bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Population Genetics Theory for piRNA-regulated Transposable Elements
Authors: Tomar Siddharth S. , Hua-Van Aurélie , Le Rouzic Arnaud 
Published: July 2022

AbstractTransposable elements (TEs) are self-reproducing selfish DNA sequences that can invade the genome of virtually all living species. Population genetics models have shown that TE copy numbers generally reach a limit, either because the transposition rate decreases with the number of copies (transposition regulation) or because TE copies are deleterious, and thus purged by natural selection. Yet, recent empirical discoveries suggest that TE regulation may mostly rely on piRNAs, which require a specific mutational event (the insertion of a TE copy in a piRNA cluster) to be activated — the so-called TE regulation ”trap model”. We derived new population genetics models accounting for this trap mechanism, and showed that the resulting equilibria differ substantially from previous expectations based on a transposition-selection equilibrium. We proposed three sub-models, depending on whether or not genomic TE copies and piRNA cluster TE copies are selectively neutral or deleterious, and we provide analytical expressions for maximum and equilibrium copy numbers, as well as cluster frequencies for all of them. In the full neutral model, the equilibrium is achieved when transposition is completely silenced, and this equilibrium does not depend on the transposition rate. When genomic TE copies are deleterious but not cluster TE copies, no long-term equilibrium is possible, and active TEs are eventually eliminated after an active incomplete invasion stage. When all TE copies are deleterious, a transposition-selection equilibrium exists, but the invasion dynamics is not monotonic, and the copy number peaks before decreasing. Mathematical predictions were in good agreement with numerical simulations, except when genetic drift and/or linkage disequilibrium dominates. Overall, the trap-model dynamics appeared to be substantially more stochastic and less repeatable than traditional regulation models.
Transformation of acoustic information to sensory decision variables in the parietal cortex
Authors: Yao Justin D. , Zemlianova Klavdia O. , Hocker David L. , Savin Cristina , Constantinople Christine M. , Chung SueYeon , Sanes Dan H. 
Published: July 2022

AbstractThe process by which sensory evidence contributes to perceptual choices requires an understanding of its transformation into decision variables. Here, we address this issue by evaluating the neural representation of acoustic information in auditory cortex-recipient parietal cortex while gerbils either performed an auditory discrimination task or while they passively listened to identical acoustic stimuli. During task performance, decoding performance of simultaneously recorded parietal neurons reflected psychometric sensitivity. In contrast, decoding performance during passive listening was significantly reduced. Principal component and geometric analyses each revealed the emergence of decision-relevant, linearly separable manifolds, but only during task engagement. Finally, using a clustering analysis, we found subpopulations of neurons that may reflect the encoding of separate segments during task performance: stimulus integration and motor preparation or execution. Taken together, our findings demonstrate how parietal cortex neurons integrate and transform encoded auditory information to guide sound-driven perceptual decisions.
Unique features of the gut microbiome characterized in animal models of Angelman Syndrome
Authors: Beitnere Ulrika , Vilanova-Cuevas Brayan , Christian Sarah G , Taylor Clint , Berg Elizabeth L , Copping Nycole A , Dindot Scott V. , Silverman Jill L , Gareau Mélanie G , Segal David J 
Published: July 2022

ABSTRACTA large subset of patients with Angelman syndrome (AS) suffer from concurrent gastrointestinal (GI) issues, including constipation, poor feeding, and reflux. AS is caused by the loss of ubiquitin ligase E3A (UBE3A) gene expression in the brain. Clinical features of AS, which include developmental delays, intellectual disability, microcephaly, and seizures, are primarily due to the deficient expression or function of the maternally inheritedUBE3A allele. The association between neurodevelopmental delay and GI disorders is part of the increasing evidence suggesting a link between the brain and the gut microbiome via the microbiota-gut-brain (MGB) axis. To investigate the associations between colonization of the gut microbiota in AS, we characterized the fecal microbiome in three animal models of AS containing maternal deletions ofUbe3A, including mouse, rat, and pig, using 16S ribosomal RNA amplicon sequencing. Overall changes in the microbial composition of all three animal models of AS in both the phylum and genus levels of bacterial abundance were identified. Specific bacterial groups were significantly increased across all animal models, including:Lachnospiraceae Incertae sedis, Desulfovibrios sp., andOdoribacter, which have been correlated with neuropsychiatric disorders. Taken together, these findings suggest that specific changes to the local environment in the gut are driven by aUbe3amaternal deletion, unaffected by varying housing conditions and are prominent and detectable across multiple small and large model species. These findings may begin to uncover the underlying mechanistic causes of GI disorders in AS patients and provide future therapeutic options for AS patients.IMPORTANCEAngelman syndrome (AS) associated gastrointestinal (GI) symptoms significantly impact quality of life in patients. Using AS models in mouse, rat, and pig, AS animals showed impaired colonization of the gut microbiota compared to wild type (healthy) control animals. Unique changes in AS microbiomes across all three animal models may be important in causing GI symptoms and may help to identify ways to treat these comorbidities in patients in the future.
Validated Preclinical Murine Model for Therapeutic Testing against Multidrug Resistant Pseudomonas aeruginosa
Authors: Warawa Jonathan M. , Duan Xiaoxian , Anderson Charles D. , Sotsky Julie B. , Cramer Daniel E. , Pfeffer Tia L. , Guo Haixun , Adcock Robert S. , Lepak Alexander J. , Andes David R. , Slone Stacey A. , Stromberg Arnold J. , Gabbard Jon D. , Severson William E. , Lawrenz Matthew B. 
Published: July 2022

AbstractThe rise in infections caused by antibiotic resistant bacteria is outpacing the development of new antibiotics. The ESKAPE pathogens (Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa, and Enterobacter species) are a group of clinically important bacteria that have developed resistance to multiple antibiotics and are commonly referred to as multidrug resistant (MDR). The medical and research communities have recognized that without new antimicrobials, infections by MDR bacteria will soon become a leading cause of morbidity and mortality. Therefore, there is an ever growing need to expedite the development of novel antimicrobials to combat these infections. Toward this end, we set out to refine an existing murine model of pulmonary Pseudomonas aeruginosa infection to generate a robust preclinical tool that can be used to rapidly and accurately predict novel antimicrobial efficacy. This refinement was achieved by characterizing the virulence of a panel of genetically diverse MDR P. aeruginosa strains in this model, both by LD50 analysis and natural history studies. Further, we defined two antibiotic regimens (aztreonam and amikacin) that can be used a comparators during the future evaluation of novel antimicrobials, and validated that the model can effectively differentiate between successful and unsuccessful treatment as predicted by in vitro inhibitory data. This validated model represents an important tool in our arsenal to develop new therapies to combat MDR P. aeruginosa, with the ability to provide rapid preclinical evaluation of novel antimicrobials that can also serve to support data from clinical studies during the investigational drug development process.
The mechanism of DNA sensor cGAS-STING regulating autophagy-related signal pathways
Authors: Song Wen , Sun Meng , Liu Yuchun , Zhang Yizhe , Lou Haiwei , Fang Huimin , Guo Qi 
Published: July 2022

AbstractCyclic GMP-AMP synthase (cGAS) serves as a DNA sensor for recognizing and binding microbial or self-DNA molecules in cells. Upon binding DNA, cGAS produces the second messenger cGAMP to activate the stimulator of interferon genes (STING), which mediates the expression of type 1 interferons (IFN-I) and other cytokines. cGAS-STING-mediated signal pathway plays an important role in innate immune reaction against microbial infections as well as autoimmunity, tumor immunology, and cellular senescence. During this process, cGAS regulates DNA damage repair and induces STING-mediated NF-κB and MAPK signal pathways in autophagy and lysosome-dependent cell apoptosis. However, the molecular mechanisms of cGAS-STING-mediated autophagy still need to be explored. Here, we found that cGAS-STING promotes autophagy by influencing multiple autophagy-related signal pathways: First, cGAS-STING promotes autophagy by inhibiting the mTOR signaling pathway; Second, cGAS-STING affects autophagy by regulating autophagy-related proteins that are also involved in cGAS-STING-mediated IFN-I and NF-κB signaling pathways; Third, the Bcl2 can interact with cGAS and STING to induce cGAS-STING-mediated up-regulation of IFN-I signaling pathway and down-regulation of NF-κB. In addition, we also found that USP19 can significantly reduce the K11-linked ubiquitination of STING in the process of autophagy. Our findings unveiled the functional role and the mechanism of cGAS-STING signaling in regulating autophagy.
Diet prevents the expansion of segmented filamentous bacteria and ileo-colonic inflammation in a model of Crohn’s disease
Authors: Metwaly Amira , Jovic Jelena , Waldschmitt Nadine , Khaloian Sevana , Heimes Helena , Häcker Deborah , Hammoudi Nassim , Bourhis Lionel Le , Mayorgas Aida , Siebert Kolja , Basic Marijana , Schwerd Tobias , Allez Matthieu , Panes Julian , Salas Azucena , Bleich André , Zeissig Sebastian , Schnupf Pamela , Cominelli Fabio , Haller Dirk 
Published: July 2022

ABSTRACTCrohn’s disease (CD) is associated with changes in the microbiota, and murine models of CD-like ileo-colonic inflammation depend on the presence of microbial triggers. Increased abundance of unknown Clostridiales and the microscopic detection of filamentous structures close to the epithelium of TnfΔARE mice pointed towards segmented filamentous bacteria (SFB), a commensal well-known to induce the maturation of Th17 cell-derived immune responses that is highly implicated in the pathogenesis of IBD. We show that the abundance of SFB strongly correlates with the severity of CD-like ileal inflammation in TnfΔARE and SAMP/Yit mice. SFB mono-colonization of germ-free TnfΔARE mice confirmed the causal link and resulted in severe ileo-colonic inflammation, characterized by elevated tissue levels of Tnf and Il-17, neutrophil infiltration and loss of Paneth and goblet cell function. Co-colonization of SFB in human-microbiota associated TnfΔARE mice confirmed that SFB presence is indispensable for disease development. Screening of 412 ileal and colonic mucosal biopsies from IBD patients using previously published and newly designed human SFB-specific primer sets showed no presence of SFB in human tissue samples. Simulating the protective effect of exclusive enteral nutrition (EEN) by feeding SFB mono-colonized TnfΔARE mice EEN-like purified diet antagonized SFB colonization and prevented disease development in TnfΔARE mice, clearly demonstrating the important role of diet in modulating this IBD-related but murine pathobiont.
Faecal virome of the Australian grey-headed flying fox from urban/suburban environments contains novel coronaviruses, retroviruses and sapoviruses
Authors: Van Brussel Kate , Mahar Jackie E. , Ortiz-Baez Ayda Susana , Carrai Maura , Spielman Derek , Boardman Wayne S. J. , Baker Michelle L. , Beatty Julia A. , Geoghegan Jemma L. , Barrs Vanessa R. , Holmes Edward C. 
Published: July 2022

ABSTRACTBats are important reservoirs for viruses of public health and veterinary concern. Virus studies in Australian bats usually target the familiesParamyxoviridae, CoronaviridaeandRhabdoviridae, with little known about their overall virome composition. We used metatranscriptomic sequencing to characterise the faecal virome of grey-headed flying foxes from three colonies in urban/suburban locations from two Australian states. We identified viruses from three mammalian-infecting (Coronaviridae, Caliciviridae, Retroviridae) and one possible mammalian-infecting (Birnaviridae) family. Of particular interest were a novel bat betacoronavirus (subgenusNobecovirus) and a novel bat sapovirus (Caliciviridae), the first identified in Australian bats, as well as a potentially exogenous retrovirus. The novel betacoronavirus was detected in two sampling locations 1,375 km apart and falls in a viral lineage likely with a long association with bats. This study highlights the utility of unbiased sequencing of faecal samples for identifying novel viruses and revealing broad-scale patterns of virus ecology and evolution.
Improved feature point extraction method of ORB-SLAM2 dense map
Authors: Zhang Lin , Zhang Yingjie 
Published: July 2022

Purpose
This paper aims to quickly obtain an accurate and complete dense three-dimensional map of indoor environment with lower cost, which can be directly used in navigation.

Design/methodology/approach
This paper proposes an improved ORB-SLAM2 dense map optimization algorithm. This algorithm consists of three parts: ORB feature extraction based on improved FAST-12, feature point extraction with progressive sample consensus (PROSAC) and the dense ORB-SLAM2 algorithm for mapping. Here, the dense ORB-SLAM2 algorithm adds LoopClose optimization thread and dense point cloud map and octree map construction thread. The dense map is computationally expensive and occupies a large amount of memory. Therefore, the proposed method takes higher efficiency, voxel filtering can reduce the memory while ensuring the density of the map and then use the octree format to store the map to further reduce memory.

Findings
The improved ORB-SLAM2 algorithm is compared with the original ORB-SLAM2 algorithm, and the experimental results show that the map through improved ORB-SLAM2 can be directly used in navigation process with higher accuracy, shorter tracking time and smaller memory.

Originality/value
The improved ORB-SLAM2 algorithm can obtain a dense environment map, which ensures the integrity of data. The comparisons of FAST-12 and improved FAST-12, RANSAC and PROSAC prove that the improved FAST-12 and PROSAC both make the feature point extraction process faster and more accurate. Voxel filter helps to take small storage memory and low computation cost, and octree map construction on the dense map can be directly used in navigation.
Corrosion and conductivity properties of Ni–P/Ti4O7 coating on carbon steel as bipolar plates for proton exchange membrane fuel cells
Authors: Yu Haiqiang , Guo Quanzhong , Du Keqin , Li Dongyun , Wang Chuan , Wang Yong 
Published: July 2022

Purpose
The purpose of this paper is to investigate the interfacial conductivity and corrosion resistance of the Ni–P/Ti4O7 composite coating that is deposited on a carbon steel substrate as bipolar plates for proton exchange membrane fuel cells.

Design/methodology/approach
The Ni–P/Ti4O7 coating was prepared by electroless plating. Scanning electron microscopy, white light interference, energy dispersive spectrometry and X-ray diffraction were used, respectively, to study the surface morphology, chemical composition and phase composition of coated samples. Electrochemical impedance spectroscopy, potentiodynamic and potentiostatic polarization were used to test the electrochemical performance and corrosion behavior. The interfacial contact resistance (ICR) was measured via the standard method.

Findings
The surface of the Ni–P/Ti4O7 coating is complete and dense and without obvious defects. The electrochemical test results show that the Ni–P/Ti4O7 coating provides better corrosion resistance than the Ni–P coating and substrate. Compared with the Ni–P coating, the ICR of the Ni–P/Ti4O7 coating is lower by about 82.7%. This is because the coating has more conductive contact points. The more exciting thing is that the ICR of the Ni–P/Ti4O7 coating only increases to 12.38 mΩ·cm2 after 5 h of polarization.

Originality/value
This paper provides a method for achieving surface modification of metal bipolar plates. Introducing Ti4O7 particles in the Ni–P layer reduces the contact resistance before and after polarization while ensuring good corrosion resistance.
Investigating the impact of restaurants' sustainable practices on consumers' satisfaction and revisit intentions: a study on leading green restaurants
Authors: Chaturvedi Pallavi , Kulshreshtha Kushagra , Tripathi Vikas , Agnihotri Durgesh 
Published: July 2022

PurposeThis study aims at analyzing the impact of green restaurants' sustainable practices (food safety, food sustainability practices, food quality, and environmental sensitivity) on consumer satisfaction and revisit intention.Design/methodology/approachA self-administered questionnaire was used to collect data from 417 participants who had recently experienced the services of leading green restaurants. The study draws upon the prevailing literature to test a series of research hypotheses through structural equation modeling.FindingsThe findings of the study have confirmed that sustainable practices such as food safety, food sustainability practices, environmental sensitivity, and food quality significantly influence consumers' satisfaction and revisit intentions. The willingness to pay has been found as a sensitive issue as it moderates the relationship between consumer satisfaction and revisit intention.Practical implicationsThis study provides important insights for the businesses operating in foodservice industry. The study suggests important strategies to the restaurant business owners for improving their consumers' satisfaction and revisit intentions. These strategies may help foodservice businesses in building strong brand reputation and a competitive edge over others.Originality/valueThis study contributes to the food service literature by examining the restaurants' environmental legitimacy (food safety, food sustainability practices, food quality, and environmental sensitivity) from consumers' perspective. Moreover, the current study also fills the gap in literature by expanding the knowledge of consumers' pro-environmental behavior in the context of developing nations. Besides, to the best of the authors' knowledge, this is among very few studies, which have emphasized on analyzing consumer satisfaction and revisit intention based on their experience in a green restaurant on particular sustainable parameters.
Impact of banking relationships and ownership concentration on corporate cash holdings in India
Authors: Saxena Vedika , Sahoo Seshadev 
Published: July 2022

PurposeThis study aims to investigate the impact of banking relationships and ownership concentration on corporate cash holdings (CCH) in 333 Indian micro, small and medium-sized enterprises (MSMEs) for nine years (2011–2020).Design/methodology/approachThe authors use system generalized method of moments approach to examine the impact of banking relationships and ownership concentration on CCH.FindingsThe paper finds that the firm's number of banking relationships share a concave (inverted U-shaped) relationship with the cash holding levels. Initially, the positive relationship may signal weak creditworthiness of MSMEs or be a consequence of bank free-rider monitoring issues. The negative effect after a certain level shows that the competition among banks reduces the firm's financial constraints and therefore makes the firms hoard less cash. The authors also document an inverse relationship between ownership concentration and cash holdings. The authors' results suggest that the presence of large shareholders acts as efficient monitors, reducing the risk of potential agency conflicts and thereby managerial entrenchment resulting in lower cash levels. This association remains unchanged for MSMEs in the service sector. However, the quadratic association between banking relationships and CCH vanishes in the presence of a service sector dummy in the regression model. The authors find a significant positive linear relationship in this regard.Originality/valueTo the best of the authors' knowledge, this is the first paper that studies banking relationships and ownership concentration as determinants of Indian MSMEs.
Assessing the influence of COVID-19 protocol on online health information seeking intention of athletes in India
Authors: Behera Rajat Kumar , Bala Pradip Kumar , Rana Nripendra P. , Dwivedi Yogesh K. 
Published: July 2022

PurposeThe Internet is used as a tool to seek health information by individuals. Mental health concerns are the high prevalence of the novel coronavirus disease 2019 (COVID-19) and preventive steps are required to curb the illness. Therefore, to gain more insight into health concerns, it is now a common practice to seek health information on the Internet. This study propose an integrated theoretical model to explore the relationship between COVID-19 protocols and perceived online trust with online health information seeking intention (OHISI) and a moderating effect of perceived severity and perceived urgency.Design/methodology/approachData are collected from 325 athletes in the category of individual and team sports through an online survey in a Likert-scale questionnaire. The analysis is performed with a quantitative methodology.FindingsThe study reveals the bright side of online health information (OHI), which brings athletes together and has played out with virtual happy hours, meetings and events. The bright side of OHI reflects social, cultural, technological and economic benefits. An OHI chatbot offers bright personalised side information to the individual seeker, which is more convenient and efficient than human capabilities.Originality/valueThe pivotal contribution is the integrated theoretical framework that is derived from multidisciplinary literature to capture the complexity of OHI. Also, it conceptualises the constructs in the context of OHI and COVID-19.