bluuebunny/crossref_metadata_2025_split huggingface dataset:
Characteristics and varieties of gases enclathrated in natural gas hydrates retrieved at Lake Baikal
Authors: Hachikubo Akihiro , Minami Hirotsugu , Sakagami Hirotoshi , Yamashita Satoshi , Krylov Alexey , Kalmychkov Gennadiy , Poort Jeffrey , De Batist Marc , Manakov Andrey , Khlystov Oleg 
Published: March 2023

AbstractMolecular and stable isotope compositions of hydrate-bound gases collected from 59 hydrate-bearing sites between 2005 to 2019 in the southern and central sub-basins of Lake Baikal are reported. The δ2H of the hydrate-bound methane is distributed between − 310‰ and − 270‰, approximately 120‰ lower than its value in the marine environment, due to the difference in δ2H between the lake water and seawater. Hydrate-bound gases originate from microbial (primary and secondary), thermogenic, and mixed gas sources. Gas hydrates with microbial ethane (δ13C: − 60‰, δ2H: between − 310‰ and − 250‰) were retrieved at approximately one-third of the total sites, and their stable isotope compositions were lower than those of thermogenic ethane (δ13C: − 25‰, δ2H: − 210‰). The low δ2H of ethane, which has rarely been reported, suggests for the first time that lake water with low hydrogen isotope ratios affects the formation process of microbial ethane as well as methane. Structure II hydrates containing enclathrated methane and ethane were collected from eight sites. In thermogenic gas, hydrocarbons heavier than ethane are biodegraded, resulting in a unique system of mixed methane-ethane gases. The decomposition and recrystallization of the hydrates that enclathrate methane and ethane resulted in the formation of structure II hydrates due to the enrichment of ethane.
Estimating aspect ratio of the distal femur and proximal tibia in the Emirati population from MRI scans of the knee: a preliminary experience
Authors: Prithishkumar Ivan James , Abdulwahab Taiceer , Mohammad Alshafi , Albelooshi Ali 
Published: March 2023

AbstractSize and shape of knee implants play an important role in the success of total knee arthroplasty. Several studies have identified anthropometric differences of the distal femur and proximal tibia between the genders and ethnicities. Ill-fitting prosthesis can cause overhang or under-fit resulting in persistence of pain, periprosthetic fracture and decreased range of motion. The purpose of this study was to estimate the aspect ratio of distal femur and proximal tibia in the Emirati population and determine whether gender differences exist within this group. Magnetic resonance imaging datasets of unilateral knees scans performed on adult Emirati patients at a tertiary care hospital were retrospectively examined. Knee parameters were obtained from 65 males and 46 females (n = 111). Females showed significantly smaller AP and ML dimensions of distal femur and lower aspect ratios compared to males (p < 0.001). Proximal tibial dimensions (AP and ML) of Emirati women are also significantly smaller compared to men. However, aspect ratio of proximal tibia did not show gender variation (p = 0.956) within the Emirati population. Emirati knees showed significant gender differences in bony dimensions and aspect ratio of the knee, and also have smaller aspect ratios when compared with most other population groups.
Pan-cancer genomic analysis shows hemizygous PTEN loss tumors are associated with immune evasion and poor outcome
Authors: Vidotto T. , Melo C. M. , Lautert-Dutra W. , Chaves L. P. , Reis R. B. , Squire J. A. 
Published: March 2023

AbstractIn tumors, somatic mutations of the PTEN suppressor gene are associated with advanced disease, chemotherapy resistance, and poor survival. PTEN loss of function may occur by inactivating mutation, by deletion, either affecting one copy (hemizygous loss) leading to reduced gene expression or loss of both copies (homozygous) with expression absent. Various murine models have shown that minor reductions in PTEN protein levels strongly influence tumorigenesis. Most PTEN biomarker assays dichotomize PTEN (i.e. presence vs. absence) ignoring the role of one copy loss. We performed a PTEN copy number analysis of 9793 TCGA cases from 30 different tumor types. There were 419 (4.28%) homozygous and 2484 (25.37%) hemizygous PTEN losses. Hemizygous deletions led to reduced PTEN gene expression, accompanied by increased levels of instability and aneuploidy across tumor genomes. Outcome analysis of the pan-cancer cohort showed that losing one copy of PTEN reduced survival to comparable levels as complete loss, and was associated with transcriptomic changes controlling immune response and the tumor microenvironment. Immune cell abundances were significantly altered for PTEN loss, with changes in head and neck, cervix, stomach, prostate, brain, and colon more evident in hemizygous loss tumors. These data suggest that reduced expression of PTEN in tumors with hemizygous loss leads to tumor progression and influences anticancer immune response pathways.
Epigenetic modification of gene expression in cancer cells by terahertz demethylation
Authors: Cheon Hwayeong , Hur Junho K. , Hwang Woochang , Yang Hee-Jin , Son Joo-Hiuk 
Published: March 2023

AbstractTerahertz (THz) radiation can affect the degree of DNA methylation, the spectral characteristics of which exist in the terahertz region. DNA methylation is an epigenetic modification in which a methyl (CH3) group is attached to cytosine, a nucleobase in human DNA. Appropriately controlled DNA methylation leads to proper regulation of gene expression. However, abnormal gene expression that departs from controlled genetic transcription through aberrant DNA methylation may occur in cancer or other diseases. In this study, we demonstrate the modification of gene expression in cells by THz demethylation using resonant THz radiation. Using an enzyme-linked immunosorbent assay, we observed changes in the degree of global DNA methylation in the SK-MEL-3 melanoma cell line under irradiation with 1.6-THz radiation with limited spectral bandwidth. Resonant THz radiation demethylated living melanoma cells by 19%, with no significant occurrence of apurinic/apyrimidinic sites, and the demethylation ratio was linearly proportional to the power of THz radiation. THz demethylation downregulates FOS, JUN, and CXCL8 genes, which are involved in cancer and apoptosis pathways. Our results show that THz demethylation has the potential to be a gene expression modifier with promising applications in cancer treatment.
Microwave demonstration of Purcell effect enhanced radiation efficiency
Authors: Stanfield L. D. , Powell A. W. , Horsley S. A. R. , Sambles J. R. , Hibbins A. P. 
Published: March 2023

AbstractWe experimentally demonstrate a Purcell effect-based design technique for improved impedance matching, and thus enhanced the reflection coefficient from a small microwave emitter. Using an iterative process centred on comparing the phase of the radiated field of the emitter in air with that of the emitter in a dielectric environment, we optimise the structure of a dielectric hemisphere above a ground plane surrounding a small monopolar microwave emitter in order to maximise its radiation efficiency. The optimised system shows very strong coupling between the emitter and two omnidirectional radiation modes at 1.99 GHz and 2.84 GHz, yielding Purcell enhancement factors of 1762 and 411 times increase respectively, and near perfect radiation efficiency.
Evaluation of local oxygen flux produced by photoelectrochemical hydroxide oxidation by scanning electrochemical microscopy
Authors: Gupta Bhavana , Aziz Ariba , Sundriyal Shashank , Shrivastav Vishal , Melvin Ambrose A. , Holdynski Marcin , Nogala Wojciech 
Published: March 2023

AbstractSeveral in-situ electrochemical approaches have been developed for performing a localized photoelectrochemical investigation of the photoanode. One of the techniques is scanning electrochemical microscopy (SECM), which probes local heterogeneous reaction kinetics and fluxes of generated species. In traditional SECM analysis of photocatalysts, evaluation of the influence of radiation on the rate of studied reaction requires an additional dark background experiment. Here, using SECM and an inverted optical microscope, we demonstrate the determination of O2 flux caused by light-driven photoelectrocatalytic water splitting. Photocatalytic signal and dark background are recorded in a single SECM image. We used an indium tin oxide electrode modified with hematite (α-Fe2O3) by electrodeposition as a model sample. The light-driven flux of oxygen is calculated by analysis of SECM image recorded in substrate generation/tip collection mode. In photoelectrochemistry, the qualitative and quantitative knowledge of oxygen evolution will open new doors for understanding the local effects of dopants and hole scavengers in a straightforward and conventional manner.
Effectiveness of a transactional model-based education programme for enhancing stress-coping skills in industrial workers: a randomized controlled trial
Authors: Kaveh Mohammad Hossein , Mehrazin Farnaz , Cousins Rosanna , Mokarami Hamidreza 
Published: March 2023

AbstractThe aim of this study was to examine the effectiveness of a stress management educational intervention programme based on the Transactional Model of Stress and Coping (TMSC) among industrial workers. Participants were 106 employees of a power plant in Iran, randomly assigned into an intervention group and a control group. The intervention comprised active and participatory methods to enhance employees coping skills and it was delivered in six face-to-face sessions. Data was collected using the Ways of Coping Questionnaire, the Multidimensional Scale of Perceived Social Support, the Perceived Stress Scale, and the Spiritual Well-Being Scale at baseline and three months after the intervention. We found mean scores of distancing, self-controlling, seeking social support, escape-avoidance, planned problem-solving, positive reappraisal, total coping skills, perceived social support, and spiritual well-being significantly differed at follow-up compared to baseline in the intervention group, but not in the control group. There was also a significant difference in the mean score of perceived stress between the two groups. We conclude that the educational intervention based on the TMSC was effective in improving coping skills and reducing perceived stress. We suggest that interventions based on the TMSC model can be supportive in workplaces where job stress is common.
Long-term intensive management reduced the soil quality of a Carya dabieshanensis forest
Authors: Huang Cheng , Fu Songling , Ma Xiaomin , Ma Xiaoxiang , Ren Xiaoliang , Tian Xinxin , Tong Yinhao , Yuan Feiyang , Liu Hua 
Published: March 2023

AbstractThe evaluation of soil quality can provide new insights into the sustainable management of forests. This study investigated the effects of three types of forest management intensities (non-management (CK), extensive management (EM), and intensive management (IM)), and five management durations (0, 3, 8, 15, and 20 years) on the soil quality of a Carya dabieshanensis forest. Further, minimum data sets (MDS) and optimized minimum data sets (OMDS) were established to evaluate the soil quality index (SQI). A total of 20 soil indicators representing its physical, chemical, and biological properties were measured for the 0–30 cm layer. Using one-way ANOVA and principal component analysis (PCA), the total data set (TDS), the minimum data set (MDS), and optimized minimum data set (OMDS) were established. The MDS and OMDS contained three (alkali hydrolyzed nitrogen (AN), soil microbial biomass nitrogen (SMBN), and pH) and four (total phosphorus (TP), soil organic carbon (SOC), AN, and bulk density (BD)) soil indicators, respectively. The SQI derived from the OMDS and TDS exhibited a stronger correlation (r = 0.94, p < 0.01), which was suitable for evaluating the soil quality of the C. dabieshanensis forest. The evaluation results revealed that the soil quality was highest during the early stage of intensive management (IM-3), and the SQI of each soil layer was 0.81 ± 0.13, 0.47 ± 0.11, and 0.38 ± 0.07, respectively. With extended management times, the degree of soil acidification increased, and the nutrient content decreased. Compared with the untreated forest land the soil pH, SOC, and TP decreased by 2.64–6.24%, 29.43–33.04%, and 43.63–47.27%, respectively, following 20 years of management, while the SQI of each soil layer decreased to 0.35 ± 0.09, 0.16 ± 0.02 and 0.12 ± 0.06, respectively. In contrast to extensive management, the soil quality deteriorated more rapidly under longer management and intensive supervision. The OMDS established in this study provides a reference for the assessment of soil quality in C. dabieshanensis forests. In addition, it is suggested that the managers of C. dabieshanensis forests should implement measures such as increasing the amount of P-rich organic fertilizer and restoring vegetation to increase soil nutrient resources for the gradual restoration of soil quality.
Early cellular events and potential regulators of cellulase induction in Penicillium janthinellum NCIM 1366
Authors: Christopher Meera , Sreeja-Raju AthiraRaj , Abraham Amith , Gokhale Digambar Vitthal , Pandey Ashok , Sukumaran Rajeev K. 
Published: March 2023

AbstractCellulase production by fungi is tightly regulated in response to environmental cues, and understanding this mechanism is a key pre-requisite in the efforts to improve cellulase secretion. Based on UniProt descriptions of secreted Carbohydrate Active enZymes (CAZymes), 13 proteins of the cellulase hyper-producer Penicillium janthinellum NCIM 1366 (PJ-1366) were annotated as cellulases- 4 cellobiohydrolases (CBH), 7 endoglucanases (EG) and 2 beta glucosidases (BGL). Cellulase, xylanase, BGL and peroxidase activities were higher for cultures grown on a combination of cellulose and wheat bran, while EG was stimulated by disaccharides. Docking studies indicated that the most abundant BGL- Bgl2- has different binding sites for the substrate cellobiose and the product glucose, which helps to alleviate feedback inhibition, probably accounting for the low level of glucose tolerance exhibited. Out of the 758 transcription factors (TFs) differentially expressed on cellulose induction, 13 TFs were identified whose binding site frequencies on the promoter regions of the cellulases positively correlated with their abundance in the secretome. Further, correlation analysis of the transcriptional response of these regulators and TF-binding sites on their promoters indicated that cellulase expression is possibly preceded by up-regulation of 12 TFs and down-regulation of 16 TFs, which cumulatively regulate transcription, translation, nutrient metabolism and stress response.
A finite element analysis of different postures and intra-abdominal pressures for the uterine ligaments in maintaining the normal position of uterus
Authors: Chen Jialan , Zhang Junfeng , Wang Fan 
Published: March 2023

AbstractUterine prolapse is a common gynecological disease, which seriously affects the quality of life and physical and mental health of elderly women. The aim of this study was to analyze the influence of different conditions (intra-abdominal pressure (IAP) and posture) on stress and displacement of uterine ligaments using the finite element method, and evaluate the contribution of uterine ligaments on uterus. The three-dimensional (3D) models of retroverted uterus and its accessory ligaments were established, loads and constraints were set in ABAQUS software, and the stress and displacement of uterine ligaments were calculated. The uterine displacement increased with the increase of IAP, and then the stress and displacement of each uterine ligament also increased. The uterine displacement was in the order of forward < upright < backward with different postures, and USL, CL and RL got larger values when the body was backward, while BL got a larger value when the body was forward. With the same condition, the stress of the uterine ligaments was in the order of USL > BL > CL > RL, and the displacement of the ligaments was in the order of BL > RL > USL > CL. The contribution of each uterine ligament changing with different IAP and postures was studied through finite element analysis, and the research results were consistent with the clinical data, which can provide a basis for exploring the mechanism of uterine prolapse.
Collateral activity of the CRISPR/RfxCas13d system in human cells
Authors: Shi Peiguo , Murphy Michael R. , Aparicio Alexis O. , Kesner Jordan S. , Fang Zhou , Chen Ziheng , Trehan Aditi , Guo Yang , Wu Xuebing 
Published: March 2023

AbstractCRISPR/Cas13 systems are increasingly used for programmable targeting of RNAs. While Cas13 nucleases are capable of degrading both target RNAs and bystander RNAs in vitro and in bacteria, initial studies fail to detect collateral degradation of non-target RNAs in eukaryotic cells. Here we show that RfxCas13d, also known as CasRx, a widely used Cas13 system, can cause collateral transcriptome destruction when targeting abundant reporter RNA and endogenous RNAs, resulting in proliferation defect in target cells. While these results call for caution of using RfxCas13d for targeted RNA knockdown, we demonstrated that the collateral activity can be harnessed for selective depletion of a specific cell population defined by a marker RNA in an in vitro setting.
A custom-made AAV1 variant (AAV1-T593K) enables efficient transduction of Japanese quail neurons in vitro and in vivo
Authors: Zoabi Shaden , Andreyanov Michael , Heinrich Ronit , Ron Shaked , Carmi Ido , Gutfreund Yoram , Berlin Shai 
Published: March 2023

AbstractThe widespread use of rodents in neuroscience has prompted the development of optimized viral variants for transduction of brain cells, in vivo. However, many of the viruses developed are less efficient in other model organisms, with birds being among the most resistant to transduction by current viral tools. Resultantly, the use of genetically-encoded tools and methods in avian species is markedly lower than in rodents; likely holding the field back. We sought to bridge this gap by developing custom viruses towards the transduction of brain cells of the Japanese quail. We first develop a protocol for culturing primary neurons and glia from quail embryos, followed by characterization of cultures via immunostaining, single cell mRNA sequencing, patch clamp electrophysiology and calcium imaging. We then leveraged the cultures for the rapid screening of various viruses, only to find that all yielded poor to no infection of cells in vitro. However, few infected neurons were obtained by AAV1 and AAV2. Scrutiny of the sequence of the AAV receptor found in quails led us to rationally design a custom-made AAV variant (AAV1-T593K; AAV1*) that exhibits improved transduction efficiencies in vitro and in vivo (14- and five-fold, respectively). Together, we present unique culturing method, transcriptomic profiles of quail’s brain cells and a custom-tailored AAV1 for transduction of quail neurons in vitro and in vivo.
Machine-learning-powered extraction of molecular diffusivity from single-molecule images for super-resolution mapping
Authors: Park Ha H. , Wang Bowen , Moon Suhong , Jepson Tyler , Xu Ke 
Published: March 2023

AbstractWhile critical to biological processes, molecular diffusion is difficult to quantify, and spatial mapping of local diffusivity is even more challenging. Here we report a machine-learning-enabled approach, pixels-to-diffusivity (Pix2D), to directly extract the diffusion coefficient D from single-molecule images, and consequently enable super-resolved D spatial mapping. Working with single-molecule images recorded at a fixed framerate under typical single-molecule localization microscopy (SMLM) conditions, Pix2D exploits the often undesired yet evident motion blur, i.e., the convolution of single-molecule motion trajectory during the frame recording time with the diffraction-limited point spread function (PSF) of the microscope. Whereas the stochastic nature of diffusion imprints diverse diffusion trajectories to different molecules diffusing at the same given D, we construct a convolutional neural network (CNN) model that takes a stack of single-molecule images as the input and evaluates a D-value as the output. We thus validate robust D evaluation and spatial mapping with simulated data, and with experimental data successfully characterize D differences for supported lipid bilayers of different compositions and resolve gel and fluidic phases at the nanoscale.
OSAP‐Loss: Efficient optimization of average precision via involving samples after positive ones towards remote sensing image retrieval
Authors: Yuan Xin , Xu Xin , Wang Xiao , Zhang Kai , Liao Liang , Wang Zheng , Lin Chia‐Wen 
Published: March 2023

AbstractIn existing remote sensing image retrieval (RSIR) datasets, the number of images among different classes varies dramatically, which leads to a severe class imbalance problem. Some studies propose to train the model with the ranking‐based metric (e.g., average precision [AP]), because AP is robust to class imbalance. However, current AP‐based methods overlook an important issue: only optimising samples ranking before each positive sample, which is limited by the definition of AP and is prone to local optimum. To achieve global optimisation of AP, a novel method, namely Optimising Samples after positive ones & AP loss (OSAP‐Loss) is proposed in this study. Specifically, a novel superior ranking function is designed to make the AP loss differentiable while providing a tighter upper bound. Then, a novel loss called Optimising Samples after Positive ones (OSP) loss is proposed to involve all positive and negative samples ranking after each positive one and to provide a more flexible optimisation strategy for each sample. Finally, a graphics processing unit memory‐free mechanism is developed to thoroughly address the non‐decomposability of AP optimisation. Extensive experimental results on RSIR as well as conventional image retrieval datasets show the superiority and competitive performance of OSAP‐Loss compared to the state‐of‐the‐art.
Cystinose
Authors: Hohenfellner Katharina , Zerell Kirstin , Haffner Dieter 
Published: March 2023

ZusammenfassungDie Cystinose ist eine sehr seltene autosomal-rezessive Speichererkrankung, die mit einer Inzidenz von 1 : 150 000 – 1 : 200 000 auftritt. Ursächlich sind Mutationen im CTNS-Gen,
welches das lysosomale Membranprotein Cystinosin codiert, das für den Transport von Cystin aus dem Lysosom in das Zytoplasma verantwortlich ist. In der Folge kommt es zur Akkumulation von
Cystin in fast allen Zellen und Geweben, insbesondere den Nieren, wodurch sich die Multiorganbeteiligung erklärt. Der Verlauf und die Prognose konnte durch Einführung der medikamentösen
Therapie mit Cysteamin Mitte der 1980er-Jahre und der Möglichkeit der Nierenersatztherapie im Kindesalter entscheidend verbessert werden. Während die Patienten früher ohne Therapie in einer
terminalen Niereninsuffizienz während des 1. Lebensjahrzehnts verstorben sind, erreicht heute die Mehrzahl der Patienten das Erwachsenenalter ohne eine Nierenersatztherapie. Die ältesten
Patienten sind heute ca. 40 Jahre alt. Für die Morbidität und die Mortalität spielt neben dem Zeitpunkt des Therapiebeginns auch die lebenslang notwendige adäquate Cysteamin-Therapie eine
entscheidende Rolle. Die Seltenheit der Erkrankung und die Multiorganbeteiligung stellt für die Betroffenen und die Versorger dieser Patientengruppe eine enorme Herausforderung dar.
Evidenzbasierte Pflege auf Temperatur bringen
Authors: Strnad Philipp , Boese Andrea 
Published: March 2023

ZusammenfassungAm Klinikum Stuttgart konnte durch die Zusammenarbeit von akademisierten Pflegekräften und dem multidisziplinären Team eine evidenzbasierte Leitlinie zum Temperaturmanagement bei früh- und reifgeborenen Säuglingen in der Neonatologie erfolgreich implementiert werden.