bluuebunny/crossref_metadata_2025_split huggingface dataset:
Structural basis for HIV-1 capsid adaption to rescue IP6-packaging deficiency
Authors: Zhu Yanan , Kleinpeter Alex B , Rey Juan S. , Shen Juan , Shen Yao , Xu Jialu , Hardenbrook Nathan , Chen Long , Lucic Anka , Perilla Juan R. , Freed Eric O. , Zhang Peijun 
Published: February 2025

AbstractInositol hexakisphosphate (IP6) promotes HIV-1 assembly via its interaction with the immature Gag lattice, effectively enriching IP6 within virions. During particle maturation, the HIV-1 protease cleaves the Gag polyproteins comprising the immature Gag lattice, releasing IP6 from its original binding site and liberating the capsid (CA) domain of Gag. IP6 then promotes the assembly of mature CA protein into the capsid shell of the viral core, which is required for infection of new target cells. Recently, we reported HIV-1 Gag mutants that assemble virions independently of IP6. However, these mutants are non-infectious and unable to assemble stable capsids. Here, we identified a mutation in the C-terminus of CA – G225R – that restores capsid formation and infectivity to these IP6-packaging-deficient mutants.Furthermore, we show that G225R facilitates thein vitroassembly of purified CA into capsid-like particles (CLPs) at IP6 concentrations well below those required for WT CLP assembly. Using single-particle cryoEM, we solved structures of CA hexamer and hexameric lattice of mature CLPs harbouring the G225R mutation assembled in low-IP6 conditions. The high-resolution (2.7 Å) cryoEM structure combined with molecular dynamics simulations of the G225R capsid revealed that the otherwise flexible and disordered C-terminus of CA becomes structured, extending to the pseudo two-fold hexamer-hexamer interface, thereby stabilizing the mature capsid. This work uncovers a structural mechanism by which HIV-1 adapts to a deficiency in IP6 packaging. Furthermore, the ability of G225R to promote mature capsid assembly in low-IP6 conditions provides a valuable tool for capsid-related studies and may indicate a heretofore unknown role for the unstructured C-terminus in HIV-1 capsid assembly.
Linking acoustic telemetry data to spatial covariates in river networks with spatially explicit capture-recapture models
Authors: Bottoms Joseph R. , Auger-Méthé Marie , O’Connor Bryce , Power Michael , Patterson David A. , Shrimpton J. Mark , Cooke Steven J. , Martins Eduardo G. 
Published: February 2025

AbstractSpatially explicit capture-recapture (SECR) models extend classical capture-recapture models to include spatially-explicit animal locations and environmental covariates. SECR models have been widely employed in terrestrial studies to predict the population size and densities of animals assuming a closed population over a defined area. In this work, we extend and apply SECR models to a novel use-case that both uses a relative density formulation and accounts for biased tagging distributions to estimate parameters of habitat use from acoustic telemetry data in a branching river network.Using SECR models, we predict how temperature distributions during the summer feeding season influenced how tagged Arctic grayling (Thymallus arcticus) distributed themselves through the Parsnip watershed in northcentral British Columbia, Canada. We found that the relative density of tagged Arctic grayling peaked at water temperatures of 12.4 °C. In warm years, relative densities were constricted as parts of the watershed became unfavorably warm. In cool years, fish were distributed widely throughout the watershed.In acoustic telemetry, only the tagged population is available for detection. We highlight several specific considerations and assumptions for using this approach: i.e. (a) activity centres are assumed to remain in the same location throughout the study period, thus the time window of the study should be selected accordingly (e.g., exclude migratory periods); (b) inferences from acoustic telemetry data depict relative (not absolute) densities; and (c) spatial tagging effort must be defined in the model to ensure that predictions are not merely an artefact of tagging effort across space and time. When applied following these assumptions, this method is broadly useful for ecologists as it presents a quantitative way to merge automated telemetry datasets with discrete habitat parameters that drive population distributions through time and are relevant to managers and conservation professionals. Further, this method can be applied to branching river networks in which topological challenges have hindered other statistical approaches.
Macroinvertebrate diversity patterns in a guano-rich temperate cave
Authors: Dainelli Luisa , Martínez Alejandro , Serena Fabrizio , Gammuto Leandro , Graco-Roza Caio , Langeneck Joachim , Mammola Stefano , Petroni Giulio 
Published: February 2025

AbstractMost caves in temperate regions are energy-poor, leading to low richness and abundances of terrestrial macroinvertebrates. However, caves with abundant bat populations may represent a notable exception, as bat guano serves as a significant source of organic matter, supporting diverse specialized invertebrates. Yet, given the overall rarity of guano-rich caves in temperate region, their ecological dynamics are poorly understood. We conducted a year-long monthly standardized monitoring of the macroinvertebrates of the Buca dei Ladri cave, a guano-rich cavity in Tuscany, Italy. At each survey, we counted species within different sampling quadrats and collected environmental variables such as temperature, structural heterogeneity of the substrate, dominant substrate, and presence of bats. Over the year, we identified 31 macroinvertebrate species in the cave as both morphospecies and molecular lineages, based on mitochondrial COI and nuclear 18S genes. The latter approach hinted at the presence of cryptic diversity in some species. We observed an increase in species diversity with increasing structural complexity and the presence of bats, whereas a lower species diversity was found in guano-dominated substrates, probably due to the old age and subsequent low nutritional value of the historical guano deposits. Changes in the abundance of species within the cave were primarily explained by differences in structural complexity across sampling quadrats, whereas the distance from the cave entrance mostly explained species replacement. Our results underscore the importance of preserving healthy bat populations and a high habitat heterogeneity within the cave for the long-term conservation of the unique macroinvertebrate assemblages of the cave.
Dispersive estimate of the
a0(980)
contribution to
(g−2)μ
Authors: Deineka Oleksandra , Danilkin Igor , Vanderhaeghen Marc 
Published: February 2025

A dispersive implementation of the a0(980) resonance to (g−2)μ requires the knowledge of the double-virtual S-wave γ*γ*→πη/KK¯I=1 amplitudes. To obtain these amplitudes, we used a modified coupled-channel Muskhelishvili–Omnès formalism, with input from the left-hand cuts and the hadronic Omnès matrix. The latter was derived using a data-driven N/D method, where the hadronic left-hand cuts were approximated via a conformal expansion. Due to the absence of direct hadronic data in the πη channel, the expansion coefficients were fitted to various experimental data sets on two-photon fusion processes with πη and KK¯ final states. The resulting dispersive estimate for the a0(980) contribution to (g−2)μ is aμHLbL[a0(980)]resc=−0.44(5)×10−11, which presents an order of magnitude improvement in precision over the narrow resonance approximation.

Published by the American Physical Society
2025
Effects of Y content on the oxidation behavior of CoCrNiAl medium entropy alloys at 1,200°C
Authors: Deng Dunying , Liao Yunfan , Lin Meichao , Xiong Xiaxuan , Tong Yonggang 
Published: February 2025

Purpose
The purpose of this paper is to develop advanced materials with outstanding mechanical properties and high-temperature oxidation performance for their potential application in high-temperature structural components.

Design/methodology/approach
The alloy ingots with high-purity Co, Cr, Ni, Al and Y metals (= 99.9 Wt.%) were prepared in a vacuum arc melting furnace under an argon atmosphere.

Findings
This study investigated the impact of the Y content on the microstructure and oxidation behavior of CoCrNiAl medium entropy alloys at 1,200°C. All alloys exhibit a combination of ß and γ phases, with CoCrNiAlY 0.11revealing the presence of obvious sub-micron γ phase precipitates within the ß phase. The oxidation behavior of CoCrNiAlYx (x = 0.05, 0.08, 0.11) at 1,200°C demonstrates the formation of a dense oxide scale on the alloy surface. The surface with aluminum oxide accompanied by yttrium oxide exhibits improved adhesion between the matrix and oxide scale. The CoCrNiAlY0.11 alloy, with a decreased oxidation rate of 7.8 × 10–6 mg2 cm−4s−1, displays the best oxidation resistance among these alloys with varying Y content.

Originality/value
The study examines the optimal content of Y in the CoCrNiAl medium alloy and its superior oxidation behavior at 1,200°C.
Nexus between ESG scores and financial performance: evidence from the Indian banking sector
Authors: Prasad Ramesh , Mondal Amitava 
Published: February 2025

PurposeThis research analyzes the impact of “Environmental, Social, and Governance” (ESG) practices on Indian banks’ performances with respect to market and operational performance.Design/methodology/approachThis research examines 28 Indian banks (12 public sector and 16 private sector) from 2021 to 2023, using multiple regression models and a robust generalized least square (GLS) estimation. The models include Tobin’s Q (TQ) and Return on Assets (ROA) as dependent variables, while current and lagged ESG performance scores (sourced from Refinitive database) constitute the main independent variables. Additionally, five control variables specific to banks and the COVID-19 pandemic are also incorporated into the analysis.FindingsThe study reveals that ESG practices have a time sensitive impact, meaning that the current year ESG activities have a substantial influence in driving financial performance of Indian banks than past year ESG activities. The benefits derive from past year ESG activities tend to diminish over time. The findings reinforce the necessity for banks to maintain dynamic and evolving ESG framework to remain competitive. Additionally, it is also found that private banks show greater initiative in implementing ESG practices than public banks.Practical implicationsThis study offers noteworthy inputs for academicians, banks, regulators and other stakeholders. Additionally, this research broadens the understanding of sustainable banking practices in Indian domain across different time horizons, offering an initial assessment of how ESG transparency affects bank performance during the post-mandatory ESG disclosure phase.Originality/valueThis research investigates the time-sensitive impacts of ESG-centric practices (considering current and lagged effect) on bank performance, undertaken after the implementation of the Reserve Bank of India’s (RBI) 2020 circular relating to mandatory ESG disclosure for the Indian commercial banks.
Interns’ quality post-COVID-19: assessing industry supervisors’ perspective
Authors: Kamaruddin Muhammad Iqmal Hisham , Mohd Saudi Hammad Farhi 
Published: February 2025

PurposeThis study aims to identify and understand the quality of Universiti Sains Islam Malaysia (USIM) final-year students who began their studies with an online learning approach during the COVID-19 pandemic in internship programmes. It examines the development of these interns’ quality in terms of technical skills, analytical skills, attitudes and ethics during the internship from the perspective of industry supervisors.Design/methodology/approachA questionnaire survey was employed, and 280 industry supervisors of USIM final-year students undergoing internship programs in 2024 participated in this study.FindingsThe findings reveal that industry supervisors view USIM interns as having high levels of skills, attitudes and ethics, despite undergoing an online learning approach and having limited industrial engagement and exposure due to the lockdown during the COVID-19 pandemic. Furthermore, the academic background and industry sector of industry supervisors significantly influenced their views on USIM interns’ skills, attitudes and ethics.Originality/valueThis study is believed to be pioneering in identifying the quality of interns post-COVID-19, particularly in terms of skills, attitudes and ethics.
A perception-based investigation on logistics robot adoption: from an integrated perspective of trust formation and technology acceptance
Authors: Nguyen Cam Tu , Nguyen Thu Thao , Cai Lanhui , Yuen Kum Fai , Wang Xueqin 
Published: February 2025

PurposeThis paper aims to investigate logistics operators’ acceptance of robots by adopting an integrated perspective of trust and technology acceptance.Design/methodology/approachA survey instrument was developed for data collection, targeting employees from Vietnam’s manufacturing or logistics sectors. A total of 401 valid responses were collected; the data were analysed using structural equation modelling.FindingsDispositional and situational trust positively influenced perceived usefulness and ease of use. Furthermore, dispositional and situational trust, perceived ease of use, and perceived usefulness collectively influenced trust in logistics robots. In addition, we found that trust in logistics robots positively affected operators’ acceptance intentions. Thus, the integrated perspectives of trust and technology acceptance were supported.Research limitations/implicationsBy focusing on the interaction between operators and logistics robots, this paper’s findings extend the technology acceptance model (TAM) and enrich the theory of trust.Practical implicationsThe study has significant implications for factories integrating logistics robots into production processes by elucidating the relationship between operators and logistics robots.Originality/valuePrevious research has repeatedly identified trust considerations as a critical factor influencing individuals’ automated technology usage. However, the micro-level trust formation process has received limited attention. This study explains the relationship between perspectives on trust and technology acceptance.
Prevalence and incidence of comorbidities in patients with atopic dermatitis, psoriasis, alopecia areata, and vitiligo using a Japanese claims database
Authors: Ma Yue , Chachin Motohiko , Hirose Tomohiro , Nakamura Kouki , Shi Nanzhi , Hiro Shintaro , Imafuku Shinichi 
Published: February 2025

AbstractAtopic dermatitis, psoriasis, alopecia areata, and vitiligo have been associated with comorbid conditions, including infections, malignancies, and cardiovascular diseases. This study evaluated the prevalence and incidence rates of these comorbidities in patients from Japan. This retrospective cohort study used data collected from the JMDC claims database between June 2013 and December 2020. Patients with a diagnosis of atopic dermatitis, psoriasis, alopecia areata, or vitiligo were matched (1:1) by age, sex, and index month with individuals with no claims records for atopic dermatitis, psoriasis, alopecia areata, or vitiligo diagnosis. Data included 691 338, 51 988, 43 692, and 8912 patients in the atopic dermatitis, psoriasis, alopecia areata, and vitiligo cohorts, respectively, and matched controls. The most prevalent comorbidities in the atopic dermatitis cohort versus matched controls included allergic rhinitis (47% vs 37%), conjunctivitis (33% vs 23%), asthma (27% vs 20%), viral infection (22% vs 15%), and acne (11% vs 3%). Incidence rates per 100 000 person‐years of comorbidities in the atopic dermatitis cohort versus matched controls were: venous thromboembolism, 51.4 (95% confidence interval [CI], 48.3–54.7) versus 31.7 (95% CI, 29.2–34.2); lymphoma, 13.8 (95% CI,12.2–15.6) versus 5.7 (95% CI, 4.7–6.8); cutaneous T‐cell lymphoma, 1.6 (95% CI, 1.1–2.2) versus 0.1 (95% CI, 0.0–0.4); and herpes zoster, 740.9 (95% CI, 728.8–753.1) versus 397.6 (95% CI, 388.9–406.6). Similar trends were observed in the psoriasis versus nonpsoriasis cohorts, with 95% CIs mostly overlapping for alopecia areata and vitiligo cohorts versus controls. Overall, patients from Japan with dermatologic diseases have a higher prevalence and incidence of certain health conditions, particularly venous thromboembolism, lymphoma, and infections in patients with atopic dermatitis and psoriasis, compared with individuals without these dermatologic diseases.
A Rare Case of Cutaneous Intraneural Glomus Tumor
Authors: Frimpong Diana , Naz Sahar , Kadhum Murtaza , Rogut Magdalena , Farooque Taiba , O'Neill Jennifer , Fleming Ann 
Published: February 2025

ABSTRACTThe cutaneous intraneural glomus tumor has been described twice in the literature and remains a rare phenomenon. We present the case of a painful cutaneous lesion on the back of a 77‐year‐old man. Histopathologic examination of the resected lesion revealed a solid dermal nodule set within an expanded peripheral nerve. Immunohistochemistry confirmed the morphological findings with an Smooth Muscle Actin (SMA) positive nodule encased by nerve fascicles demonstrating S100 positivity with a peripheral layer of Epithelial Membrane Antigen (EMA) positive perineural cells. These findings are in keeping with the previous reported cases of cutaneous intraneural glomus tumors and this entity should be considered in the differential diagnosis of painful cutaneous lesions.
The S Triple G Traits – essential traits for students
Authors: Hughes Jasmine G 
Published: February 2025

AbstractOver the years, beginning with my undergraduate lab experiences, I became aware of the traits essential for success in academic study and research. The traits, which I refer to as the “S Triple G Traits” are Support, Growth mindset, Grit and Grace. Support can come from a person's family, friends, lab members, supervisors and themselves. A growth mindset is being open to the possibility of improving and overcoming obstacles. Grit can be considered the process of continuing to apply what you learn from reflection of having a growth mindset and setting it into practice. In theory, your growth mindset can be the foundation on which you can propel your grit in the right direction. Grace is taking a moment to acknowledge your setback and give yourself permission to honor and recognize all the effort you contributed. Using this combination of traits will help to equip students to achieve their goals when faced with obstacles.
β-Lactamase diversity in
Acinetobacter baumannii
Authors: Mack Andrew R. , Hujer Andrea M. , Mojica Maria F. , Taracila Magdalena A. , Feldgarden Michael , Haft Daniel H. , Klimke William , Prasad Arjun B. , Bonomo Robert A. 
Published: February 2025

ABSTRACT

Acinetobacter baumannii
is a clinically important, Gram-negative pathogen responsible for a wide variety of nosocomial and community-acquired infections. Antibiotic resistance is a serious concern, as the organism has a wide variety of intrinsic resistance mechanisms, including chromosomal class C (
bla
ADC
) and D (
bla
OXA-51
family) β-lactamases, and the ability to readily acquire additional β-lactamases. Surveillance studies can reveal the diversity and distribution of β-lactamase alleles, but are difficult and expensive to conduct. Herein, we describe an approach using publicly available data derived from whole genome sequences, to explore the diversity and distribution of β-lactamase alleles across 28,330 isolates. The most common intrinsic alleles at the time of writing were
bla
ADC-73
,
bla
ADC-30
,
bla
ADC-222
,
bla
ADC-33
, and
bla
OXA-66
, and the most common acquired allele was
bla
OXA-23
. Interestingly, only 63.0% of assigned
bla
ADC
alleles were encountered and the 10 most common
bla
ADC
and intrinsic
bla
OXA
alleles represented approximately 75% of their respective gene totals while dozens were extremely infrequent. Differences were observed over time and geography. Surprisingly, more distinct unassigned (i.e., lacking a
bla
ADC
or
bla
OXA
number) alleles were encountered than distinct, assigned alleles. Understanding the diversity and distribution of β-lactamase alleles helps to prioritize variants for further research, selects targets for drug development, and may aid in selecting therapies for a given infection.
Cefepime–taniborbactam and ceftibuten–ledaborbactam maintain activity against KPC variants that lead to ceftazidime–avibactam resistance
Authors: Myers Cullen L. , Stevenson Annie , Miller Brittany , Daigle Denis M. , Uehara Tsuyoshi , Pevear Daniel C. 
Published: February 2025

ABSTRACT

Klebsiella pneumoniae
carbapenemases (KPCs) are widespread β-lactamases that are a major cause of clinical non-susceptibility of Gram-negative bacteria to carbapenems and other β-lactam antibiotics. Ceftazidime combined with the β-lactamase inhibitor avibactam (CAZ–AVI) has been effective in treating infections by KPC-producing bacteria, but emerging KPC variants confer resistance to the combination. Taniborbactam and ledaborbactam are bicyclic boronate β-lactamase inhibitors currently under development with cefepime and ceftibuten, respectively, to treat carbapenem-resistant bacterial infections. Here, we assessed the effects of clinically important KPC-2 and KPC-3 variants (V240G, D179Y, and D179Y/T243M) on the antibacterial activity of cefepime–taniborbactam (FEP–TAN) and ceftibuten–ledaborbactam (CTB–LED) and examined catalytic activity and inhibition of these variants. Unlike CAZ–AVI, FEP–TAN and CTB–LED were highly active against
Escherichia coli
strains expressing these KPC variants. Experiments with purified enzymes showed that FEP and CTB were poorly hydrolyzed by the KPC variants and had weak affinity for variants containing D179Y. In addition, the D179Y substitution in KPC-2 reduced inhibition by TAN and LED, but inactivation efficiencies (
k
2
/
K
) for these inhibitors were significantly higher than those for AVI.
K
2
/
K
was less affected for D179Y-containing KPC-3 variants, and robust inhibition was observed by TAN, LED, and AVI. Together, the findings illustrate a biochemical basis for FEP–TAN and CTB–LED efficacy in KPC variant-mediated CAZ–AVI resistance backgrounds, whereby the boronate inhibitors have sufficient inhibitory activity, while FEP and CTB are poor substrates and bind to the variant enzymes with reduced affinity.