bluuebunny/crossref_metadata_2025_split huggingface dataset:
Geomagnetic Storm Associated D‐Region Anomalies Estimated From VLF Observations at a Low‐Latitude Station, Suva, Fiji
Authors: Kumar Sarwan , Kumar Sushil , Singh Rajesh 
Published: October 2023

AbstractA comprehensive analysis of subionospheric Very Low Frequency (VLF) signals from transmitters with call‐signs NWC, NPM, and NLK monitored at a low‐latitude station, Suva, Fiji, has been carried out to determine the D‐region effects of the intense geomagnetic storms for a period of 7 years (2011–2016 and 2018). The periods of 2011–2016 and 2018 fall under the 24th solar cycle with yearly mean sunspot numbers 80.8–39.8 and 7.0, respectively. Seven out of 12 geomagnetic storms revealed VLF anomalies during the storm main phase day and storm recovery phase days. A pronounced decrease in the VLF amplitude and phase for the storms having main phase onset in the nighttime was found. Out of seven geomagnetic storms, a storm of St Patrick's Day of 17–18 March 2013 is presented as a case study and the same analysis was done for all the storms. The anomalies in the VLF amplitude and phase have been modeled using Long‐Wave Propagation Capability code V2.1 to obtain the changes in Wait parameters (reference height, H′ and sharpness factor, ꞵ) and changes in the D‐region electron density. In most cases of storms, an increase in the H′ and a decrease in the ꞵ during the storm main and recovery phases were obtained which for the 17–18 March 2013 storm increased by 7.4–7.6 km and decreased from 0.03 to 0.07 km−1, respectively. Wavelet analysis of signal anomalies showed clear wave‐like spectra (0.05–0.18 mHz) of atmospheric gravity waves indicating traveling ionospheric disturbances propagating toward low latitudes due to storm‐associated Joule heating at high latitudes.
Relationship Between Permeability and Resistivity of Sheared Rock Fractures: The Role of Tortuosity and Flow Path Percolation
Authors: Sawayama K. , Ishibashi T. , Jiang F. , Tsuji T. 
Published: October 2023

AbstractThe fluid‐flow properties of fractures have received increasing attention regarding the role of geofluids in the genesis of slow and fast earthquakes and recent advances in geoengineering developments. Geophysical observations are promising tools to remotely estimate crustal permeability changes; however, quantitative interpretations are limited by the rock‐physical models' paucity for fractures. This study investigated changes in permeability, resistivity, and their respective relationships at elevated stress by performing numerical simulations of different fracture models with varying fracture size, roughness, and shear displacement. Numerical results and microscopic flow analysis demonstrate that permeability–resistivity relationships are controlled by percolation and are less dependent on fracture geometric characteristics. Our finding suggests that the permeability evolution of fractures can be formulated with resistivity changes independent of both fracture size and microstructure, the trends of which can be predicted using Archie's exponent. The extension to the electro‐mechanical relationship further derives the potential applications of estimating stress changes.
Single-cell transcriptomic analysis reveals a systemic immune dysregulation in COVID-19-associated pediatric encephalopathy
Authors: Wang Yi , Luu Laurence Don Wai , Liu Shuang , Zhu Xiong , Huang Siyuan , Li Fang , Huang Xiaolan , Guo Linying , Zhang Jin , Ge Haiyan , Sun Yuanyuan , Hui Yi , Qu Yanning , Wang Huicong , Wang Xiaoxia , Na Weilan , Zhou Juan , Qu Dong , Tai Jun 
Published: October 2023

AbstractUnraveling the molecular mechanisms for COVID-19-associated encephalopathy and its immunopathology is crucial for developing effective treatments. Here, we utilized single-cell transcriptomic analysis and integrated clinical observations and laboratory examination to dissect the host immune responses and reveal pathological mechanisms in COVID-19-associated pediatric encephalopathy. We found that lymphopenia was a prominent characteristic of immune perturbation in COVID-19 patients with encephalopathy, especially those with acute necrotizing encephalopathy (AE). This was characterized a marked reduction of various lymphocytes (e.g., CD8+ T and CD4+ T cells) and significant increases in other inflammatory cells (e.g., monocytes). Further analysis revealed activation of multiple cell apoptosis pathways (e.g., granzyme/perforin-, FAS- and TNF-induced apoptosis) may be responsible for lymphopenia. A systemic S100A12 upregulation, primarily from classical monocytes, may have contributed to cytokine storms in patients with AE. A dysregulated type I interferon (IFN) response was observed which may have further exacerbated the S100A12-driven inflammation in patients with AE. In COVID-19 patients with AE, myeloid cells (e.g., monocytic myeloid-derived suppressor cells) were the likely contributors to immune paralysis. Finally, the immune landscape in COVID-19 patients with encephalopathy, especially for AE, were also characterized by NK and T cells with widespread exhaustion, higher cytotoxic scores and inflammatory response as well as a dysregulated B cell-mediated humoral immune response. Taken together, this comprehensive data provides a detailed resource for elucidating immunopathogenesis and will aid development of effective COVID-19-associated pediatric encephalopathy treatments, especially for those with AE.
Infrared-active phonons in one-dimensional materials and their spectroscopic signatures
Authors: Rivano Norma , Marzari Nicola , Sohier Thibault 
Published: October 2023

AbstractDimensionality provides a clear fingerprint on the dispersion of infrared-active, polar-optical phonons. For these phonons, the local dipoles parametrized by the Born effective charges drive the LO-TO splitting of bulk materials; this splitting actually breaks down in two-dimensional materials. Here, we develop the theory for one-dimensional (1D) systems—nanowires, nanotubes, and atomic and polymeric chains. Combining an analytical model with the implementation of density-functional perturbation theory in 1D boundary conditions, we show that the dielectric splitting in the dispersion relations collapses as$${x}^{2}\log (x)$$x2log(x)at the zone center. The dielectric properties and the radius of the 1D materials are linked by the present work to these red shifts, opening infrared and Raman characterization avenues.
Epimorphic regeneration in the mammalian tympanic membrane
Authors: Scaria Sonia M. , Frumm Stacey M. , Vikram Ellee P. , Easow Sarah A. , Sheth Amar H. , Shamir Eliah R. , Yu Shengyang Kevin , Tward Aaron D. 
Published: October 2023

AbstractAdult mammals are generally believed to have limited ability to regenerate complex tissues and instead, repair wounds by forming scars. In humans and across mammalian species, the tympanic membrane (TM) rapidly repairs perforations without intervention. Using mouse models, we demonstrate that the TM repairs itself through a process that bears many hallmarks of epimorphic regeneration rather than typical wound healing. Following injury, the TM forms a wound epidermis characterized by EGFR ligand expression and signaling. After the expansion of the wound epidermis that emerges from known stem cell regions of the TM, a multi-lineage blastema-like cellular mass is recruited. After two weeks, the tissue architecture of the TM is largely restored, but with disorganized collagen. In the months that follow, the organized and patterned collagen framework of the TM is restored resulting in scar-free repair. Finally, we demonstrate that deletion of Egfr in the epidermis results in failure to expand the wound epidermis, recruit the blastema-like cells, and regenerate normal TM structure. This work establishes the TM as a model of mammalian complex tissue regeneration.
Sustained antidepressant effect of ketamine through NMDAR trapping in the LHb
Authors: Ma Shuangshuang , Chen Min , Jiang Yihao , Xiang Xinkuan , Wang Shiqi , Wu Zuohang , Li Shuo , Cui Yihui , Wang Junying , Zhu Yanqing , Zhang Yan , Ma Huan , Duan Shumin , Li Haohong , Yang Yan , Lingle Christopher J. , Hu Hailan 
Published: October 2023

AbstractKetamine, an N-methyl-d-aspartate receptor (NMDAR) antagonist1, has revolutionized the treatment of depression because of its potent, rapid and sustained antidepressant effects2–4. Although the elimination half-life of ketamine is only 13 min in mice5, its antidepressant activities can last for at least 24 h6–9. This large discrepancy poses an interesting basic biological question and has strong clinical implications. Here we demonstrate that after a single systemic injection, ketamine continues to suppress burst firing and block NMDARs in the lateral habenula (LHb) for up to 24 h. This long inhibition of NMDARs is not due to endocytosis but depends on the use-dependent trapping of ketamine in NMDARs. The rate of untrapping is regulated by neural activity. Harnessing the dynamic equilibrium of ketamine–NMDAR interactions by activating the LHb and opening local NMDARs at different plasma ketamine concentrations, we were able to either shorten or prolong the antidepressant effects of ketamine in vivo. These results provide new insights into the causal mechanisms of the sustained antidepressant effects of ketamine. The ability to modulate the duration of ketamine action based on the biophysical properties of ketamine–NMDAR interactions opens up new opportunities for the therapeutic use of ketamine.
The burden and dynamics of hospital-acquired SARS-CoV-2 in England
Authors: Cooper Ben S. , Evans Stephanie , Jafari Yalda , Pham Thi Mui , Mo Yin , Lim Cherry , Pritchard Mark G. , Pople Diane , Hall Victoria , Stimson James , Eyre David W. , Read Jonathan M. , Donnelly Christl A. , Horby Peter , Watson Conall , Funk Sebastian , Robotham Julie V. , Knight Gwenan M. 
Published: October 2023

AbstractHospital-based transmission had a dominant role in Middle East respiratory syndrome coronavirus (MERS-CoV) and severe acute respiratory syndrome coronavirus (SARS-CoV) epidemics1,2, but large-scale studies of its role in the SARS-CoV-2 pandemic are lacking. Such transmission risks spreading the virus to the most vulnerable individuals and can have wider-scale impacts through hospital–community interactions. Using data from acute hospitals in England, we quantify within-hospital transmission, evaluate likely pathways of spread and factors associated with heightened transmission risk, and explore the wider dynamical consequences. We estimate that between June 2020 and March 2021 between 95,000 and 167,000 inpatients acquired SARS-CoV-2 in hospitals (1% to 2% of all hospital admissions in this period). Analysis of time series data provided evidence that patients who themselves acquired SARS-CoV-2 infection in hospital were the main sources of transmission to other patients. Increased transmission to inpatients was associated with hospitals having fewer single rooms and lower heated volume per bed. Moreover, we show that reducing hospital transmission could substantially enhance the efficiency of punctuated lockdown measures in suppressing community transmission. These findings reveal the previously unrecognized scale of hospital transmission, have direct implications for targeting of hospital control measures and highlight the need to design hospitals better equipped to limit the transmission of future high-consequence pathogens.
Chromatin compartmentalization regulates the response to DNA damage
Authors: Arnould Coline , Rocher Vincent , Saur Florian , Bader Aldo S. , Muzzopappa Fernando , Collins Sarah , Lesage Emma , Le Bozec Benjamin , Puget Nadine , Clouaire Thomas , Mangeat Thomas , Mourad Raphael , Ahituv Nadav , Noordermeer Daan , Erdel Fabian , Bushell Martin , Marnef Aline , Legube Gaëlle 
Published: October 2023

AbstractThe DNA damage response is essential to safeguard genome integrity. Although the contribution of chromatin in DNA repair has been investigated1,2, the contribution of chromosome folding to these processes remains unclear3. Here we report that, after the production of double-stranded breaks (DSBs) in mammalian cells, ATM drives the formation of a new chromatin compartment (D compartment) through the clustering of damaged topologically associating domains, decorated with γH2AX and 53BP1. This compartment forms by a mechanism that is consistent with polymer–polymer phase separation rather than liquid–liquid phase separation. The D compartment arises mostly in G1 phase, is independent of cohesin and is enhanced after pharmacological inhibition of DNA-dependent protein kinase (DNA-PK) or R-loop accumulation. Importantly, R-loop-enriched DNA-damage-responsive genes physically localize to the D compartment, and this contributes to their optimal activation, providing a function for DSB clustering in the DNA damage response. However, DSB-induced chromosome reorganization comes at the expense of an increased rate of translocations, also observed in cancer genomes. Overall, we characterize how DSB-induced compartmentalization orchestrates the DNA damage response and highlight the critical impact of chromosome architecture in genomic instability.
Sublithospheric diamond ages and the supercontinent cycle
Authors: Timmerman Suzette , Stachel Thomas , Koornneef Janne M. , Smit Karen V. , Harlou Rikke , Nowell Geoff M. , Thomson Andrew R. , Kohn Simon C. , Davies Joshua H. F. L. , Davies Gareth R. , Krebs Mandy Y. , Zhang Qiwei , Milne Sarah E. M. , Harris Jeffrey W. , Kaminsky Felix , Zedgenizov Dmitry , Bulanova Galina , Smith Chris B. , Cabral Neto Izaac , Silveira Francisco V. , Burnham Antony D. , Nestola Fabrizio , Shirey Steven B. , Walter Michael J. , Steele Andrew , Pearson D. Graham 
Published: October 2023

AbstractSubduction related to the ancient supercontinent cycle is poorly constrained by mantle samples. Sublithospheric diamond crystallization records the release of melts from subducting oceanic lithosphere at 300–700 km depths1,2 and is especially suited to tracking the timing and effects of deep mantle processes on supercontinents. Here we show that four isotope systems (Rb–Sr, Sm–Nd, U–Pb and Re–Os) applied to Fe-sulfide and CaSiO3 inclusions within 13 sublithospheric diamonds from Juína (Brazil) and Kankan (Guinea) give broadly overlapping crystallization ages from around 450 to 650 million years ago. The intracratonic location of the diamond deposits on Gondwana and the ages, initial isotopic ratios, and trace element content of the inclusions indicate formation from a peri-Gondwanan subduction system. Preservation of these Neoproterozoic–Palaeozoic sublithospheric diamonds beneath Gondwana until its Cretaceous breakup, coupled with majorite geobarometry3,4, suggests that they accreted to and were retained in the lithospheric keel for more than 300 Myr during supercontinent migration. We propose that this process of lithosphere growth—with diamonds attached to the supercontinent keel by the diapiric uprise of depleted buoyant material and pieces of slab crust—could have enhanced supercontinent stability.
Periodontitis of maxillary teeth screened by community periodontal index is associated with chronic rhinosinusitis defined by EPOS 2020 guideline
Authors: Kwak Jiwon , Han Munsoo , Jeong Yujin , Choi Bo Yoon , Lee Dabin , Lee Sang Hag , Kim Tae Hoon 
Published: October 2023

AbstractWe aimed to evaluate the association between periodontitis in the upper jaw and chronic rhinosinusitis (CRS) using the nationwide Korean National Health and Nutrition Examination Survey (KNHANES) data. In this cross-sectional study, data of KNHANES participants enrolled between 2008 and 2012 were reviewed. Periodontitis of the upper teeth was diagnosed by dentists according to the community periodontal index with standardized methods. CRS was diagnosed by otorhinolaryngologists according to the European Position Paper on Rhinosinusitis and Nasal Polyps 2020 with nasal endoscopy findings. We also evaluated the association between periodontitis and CRS according to smoking and drinking status. Univariate and multivariate logistic regression analyses were performed. Overall, 28,761 participants were eligible for analysis, and 210 were diagnosed with CRS. Periodontitis was associated with CRS diagnosis (odds ratio [OR] = 1.391, 95% confidence interval [CI] = 1.013–1.912). Non-drinkers showed no significant association between periodontitis and CRS (OR = 1.142, 95% CI 0.746–1.749). However, among drinkers, periodontitis was significantly associated with CRS (OR = 1.733, 95% CI 1.091–2.753). The number of smokers with CRS was not statistically sufficient and a logistic regression model based on smoking status could not be generated. Individuals with periodontitis in the upper jaw may need to consult an otorhinolaryngologist for comorbid CRS especially according to drinking status.
Ganoderic acid C2 exerts the pharmacological effects against cyclophosphamide-induced immunosuppression: a study involving molecular docking and experimental validation
Authors: Liu Yuchen , Tan Dongsheng , Cui Hong , Wang Jihua 
Published: October 2023

AbstractTriterpenoids, as the main active ingredient of Ganoderma lucidum fermented extract, exert multiple pharmacological activities, including immunomodulatory properties. Our study aimed to reveal the pharmacological effects and potential mechanisms of Ganoderic acid C2 (GAC) against cyclophosphamide (CY)-associated immunosuppression. Target genes were collected from several public databases, including the DisGeNET, Comparative Toxicogenomics Database, GeneCards, and PharmMapper. STRING database was used to construct the protein–protein interaction of network. Subsequently, molecular docking was carried out to visualize the protein-GAC interactions. Experimental validations, including ELISA and qRT-PCR were performed to confirm the pharmacological activities of GAC on CY-induced immunosuppression model. A total of 56 GAC-related targets were identified to be closely associated with CY-induced immunosuppression. Enrichment analyses results revealed that these targets were mainly involved in immune and inflammatory response-related pathways. STAT3 and TNF were identified as the core targets of GAC. Molecular docking indicated that GAC combined well with STAT3 and TNF protein. In addition, animal experiments indicated that GAC improved immunity as well as STAT3 and TNF genes expression in CY-induced immunosuppression, which further verified the prediction through bioinformatics analysis and molecular docking. We successfully revealed the potential therapeutics mechanisms underlying the effect of GAC against CY-induced immunosuppression based on the combination of bioinformatics analysis, molecular docking, and animal experiments. Our findings lay a theoretical foundation for the in-depth development and utilization of Ganoderma lucidum fermentation product in the future, and also provide theoretical guidance for the development of innovative drugs that assist in improving immunity.
Discrimination of Camellia cultivars using iD-NA analysis
Authors: Kikkawa Hitomi S. , Sato Mitsuhiko P. , Matsuo Ayumi , Sasaki Takanori , Suyama Yoshihisa , Tsuge Kouichiro 
Published: October 2023

AbstractRecently, many new cultivars have been taken abroad illegally, which is now considered an international issue. Botanical evidence found at a crime scene provides valuable information about the origin of the sample. However, botanical resources for forensic evidence remain underutilized because molecular markers, such as microsatellites, are not available without a limited set of species. Multiplexed intersimple sequence repeat (ISSR) genotyping by sequencing (MIG-seq) and its analysis method, identification of not applicable (iD-NA), have been used to determine several genome-wide genetic markers, making them applicable to all plant species, including those with limited available genetic information. Camellia cultivars are popular worldwide and are often planted in many gardens and bred to make new cultivars. In this study, we aimed to analyze Camellia cultivars/species through MIG-seq. MIG-seq could discriminate similar samples, such as bud mutants and closely related samples that could not be distinguished based on morphological features. This discrimination was consistent with that of a previous study that classified cultivars based on short tandem repeat (STR) markers, indicating that MIG-seq has the same or higher discrimination ability as STR markers. Furthermore, we observed unknown phylogenetic relationships. Because MIG-seq can be applied to unlimited species and low-quality DNA, it may be useful in various scientific fields.
Quad-port multiservice integrated optically transparent automotive antenna for vehicular classification applications
Authors: Kannappan Lekha , Palaniswamy Sandeep Kumar , Kanagasabai Malathi , Pakkathillam Jayaram Kizhekke , Kumar Sachin , Hussein Mousa I. 
Published: October 2023

AbstractThe demand for vehicular antennas increases in tandem with the need for multiple features in automobiles. The development of optically transparent antenna (OTA) has made it possible to deploy antennas on delicate surfaces such as glass. Earlier studies on OTA demonstrated its viability using materials such as transparent conducting oxides (TCO) and conductive polymers. A tri-band OTA is proposed in this paper for vehicular applications. The antenna operates at 1.8 GHz, 2.4 GHz and 3.39–12 GHz bands, covering automotive/wireless applications such as GSM, Bluetooth, Wi-Fi, vehicular communication and electronic toll collection. The proposed OTA is developed on soda lime glass, and the material TCO is used for the radiator and the ground plane. The antenna prototype is tested on windshield and in an anechoic chamber, the gain and efficiency are found to be greater than 1 dBi and 80%, respectively. Furthermore, a machine learning technique for vehicle classification is proposed, which could help in electronic toll collection, automatic vehicle identifier, and parking management applications. The presented algorithm achieves 80% classification accuracy with a minimum window size.
Correlation between choline kinase alpha expression and 11C-choline accumulation in breast cancer using positron emission tomography/computed tomography: a retrospective study
Authors: Ozawa Akane , Iwasaki Masako , Yokoyama Kota , Tsuchiya Junichi , Kawano Ryutaro , Nishihara Hiroshi , Tateishi Ukihide 
Published: October 2023

AbstractCholine kinase (CK) is reportedly overexpressed in various malignancies. Among its isoforms, CKα overexpression is presumably related to oncogenic change. Choline positron emission tomography (PET) is reportedly useful for detecting and evaluating therapy outcomes in malignancies. In this study, we investigated the correlation between CKα expression and 11C-choline accumulation in breast cancer cells. We also compared the CKα expression level with other pathological findings for investigating tumour activity. Fifty-six patients with breast cancer (mean age: 51 years) who underwent their first medical examination between May 2007 and December 2008 were enrolled. All the patients underwent 11C-choline PET/computed tomography imaging prior to surgery. The maximum standardised uptake value was recorded for evaluating 11C-choline accumulation. The intensity of CKα expression was classified using immunostaining. A significant correlation was observed between CKα expression and 11C-choline accumulation (P < 0.0001). A comparison of breast cancer mortality demonstrated that strong CKα expression was associated with a shorter survival time (P < 0.0001). 11C-choline accumulation was also negatively correlated with survival time (P < 0.0001). Tumours with strong CKα expression are reportedly highly active in breast cancer. A correlation was observed between CKα expression and 11C-choline accumulation, suggesting their role as prognostic indicators of breast cancer.