the influence of the abundant high‐density structures such as polar cap patches, auroral blob, particle precipitation, etc., the F region plasma density enhancement becomes more complicated.
Sensitivity of Heavy Convective Precipitation Simulations to Changes in Land‐Atmosphere Exchange Processes Over China
Authors: Zhang Xia , Chen Liang , Ma Zhuguo , Zheng Ziyan , Meng Yanan 
Published: November 2022

AbstractHeavy precipitation and associated flood hazards can cause enormous socioeconomic losses. The advances in atmospheric modeling enable great promise in accurately predicting precipitation. However, the representation of land‐atmosphere exchange processes in atmospheric models and its impacts on precipitation evolution remain high uncertainties. This study investigated the sensitivity of convective precipitation to land‐atmosphere exchanges and examined the improvements in precipitation simulations by a dynamic vegetation‐type‐dependent exchange scheme. We conducted 3‐km‐resolution convection‐permitting modeling for three heavy precipitation events that occurred over areas with different dominant land‐cover types. The results showed that land‐atmosphere exchange efficiency significantly altered the precipitation intensity as well as the onset and peak time of precipitation but hardly affected the precipitation pattern. Strong exchange simulations could agree better with the observed precipitation in the 21 July 2012 Beijing and the 19 June 2010 Jiangxi heavy precipitation events occurring over humid and semihumid zones, while weak exchange simulations could attain higher consistencies with the observations in the 30 July 2012 Ningxia heavy precipitation event occurring over arid and semiarid zones. As a more physical alternative, the dynamic exchange simulations could achieve the closest agreement with the field observations, especially the intensity and location of the heaviest rainfall. The dynamic scheme modifies land‐atmosphere exchange efficiency to match local land cover conditions and could provide promising applications in heavy precipitation modeling studies.
Impacts of Cloud‐Processing on Ice Nucleation of Soot Particles Internally Mixed With Sulfate and Organics
Authors: Gao Kunfeng , Kanji Zamin A. 
Published: November 2022

AbstractSoot particles are one of the major aerosol components (in particle number concentration) in the troposphere and can impact cirrus formation. Depending on their physicochemical properties, soot particles can nucleate ice in the cirrus regime via pore condensation and freezing (PCF) at a lower ice saturation threshold than that of the homogeneous freezing of solution droplets. Soot aerosol undergoing multiple cloud cycles can change its porosity and surface wettability, thus modulating its PCF ability. In this study, organic‐rich and ‐lean size‐selected propane flame soot particles were coated with different thicknesses of sulfuric acid (H2SO4) and exposed to thermodynamic conditions under 228 K and relative humidity with respect to water 104% to simulate contrail formation. Ice‐activated soot particles from the mimicked contrail were sublimated before being tested for ice nucleation (IN) at T ≤ 233 K. Additionally, soot particle size and mass distribution as well as morphology were characterized. The results demonstrate that the increase in mesopore availability induced by cloud‐processing plays a key role in regulating soot IN. All cloud‐processed soot become more compacted, however, only if more PCF relevant mesopores are generated, can the compacted soot exhibit promoted IN. If a H2SO4 coating and/or enriched organics occupy the pore volume, inhibition of PCF is observed for the cloud‐processed soot. Notably, a thick H2SO4 coating enhances the PCF of 400 nm organic‐lean soot particles because the partially engulfed but collapsed soot‐core may have new mesopores produced by compaction. Therefore, the mesopore abundance plays the key role in evaluating aged soot IN ability.
Development and Evaluation of E3SM‐MOSAIC: Spatial Distributions and Radiative Effects of Nitrate Aerosol
Authors: Wu Mingxuan , Wang Hailong , Easter Richard C. , Lu Zheng , Liu Xiaohong , Singh Balwinder , Ma Po‐Lun , Tang Qi , Zaveri Rahul A. , Ke Ziming , Zhang Rudong , Emmons Louisa K. , Tilmes Simone , Dibb Jack E. , Zheng Xue , Xie Shaocheng , Leung L. Ruby 
Published: November 2022

AbstractNitrate aerosol plays an important role in affecting regional air quality as well as Earth's climate. However, it is not well represented or even neglected in many global climate models. In this study, we couple the Model for Simulating Aerosol Interactions and Chemistry (MOSAIC) module with the four‐mode version of the Modal Aerosol Module (MAM4) in DOE's Energy Exascale Earth System Model version 2 (E3SMv2) to simulate nitrate aerosol and its radiative effects. We find that nitrate aerosol simulated by E3SMv2‐MAM4‐MOSAIC is sensitive to the treatment of gaseous HNO3 transfer to/from interstitial particles related to accommodation coefficients of HNO3 () on dust and non‐dust particles. We compare three different treatments of HNO3 transfer: (a) a treatment (MTC_SLOW) that uses a low in the mass transfer coefficient (MTC) calculation; (b) a dust‐weighted MTC treatment (MTC_WGT) that uses a high on non‐dust particles; and (c) a dust‐weighted MTC treatment that also splits coarse mode aerosols into the coarse dust and sea salt sub‐modes in MOSAIC (MTC_SPLC). MTC_WGT and MTC_SPLC increase the global annual mean (2005–2014) nitrate burden from 0.096 (MTC_SLOW) to 0.237 and 0.185 Tg N, respectively, mostly in the coarse mode. MTC_WGT and MTC_SPLC also produce stronger nitrate direct radiative forcing (−0.048 and −0.051 W m−2, respectively) and indirect forcing (−0.33 and −0.35 W m−2, respectively) than MTC_SLOW (−0.021 and −0.24 W m−2). MTC_WGT and MTC_SPLC improve nitrate surface concentrations over remote oceans based on limited observations and vertical profiles of nitrate concentrations against aircraft measurements below 400 hPa.
Atypical Sotos syndrome caused by a novel splice site variant
Authors: Minatogawa Mari , Tsuji Taichi , Inaba Mie , Kawakami Noriaki , Mizuno Seiji , Kosho Tomoki 
Published: November 2022

AbstractSotos syndrome is usually caused by haploinsufficiency of NSD1; it is characterized by overgrowth, craniofacial features, and learning disabilities. We describe a boy with Sotos syndrome caused by a splicing variant (c.4378+5G>A). The clinical manifestations included severe connective tissue involvement, including joint hypermobility, progressive scoliosis, pectus deformity, and skin hyperextensibility; no overgrowth was observed.
Tunable valley band and exciton splitting by interlayer orbital hybridization
Authors: Wang Dan , Zou Xiaolong 
Published: November 2022

AbstractMagnetic proximity effect has been demonstrated to be an effective routine to introduce valley splitting in two-dimensional van der Waals heterostructures. However, the control of its strength and the induced valley splitting remains challenging. In this work, taking heterobilayers combining monolayer MSe2 (M = Mo or W) with room-temperature ferromagnetic VSe2 as examples, we demonstrate that the valley splitting for both band edges and excitons can be modulated by the tuning of the interlayer orbital hybridization, achieved by inclusion of different amounts of exact Hartree exchange potential via hybrid functionals. Besides, we show such tuning of orbital hybridization could be experimentally realized by external strain and electric field. The calculations suggest that large valley band splitting about 30 meV and valley exciton splitting over 150 meV can be induced in monolayer MSe2. Our work reveals a way to control proximity effects and provides some guidance for the design of optoelectronic and valleytronic devices.
Direct activation of a bacterial innate immune system by a viral capsid protein
Authors: Zhang Tong , Tamman Hedvig , Coppieters ’t Wallant Kyo , Kurata Tatsuaki , LeRoux Michele , Srikant Sriram , Brodiazhenko Tetiana , Cepauskas Albinas , Talavera Ariel , Martens Chloe , Atkinson Gemma C. , Hauryliuk Vasili , Garcia-Pino Abel , Laub Michael T. 
Published: November 2022

AbstractBacteria have evolved diverse immunity mechanisms to protect themselves against the constant onslaught of bacteriophages1–3. Similar to how eukaryotic innate immune systems sense foreign invaders through pathogen-associated molecular patterns4 (PAMPs), many bacterial immune systems that respond to bacteriophage infection require phage-specific triggers to be activated. However, the identities of such triggers and the sensing mechanisms remain largely unknown. Here we identify and investigate the anti-phage function of CapRelSJ46, a fused toxin–antitoxin system that protects Escherichia coli against diverse phages. Using genetic, biochemical and structural analyses, we demonstrate that the C-terminal domain of CapRelSJ46 regulates the toxic N-terminal region, serving as both antitoxin and phage infection sensor. Following infection by certain phages, newly synthesized major capsid protein binds directly to the C-terminal domain of CapRelSJ46 to relieve autoinhibition, enabling the toxin domain to pyrophosphorylate tRNAs, which blocks translation to restrict viral infection. Collectively, our results reveal the molecular mechanism by which a bacterial immune system directly senses a conserved, essential component of phages, suggesting a PAMP-like sensing model for toxin–antitoxin-mediated innate immunity in bacteria. We provide evidence that CapRels and their phage-encoded triggers are engaged in a ‘Red Queen conflict’5, revealing a new front in the intense coevolutionary battle between phages and bacteria. Given that capsid proteins of some eukaryotic viruses are known to stimulate innate immune signalling in mammalian hosts6–10, our results reveal a deeply conserved facet of immunity.
NETome: A model to Decode the Human Genome and Proteome of Neutrophil Extracellular Traps
Authors: Scieszka David , Lin Yi-Han , Li Weizhong , Choudhury Saibyasachi , Yu Yanbao , Freire Marcelo 
Published: November 2022

AbstractNeutrophils are the most abundant type of white blood cells in humans with biological roles relevant to inflammation, and fighting off infections. Neutrophil Extracellular Traps (NETs) act as enxogenous agents controlling invasion by bacteria, viruses, fungi, metabolic, and traumatic agents. Traditionally, studies have focused on elucidating molecular and cellular pathways preceding NET formation. Here, we developed a model to decode the human genome and proteome of developted NETs. Via in vitro system to differentiate HL-60 human myeloid cell line into neutrophil extracellular trap (ecTrap) producing cells, we isolated and captured ectrap derived DNA and proteins for shotgun sequencing. The genomic sequences revealed accurate delineation of gene composition including immune response genes and mitochondrial enrichment, while providing a reference database for future interrogation. Shotgun proteomics showed global proteins in differentiated cells with specific immune pathways when compared to undifferentiated counterparts. Coupled with omics’ approaches, we validated our system by functional assays and began to dissect host-microbial interactions. Our work provides a new understanding of the genomic and proteomic sequences, establishing the first human database deposition of neutrophil extracellular traps.