bluuebunny/crossref_metadata_2025_split huggingface dataset:
RVFScan predicts virulence factor genes and hypervirulence of the clinical metagenome
Authors: Gu Bing , Jiang Yue , Hu Xuejiao , Fan Shu , Liu Weijiang , Chen Jingjing , Wang Liang , Deng Qianyun , Yang Jing , Yang Aimei , Lou Zheng , Guan Yuanlin , Xia Han 
Published: January 2023

Abstract
Bacterial pathogenicity often involves various virulence factors (VFs). Detecting virulence factor genes (VFGs) is critical for the precise treatment and prognostic management of bacterial infections. However, there is a lack of rapid and accurate methods for VFG identification from the metagenomes of clinical samples. We developed RVFScan (Read-based Virulence Factors’ Scanner), a novel user-friendly online tool that integrates a comprehensive VFG database with corresponding similarity matrix-based criteria for VFG prediction and annotation using metagenomic data without assembly. RVFScan outperformed previous assembly-based and read-based VFG predictors with 97% sensitivity, 98% specificity and 98% accuracy. To investigate the application of RVFScan, we performed the first large-scale analysis of 2425 clinical metagenomic datasets, obtaining species-specific VFG profiles and VF-phenotype associations for 24 important pathogens. By combining genomic comparisons and network analysis, we identified 53 VFGs with significantly higher abundances in hypervirulent Klebsiella pneumoniae (hvKp) than in classical K. pneumoniae (cKp). Furthermore, a cohort of 1256 samples suspected of Klebsiella pneumoniae infection demonstrated that RVFScan could accurately identify hvKp (90% sensitivity, 100% specificity, and 98.73% accuracy; Cohen’s kappa, 0.94; 90% of hvKp samples were consistent with clinical diagnosis). RVFScan could be applied to assembly free metagenomic reads to detect VFGs in low-biomass and high-complexity clinical samples, enabling the rapid identification and symptomatic treatment of hvKp infection and could be applied to other hypervirulent pathogens.
Injuries after cardiopulmonary resuscitation in the pre-hospital and hospital care in two regions of the Czech Republic: retrospective observational cohort study
Authors: Stanislav POPELA , Martin DOBIAS , OLECKA Ivana , Tomas VOJTÍŠEK , Michal PLUHAR , David PERAN 
Published: January 2023

Abstract
Background
Chest compressions applied manually or with mechanical devices can encounter various types of injuries. The aim of this study is to analyse the corelation between the way the chest compressions were applied and the types of injury in deceased patients who underwent CPR for sudden cardiac arrest of non-traumatic aetiology. Study is reported as per STROBE guidelines.
Methods
This is a retrospective observational cohort study from two geographical regions of the Czech Republic. Adult patients (>18 years old) with sudden cardiac arrest of non-trauma aetiology resuscitated by the emergency medical services were included.
The cohorts were divided based on the way the chest compressions were provided – manual compressions, compressions provided by mechanical device, and compressions provided manually with the use of cardio pump. The variables used were injuries found during the autopsy.
Results
The research set of 113 cases of non-traumatic adult sudden cardiac arrests consisted of 75 men and 38 women. Average time of resuscitation was reported as 32.9 minutes. Manual chest compressions were performed in 46 (40.35%) cases, manual chest compressions using cardio pump in 27 (23.68%) cases, and mechanical chest compressions in 40 (35.08%) cases.
Conclusions
The use of cardio pump or mechanical chest compressions relates to more left side serial rib fractures and skin injuries, than manual chest compressions in the group of deceased adults who underwent resuscitation of non-trauma origin.
Effects of penehyclidine hydrochloride combined with dexmedetomidine on pulmonary function in patients undergoing heart valve surgery: A Double-Blind, Randomized Trial
Authors: He Fang , Lu Yizhi , Mao Qi , Zhou Lifang , Chen Yanhua , Xie Yubo 
Published: January 2023

Abstract

Aim:To investigate the effects of penehyclidine hydrochloride combined with dexmedetomidine on pulmonary function in patients undergoing heart valve surgery with cardiopulmonary bypass (CPB).Methods:A total of 180 patients undergoing elective heart valve surgery with CPB were randomly divided into four groups: 45 in group P (intravenous penehyclidine hydrochloride 0.02 mg/kg 10 min before anesthesia induction and at the beginning of CPB, total 0.04 mg/kg); 43 in group D (dexmedetomidine 0.5 μg/kg/h after induction of anesthesia until the end of anesthesia); 44 in group PD ( penehyclidine hydrochloride 0.04 mg/kg combined with dexmedetomidine 0.5 μg/kg/h intravenously during anesthesia); and 43 in group C (same amount of normal saline 10 min before and after anesthesia induction, to the end of anesthesia, and at the beginning of CPB). The main outcomes were the incidence and severity of postoperative pulmonary complications (PPCs). The secondary outcomes were: (1) extubation time, length of stay in intensive care, and postoperative hospital stay, and adverse events; and (2) pulmonary function evaluation indexes (oxygenation index and respiratory index) and plasma inflammatory factor concentrations (tumor necrosis factor-α, interleukin-6, C-reactive protein and procalcitonin) during the perioperative period.Results:The incidence of PPCs in groups P, D and PD after CPB was lower than that in group C (P< 0.05), and the incidence in group PD was significantly lower than that in groups P and D (P< 0.05). The scores for PPCs in groups P, D and PD were lower than those in group C (P< 0.05).Conclusion:Combined use of penehyclidine hydrochloride and dexmedetomidine during anesthesia reduced the occurrence of postoperative pulmonary dysfunction, and improved the prognosis of patients undergoing heart valve surgery with CPB.Trial registration:The trial was registered in the Chinese Clinical Trial Registry on 3/11/2020 (Registration No.: ChiCTR2000039610).
Damage Evaluation of Steel Beam-to-column Connections Based on Flange Strain History
Authors: Jiao Yu , Tenderan Randy , Yamada Satoshi 
Published: January 2023

Abstract
The plastic deformation capacity of beam-to-column connections strongly affects the seismic capacity of steel moment frames in seismic design. Ductile fractures that occur after adequate plastic deformation and crack propagation is one of the most typical steel component failure modes during earthquakes. A key index that affects the fractures of materials is the strain amplitude at the critical cross-section. For most structural steels, the strain-life relationship can be expressed using a Manson–Coffin-type equation. The current study proves whether there is a similar Manson–Coffin relationship between the average flange strain amplitude at the critical cross-section and the number of loading cycles until fracture. Shop welded beam-to-column connections made of 400 N/mm2 class structural steel with conventional or improved types of weld access holes are discussed in this study. When these connections are subjected to cyclic loadings, ductile cracks initiated at the toes of the weld access holes propagate during loading, leading to the eventual fractures of the connections. Moreover, cyclic in-plane beam analysis is conducted using an experimental database of 10 beam-to-column connections that are loaded until ductile fractures occur to obtain the strain histories at the beam-end flanges. Based on the strain histories, it is found that, similar to the material level, the Manson-Coffin relationship between the average flange strain amplitude at the critical cross-section and the number of loading cycles until fracture is confirmed on the component level. The Manson–Coffin-type strain-life relationship equations are obtained for these connections with two types of weld access holes. In addition, the results of previous beam-to-column connections loaded under variable amplitudes were studied. To expand the size of the database, experiments were conducted on two beam-to-column connections corresponding to random loading histories. The accuracy of the proposed Manson–Coffin relationships is verified with the experimental results under random loading histories. The current study provides a possible solution for the damage evaluation of steel beam-to-column connections based on strain amplitudes through analysis and a limited number of experiments.
Single-organ Pulmonary Metastasis is a favorable prognostic factor in Metastatic Colorectal Cancer Patients Treated with FOLFIRI and Vascular Endothelial Growth Factor Inhibitors
Authors: Fukuda Koshiro , Osumi Hiroki , Yoshino Koichiro , Nakayama Izuma , Fukuoka Shota , Ogura Mariko , Wakatsuki Takeru , Ooki Akira , Takahari Daisuke , Chin Keisho , Yamaguchi Kensei , Shinozaki Eiji 
Published: January 2023

Abstract
Background: Few studies have focused on the impact of single-organ pulmonary metastases on progression-free survival and overall survival in patients with metastatic colorectal cancer. Recognizing differences in prognosis and chemotherapeutic efficacy based on metastasized organs may help in optimizing treatment strategies. The exploratory study was conducted to evaluate the comparative clinical outcomes and prognoses of patients with metastatic colorectal cancer presenting with single-organ pulmonary metastases and treated with folinic acid, 5-fluorouracil, irinotecan, and vascular endothelial growth factor inhibitors as second-line chemotherapy.
Methods: This retrospective study included 289 patients with metastatic colorectal cancer treated with second-line folinic acid, 5-fluorouracil, irinotecan, and vascular endothelial growth factorinhibitors. The response rate, disease control rate, progression-free survival, and overall survival were assessed in the participants.
Results: Among the 289 patients enrolled, 26 (9.0%) had single-organ pulmonary metastasis with left-sided primary locations, lower levels of tumor markers at the initiation point of chemotherapy, a significantly higher disease control rate (96.2% vs. 76.7%, P = .02), and a longer progression-free survival (median 29.6 months vs. 6.1 months, P < .001) and overall survival (median 41.1 months vs. 18.7 months, P < .001) than patients with other forms of metastatic colorectal cancer. Multivariate analysis showed that single-organ pulmonary metastasis was an independent predictor of longer progression-free survival (hazard ratio 0.37, P = .002) and overall survival (hazard ratio 0.23, P < .001).
Conclusion: Single-organ pulmonary metastasis was a strong predictor of progression-free survival and overall survival in patients with metastatic colorectal cancer treated with folinic acid, 5-fluorouracil, irinotecan, and vascular endothelial growth factor inhibitors as second-line chemotherapy; this provides preliminary evidence for medical guidelines and clinical decision-making on novel therapeutic strategies for these patients.
Paneth cells as the origin of intestinal cancer in the context of inflammation
Authors: Fodde Riccardo , Verhagen Mathijs , Joosten Rosalie , Schmitt Mark , Sacchetti Andrea , Choi Jiahn , Välimäki Niko , Aaltonen Lauri , Augenlicht Leonard 
Published: January 2023

Abstract

Paneth cells (PCs), responsible for the secretion of antimicrobial peptides in the small intestine and for niche support to Lgr5+ crypt-base columnar stem cells (CBCs), have been shown to respond to inflammation by dedifferentiating into stem-like cells in order to sustain a regenerative response1,2. Therefore, PCs may represent the cells-of-origin of intestinal cancer in the context of inflammation.
To test this hypothesis, we targeted Apc, Kras, and Tp53 mutations in Paneth cells by Cre-Lox technology and modelled inflammation by dextran sodium sulfate (DSS) administration. PC-specific loss of Apc resulted in multiple small intestinal tumors, whereas Kras or Tp53 mutations did not. Compound Apc and Kras mutations in PCs resulted in a striking increase in tumor multiplicity even in the absence of the inflammatory insult. By combining scRNAseq with lineage tracing to capture the conversion of PCs into bona fide tumor cells, we show that they progress through a “revival stem cell” (RSC) state characterized by high Clusterin (Clu) expression and Yap1 signaling, reminiscent of what has been previously observed upon irradiation of the mouse digestive tract3. Accordingly, comparison of PC- and Lgr5-derived murine intestinal tumors revealed differences related to Wnt signaling and inflammatory pathways which match the dichotomy of CBCs and injury-induced RSCs4 between human sporadic colon cancers and those arising in the context of inflammatory bowel diseases. Last, we show that western-style dietary habits, known to trigger a low-grade inflammation throughout the intestinal tract, underlie the analogous de-differentiation of Paneth cells and their acquisition of stem-like features.
Taken together, our results show that intestinal cancer arises in the context of inflammation through the dedifferentiation of committed secretory lineages such as Paneth cells and the activation of the revival stem cell state. As such, a true quiescent stem cell identity may be hidden in fully committed and post-mitotic lineages which, upon inflammation, support the regenerative response by re-entering the cell cycle and dedifferentiating into RSCs. The chronic nature of the tissue insult in inflammatory bowel diseases and even in the context of western-style dietary habits is likely to result in the expansion of cell targets for tumor initiation and progression.
WITHDRAWN: The impact of green transformational leadership and green HRM on green innovation and environmental performance
Authors: Usprech Jory , Palmert Graham 
Published: January 2023

Abstract

We used the resource-based view and the ability-motivation-opportunity theory to analyze the connections between green transformational leadership, green innovation, and environmental performance as they relate to green human resource management. We gathered tetradic data from 309 SMEs in the manufacturing sector using a questionnaire (SMEs). In this investigation, we tested hypotheses using structural equation modeling (SEM) with a covariance focus. According to the findings, the relationship between green transformational leadership and green innovation is mediated by green human resource management techniques. In addition, we discovered that green HRM affects a company's environmental performance in a roundabout way through green innovation. Overall, our study's results back up all hypotheses of direct and indirect impacts and have various theoretical and practical consequences. Finally, our research makes a significant theoretical contribution by indicating that the HRM-performance relationship depends not on the additive effect of green transformational leadership and green innovation as antecedent and mediator, respectively, nor on their interactive effect, but on a mix of both combinational forms (i.e., additive and interactive) to affect firm environmental performance. Overall, our research adds to the literature by expanding on the idea that leadership has a significant impact on HRM practices, which in turn predicts green innovation in the workplace.
Brief Preoperative Frailty Screening Predicts Adverse Postoperative Outcomes in Elderly Patients with Radical Esophageal Cancer Surgery
Authors: Hao Xinyu , Guo Yongxin , Xu Ziyao , Liu Jingjing , Tian Jingyang , Cao Fuyang , Song Yanping , Liu Yanhong , Fu Qiang , Cao Jiangbei , Mi Weidong , Li Tong 
Published: January 2023

Abstract
Background
Frailty is increasingly becoming a powerful prognostic factor for cancer patients after surgery. The purpose of this study was to explore the prognostic value of 5-modified frailty index (mFI-5) in postoperative mortality and major morbidity in patients with esophageal cancer over 65 years of age.
Methods
Data comes from the largest database of esophageal cancer patients in China. A total of 699 patients over 65 years old who underwent primary esophagectomy from January 1, 2014 to January 31, 2017. mFI-5 variables include hypertension, type Ⅱ diabetes, congestive heart failure, chronic obstructive pulmonary disease, and independent functional status. 1 point is assigned to each variable. Patients were divided into 3 groups based on their mFI-5: frail group (mFI-5, 2–5), prefrail group (mFI-5, 1) and robust group (mFI-5, 0). The primary outcome was 30-day mortality. Secondary outcomes were postoperative pneumonia and postoperative delirium.
Results
A total of 699 patients were included in the cohort study. Frailty group had the highest incidence of postoperative delirium (frailty: 22.5% vs. prefrailty : 14.7% vs. robust : 2.9%; p < 0.001), postoperative pneumonia (frailty : 13.3% vs. prefrailty : 9.8% vs. robust : 3.8%; p < 0.001), and 30-day mortality (frailty: 5.8% vs. prefrailty : 1.6% vs. robust: 1.2%; p < 0.001). Multivariate analysis showed that frailty was associated with a significantly increased risk of postoperative delirium (aOR, 6.82; 95% confidence interval (CI), 3.12–14.89; p < 0.001), postoperative pneumonia (aOR, 4.12; 95%CI, 2.52–5.72; p < 0.001) and 30-day mortality (aOR, 14.30; 95%CI, 4.87–42.03; p < 0.001).
Conclusions
Frailty, as determined by mFI-5, is associated with increased odds of postoperative delirium, postoperative pneumonia, and 30-day mortality in patients undergoing radical esophagectomy.
Growth of a red alga species (Vertebrata lanosa) in lab culture
Authors: Petride Newt , Fredriksen Stein 
Published: January 2023

Abstract
Vertebrata lanosa is an intertidal red algal species that grows epiphytically on Ascophyllum nodosum, a brown fucoid alga. V. lanosa received culinary interest in the recent years due to its truffle-like taste and it is currently only harvested from natural populations. This study has focused on the growth of the species in lab cultures and investigated the temperature and salinity leading to higher specific growth rate. V. lanosa showed higher growth rate in 10 oC and 30‰. Overall, the study identified optimal temperature and salinity conditions for indoor controlled cultivation of the species and proved that Vertebrata lanosa can be cultivated in absence of its host, A. nodosum. Furthermore, a complete life cycle of V. lanosa has been carried out in culture where all life history phases and stages were observed. Though, to move from experimental culture to a larger scale production, further research is needed both on the cultivation of the species and the biochemical interactions with its host. Acknowledgements
Assessment the impact of Anthropogenic activities on sediment physico-chemical characteristics of Owalla Reservoir, Osun State, Southwest, Nigeria
Authors: Aduwo Idowu , Adesakin Taiwo , Oyewale Abayomi , Adeniyi Funso 
Published: January 2023

Abstract
The study assessed the physico-chemical characteristics of sediments from Owella reservoir in Osun State, Nigeria with the primary aim of creating a baseline information in aspect of limnology and also to further assess influenced by anthropogenic activities as well as characteristics that were affected mostly by natural sources in the water body. Twenty sampling stations were established along the reservoir representing its three different sections and two zones for a period of two years. On the average, the reservoir sediment was mostly sand, clayey-sand in texture, acidic in chemical reaction, low in nutrients and moderate in organic matter. Although, nutrients were identified to be mostly of anthropogenic origin, while alkali metals and alkaline earth metals were from both anthropogenic and natural sources. The overall order of dominance of the exchangeable cations was: Mg2+ > Ca2+ > H+ > Al3+ > K+ >Na+ and anions in the order PO34- > SO42− > NO3−> Cl−. Significantly difference (p < 0.05) were observed in the physico-chemical characteristics of the sediment across the two zones (littoral and open water) of the reservoir and horizontal variation along the three basin sections (upstream, mid-basin and downstream) and over the two seasons of the year were mostly not significant (p > 0.05). The overall mean values obtained for particle size distribution along the reservoir were in the following order: sand (7.31%) > Silt (43%) > clay (57%). Surface run-offs are major contaminant in Nigeria waterbodies and through geochemical weathering of the top soils. The results showed low concentration of cations, anions and nutrients compound in the sediment of Owella reservoir which suggests low influence of anthropogenic activities on the sediment quality.
The use of Dual Mobility cups in primary Total Hip Arthroplasty: a bicentric, retrospective study of 196 implants
Authors: Ciatti Corrado , Quattrini Fabrizio , Caggiari Gianfilippo , Doria Carlo , Fernàndez Ramón Vallenilla , Marquez Carlos Eduardo , Mohtar Shamira , Jaén Ruben , Monasterios Andrés Mauricio , Maniscalco Pietro 
Published: January 2023

Abstract
Background
Dual Mobility is based on two concentric joints: a head within a retentive polyethylene liner, which moves freely inside the acetabular cup. This paper aims to present our experience with the use of dual mobility in primary hip replacement, evaluating the patient’s outcome after surgery.
Methods
We conducted a retrospective bi-centre study, including all patients operated with a dual mobility hip replacement at “Centro Medico de Caracas” (Caracas, Venezuela) and “Guglielmo da Saliceto Hospital” (Piacenza, Italy), between August 2014 and August 2020 (6 years). Dualis® dual mobility cementless cup was used in all surgeries, coupled with different stems. Outcome assessment after hip replacements was determined with the Harris Hip Score at 3 months post surgery., then we registered any complications in the first two postoperative years.
Results
The total cohort was composed of 196 THAs: 35.4% male, 64.6% female (64.6%), mean age 63.6 years. We used 3 different stems: Korus (Gruppo Bioimpianti S.r.l.) (78.1%), Fin (Gruppo Bioimpianti S.r.l.) (3.1%) and Corail (DePuy Synthes) (18.9%). The femoral head was composed of ceramic (93.9%) or metal (6.1%); the size was always 28 mm. The average Harris Hip Score was 34.3 ± 15.8 (min 4 - max 69) preoperative, and 91.2 ± 6.7 (min 61 - max 100) at 3 months follow-up. The HHS grading was “Poor” in 1.0% cases, “Fair” in 6.1% cases, “Good” in 27.0% cases and “Excellent” in 65.8% cases. The outcome was significantly better in young patients: mean HHS of the 98 younger patients is 95.9 ± 2.8, while that of the 98 older patients is 86.5 ± 6.2 (p value < 0.001). We registered an overall dislocation rate of 0%, while we reported 8 revisions (4.1%), due to periprosthetic fracture (4), aseptic loosening (1, infection (1), component breakage (1) and pain (1). The coupling Dualis-Korus reported a failure rate of 3.3% (5/153), Dualis-Fin 16.7% (1/6) while Dualis-Corail 5.4% (2/37).
Conclusion
The dual mobility system is an effective solution within primary hip replacement: it reduces wear and loosening forces, increasing joint range and prosthesis stability, with a very low incidence of dislocation. In younger patients, and arthritic ones, even the best results can be expected.