bluuebunny/crossref_metadata_2025_split huggingface dataset:
TIPs-VF: An augmented vector-based representation for variable-length DNA fragments with sequence, length, and positional awareness
Authors: De los Santos Marvin I. 
Published: February 2025

ABSTRACTThe ability to accurately encode and represent genetic sequences in machine learning process is critical for advancements in biotechnology, specifically in genetic engineering and synthetic biology. Traditional sequence encoding method face significant limitations in handling sequence variability, maintaining reading frame integrity, and preserving biologically relevant features. This preliminary study presents TIPs-VF (Translator-Interpreter Pre-seeding for Variable-length Fragments), a simple and efficient encoding framework designed to address some of the key challenges in representing genetic sequences for machine learning. The results showed that TIPs- VF enables a variable-length sequence representation that retains biological context while ensuring the alignment of encodings with codon boundary, making it particularly suited for modular genetic construction. TIPs-VF demonstrated superior performance in truncation and fragmentation analysis, sequence homology detection, domain assessment, and splice junction identification. Unlike conventional methods that require fixed-length inputs, TIPs-VF dynamically adapts to sequence length variations, preserving essential features such as domain similarities and sequence motifs. Additionally, TIPs-VF improves open reading frame recognition and enhances the identification of vector parts and plasmid elements by unifying sequence embeddings with the three possible open reading frame. Overall, TIPs-VF offers a robust, biologically meaningful encoding framework that overcomes the constraints of traditional sequence representations by incorporating sequence, length, and positional awareness. The TIPs-VF encoding infrastructure is available athttps://tips.logiacommunications.com.
Subunit specialisation in AAA+ proteins and substrate unfolding during transcription complex remodelling
Authors: Gao Forson , Ye Fuzhou , Buck Martin , Zhang Xiaodong 
Published: February 2025

AbstractBacterial RNA polymerase (RNAP) is a multi-subunit enzyme that copies DNA into RNA in a process known as transcription. Bacteria use σ factors to recruit RNAP to promoter regions of genes that need to be transcribed, with 60% bacteria containing at least one specialized σ factor σ54. σ54recruits RNAP to promoters of genes associated with stress responses and forms a stable closed complex that does not spontaneously isomerize to the open state where promoter DNA is melted out and competent for transcription. The σ54-mediated open complex formation requires specific AAA+ proteins (ATPasesAssociated with diverse cellularActivities) known as bacterial enhancer-binding proteins (bEBPs). We have now obtained structures of new intermediate states of bEBP-bound complexes during transcription initiation, which elucidate the mechanism of DNA melting driven by ATPase activity of bEBPs and suggest a mechanistic model that couples the ATP hydrolysis cycle within the bEBP hexamer with σ54unfolding. Our data reveal that bEBP forms a non-planar hexamer with the hydrolysis-ready subunit located at the furthest/highest point of the spiral hexamer relative to the RNAP. ATP hydrolysis induces conformational changes in bEBP that drives a vectoral transiting of the regulatory N-terminus of σ54into the bEBP hexamer central pore causing the partial unfolding of σ54, while forming specific bEBP contacts with promoter DNA. Furthermore, our data suggest a mechanism of AAA+ protein that is distinct from the hand-over-hand mechanism proposed for many AAA+ proteins, highlighting the versatile mechanisms utilized by the large protein family.
Lamin B1 and LAP2β resist cytoskeletal force to maintain lamin A/C meshwork organization and preserve nuclear integrity
Authors: Alabi Yewande , Aksenova Vasilisa , Arnaoutov Alexei , Marin Harold , Dasso Mary , Buchwalter Abigail 
Published: February 2025

AbstractThe nuclear lamins are extremely long-lived proteins in most cell types. As a consequence, lamin function cannot be effectively dissected with temporal precision using standard knock-down approaches. Here, we apply the auxin-inducible degron (AID) system to rapidly deplete each lamin isoform within one cell cycle and reveal the immediate impacts of lamin loss on the nucleus. Surprisingly, neither acute lamin A/C (LA/C), lamin B1 (LB1), nor lamin B2 (LB2) depletion altered nuclear shape or induced nuclear blebbing, indicating that acute lamin loss is not sufficient to alter nuclear morphology. LB1 depletion is immediately followed by LA/C meshwork disorganization due to actin cytoskeletal forces on the lamina, yet neither LA/C nor LB1 depletion induced nuclear rupturing. We found that the abundant inner nuclear membrane protein LAP2β protects nuclear integrity in the absence of LB1, as depletion of both LB1 and LAP2β induced severe LA/C disorganization and frequent nuclear rupturing. Depolymerization of the actin cytoskeleton prevents nuclear rupture in LAP2β- and LB1-depleted nuclei. We conclude that both LB1 and LAP2β resist cytoskeletal force to maintain regular lamin A/C meshwork organization and preserve nuclear integrity.
Evaluating the toxicity of methanol, formaldehyde and formate on the growth fitness ofYarrowia lipolytica
Authors: Kuang Wei , Hong Yuxiang , Hu Zimu , Xu Peng 
Published: February 2025

AbstractLiquid C1 feedstock, including methanol, formaldehyde and formic acid can be easily manufactured from greenhouse gases CO2and CH4.Yarrowia lipolytica, isolated from marine ecosystem, is a non-conventional yeast which is capable of assimilating multiple range of hydrophobic compounds including alcohols, lipids, hydrocarbons, and volatile fatty acidset al. This yeast has been extensively engineered to produce lipids, carotenoids, squalene and other natural products. Herein we tested the growth fitness ofY. lipolyticawhen exposed to various one-carbon (C1) liquid feedstocks (methanol, formaldehyde, and formic acid). We firstly captured the cell growth kinetics with an automatic Cell Growth Analyzer and fitted the data with a Monod-type growth model. We obtained the inhibition constants of the three liquid C1s from the growth fitness dose-response curves. We found that the lagging phase duration is exponentially correlated with the toxicity of the tested C1 solvents. Notably,Y. lipolyticaexhibited tolerance to methanol (IC50871 mM) and formic acid (IC5042.6 mM), but showed sensitivity to formaldehyde (IC503.8 mM). We next chose fromate as the co-substrate to cultivateY. lipolytica, confirmed thatY. lipolyticacan upcycle formic acid to improve lipid yields and biomass in fed-batch culture. This work broadensY. lipolytica’s substrate scope and facilitates sustainable and cost-efficient production of fuels and chemicals.
The Mn-motif protein MAP6d1 assembles ciliary doublet microtubules
Authors: Gopal Dharshini , Wu Juliette , Delaroche Julie , Bosc Christophe , De Andrade Manon , Denarier Eric , Effantin Gregory , Andrieux Annie , Gory-Fauré Sylvie , Serre Laurence , Arnal Isabelle 
Published: February 2025

AbstractMost eukaryotic cells have cilia that serve vital functions in sensing, signaling, motility. The core architecture of cilia is an array of microtubule doublets, which consist of a complete A-tubule and an incomplete B-tubule. The mechanisms governing the assembly of this complex structure remain poorly understood. Here, using total internal reflection fluorescence microscopy and cryo-electron tomography, we investigate the role of MAP6d1, a brain-specific protein containing microtubule lumen-targeting Mn-motifs. We show that MAP6d1 assembles stable microtubule doublets by recruiting tubulin dimers onto the lattice of the A-tubule to initiate the nucleation of the B-tubule. MAP6d1 also promotes the formation of luminal protofilaments in singlet and doublet microtubules, a previously undescribed phenomenon that likely enhances microtubule stability. In neurons, MAP6d1 localises to the proximal part of primary cilia via its Mn-motif, with its loss resulting in shortened cilia, a characteristic of ciliopathies. MAP6d1 is thus the first microtubule-associated protein found to assemble microtubule doublets, uncovering new functions for Mn-motif proteins in neurons.
MRPL47 Deficiency Drives Mitochondrial Dysfunction via ROS/p38-MAPK/CDKN1A Signaling in Non-Small Cell Lung Cancer
Authors: Bhandari Nikita , Acharya Disha , Chatterjee Annesha , Yelshetti Shweta , Bhat Vinita , Chaube Bal Krishna , Shukla Sudhanshu 
Published: February 2025

AbstractMitoribosomes play a pivotal role in cellular energy metabolism by synthesizing proteins involved in oxidative phosphorylation (OXPHOS) system. Dysregulation of mitoribosomes has been linked to Cancer, yet there have been no studies demonstrating the genetics and epigenetic landscape of mitoribosomal proteins (MRPs). In this study, we conducted a comprehensive analysis of expression, copy number variations, mutations, data from TCGA NSCLC patients to elucidate the genetic mechanism regulating MRPs in NSCLC. Consequently, we identified MRPL47, a significantly amplified and overexpressed mitoribosomal gene. We also found significant correlation of MRPL47 expression and copy number with patients’ survival. Functionally, we showed that inhibition of MRPL47 was associated with reduced cell proliferation and migration. Furthermore, silencing MRPL47 impaired the enzymatic activity of electron chain complex I & III leading to a defective OXPHOS system and elevated mitochondrial ROS level. Further, we showed ROS-mediated increase in CDKN1A through the p38 MAPK pathway. The increased CDKN1A level induced G1 cell cycle arrest by inhibiting E2F activity. RNA sequencing analysis further confirmed that MRPL47 hinders cell growth by inhibiting E2F pathway. Additionally, we found that MRPL47 selectively regulates mitochondrial translation of specific OXPHOS proteins rather than influencing all mitochondrial proteins. Altogether, these findings suggest that MARPL47, is amplified and overexpressed in NSCLC and plays a critical role in tumor progression by regulating ROS signaling pathways.
Consumers’ acceptance and valuation of healthier rice: implications for promoting healthy diets in the Philippines
Authors: Custodio Marie Claire , Ynion Jhoanne , Demont Matty , De Steur Hans 
Published: February 2025

PurposeThis paper aims to analyze and compare consumers’ acceptance and valuation of brown, colored and low glycemic index rice and identify the factors that influence their willingness to pay (WTP).Design/methodology/approachA stated-preference survey was conducted among 600 middle-class urban consumers in the Philippines, using a contingent valuation approach with a between-subjects design. The data were analyzed using hierarchical multiple linear regression.FindingsConsumers accepted healthier rice types, but they discounted them relative to premium white rice, despite receiving product-specific information on health benefits. Consumers’ household income, attitude toward healthy eating and their diet quality had significant effects on WTP. Snack occasions could serve as entry points for healthier rice rather than targeting the substitution of white rice during main eating occasions. Generic information on nutritional benefits of healthier rice products was insufficient to nudge consumers’ intentions toward integrating these products into their diets.Practical implicationsThe empirical contribution provides insights for breeding programs on the design of rice target product profiles that incorporate nutritional attributes.Originality/valueThe current study addresses the gap in consumer preference studies by evaluating nutrition-related attributes of rice. Measures of attitude toward food-based dietary guidelines and indicators of diet quality were included in the set of predictors that may influence WTP. The results provide insights for designing nutrition education programs to promote healthier rice in the context of healthy eating habits and to enhance the health benefits of consumers’ current diets. Future studies should further explore different types of nutrition nudges that encourage consumers to eat healthier rice-based dishes and test nutrition communication strategies that move from a narrow product focus to a broader emphasis on dietary diversity by promoting healthier dishes based on healthier rice products.
Low income among Canadian seniors: interactions between immigration status, racial identity and gender
Authors: Sogaolu Moyosore , Sweetman Arthur 
Published: February 2025

PurposePopulation aging is prompting concern over the viability of public pension systems in many Organisation for Economic Co-operation and Development (OECD) nations. In Canada, over the past 2 decades, one response has been to significantly increase immigration, increasing the immigrant share of the population. However, policy and academic analyses have largely overlooked the aging of the immigrant population. This study aims to document disparities in low-income rates and labour market outcomes between immigrants and non-immigrants at older ages, focusing on the intersectionality of immigration status, racial identity and gender.Design/methodology/approachWe employ the 2021 Canadian Census to undertake a descriptive analysis of low-income patterns and the underlying income sources.FindingsCompared to non-racialized non-immigrant men, seniors’ low-income rates increase with each of immigrant, racialized and female status – and the effects are cumulative. Low-income differences are linked to variations in prime-age employment and earnings, and access to pension benefits for immigrants. To a large extent, the gaps are driven by variations in Canada Pension Plan (CPP) benefits, mostly due to limited years of Canadian residency.Originality/valueWe characterize differences in low income across eight population subgroups and examine the complete set of tax-relevant income sources to understand how each underlying income stream is associated with the observed differences in low income. We emphasize the intersectionality between immigration status and racial identity, and how both vary by gender.
The effect of firm’s knowledge coherence on partners’ technological distance: from the perspective of supply chain network
Authors: Li Xiaodong , Ma Zheng , Dong Feng , Su Mengyan 
Published: February 2025

PurposeAccording to the resource dependence theory and peer effect theory, this paper explores the mechanism of the focal firm’s knowledge coherence on technological distance among its supply chain partners.Design/methodology/approachBased on patent data of 301 Information Technology and Communication Services firms over 18 years from 1998 to 2015, this paper conducts panel regression analysis.FindingsEmpirical results find the positive relationship between the focal firm’s knowledge coherence and technological distance among its supply chain partners. Furthermore, conclusions indicate that the focal firm’s degree centrality and ego network density negatively and positively moderate this relationship respectively.Originality/valueThe findings of this paper contribute to the existing research in supply chain network innovation and offers guidelines to choose partners with varying technological compositions according to their knowledge bases and network structure characteristics.
Marketing modern femininity: Shiseidō’s approach to selling beauty in interwar Japan
Authors: Tso Erica 
Published: February 2025

Purpose
This study aims to examine the evolution of cosmetic advertising in Japan during the 1920s and 1930s, a time characterised by notable cultural upheaval and Western influences. Focussing on Shiseidō as a case study, it explores the interplay between traditional and Western beauty standards, highlighting how this leading cosmetic brand shaped perceptions of femininity and cultural aesthetics.

Design/methodology/approach
This research analyses Shiseidō’s brand magazines, packaging and store designs from the interwar period. Primary sources, including Shiseidō Geppo, Shiseidō Gurafu and Hanatsubaki, offer insights into cosmetics marketing and its cultural impact.

Findings
The findings reveal that Japanese cosmetic advertising during this era adopted both traditional and Western beauty ideals. Shiseidō and other brands skilfully integrated these diverse influences to create a unique aesthetic that appealed to modern Japanese women. This approach not only promoted beauty products but also reflected and reinforced the evolving notions of a new modern femininity.

Originality/value
While numerous cosmetic companies thrived in interwar Japan, this study focuses on Shiseidō for its luxury positioning and broad cultural impact. This research addresses gaps in current scholarship which has mainly focused on Western cosmetic practices. Additionally, the study offers a nuanced perspective on moga (Japanese modern women), presenting them as a hybrid of Western and traditional styles and highlighting the complex, non-linear nature of their transformation.
Virtual reality (VR) meets religiosity: introducing the Q-R CAT model to predict visit intention to religious destinations
Authors: Rafdinal Wahyu , Wibisono Nono , Setiawati Lina , Juniarti Cahaya 
Published: February 2025

PurposeVirtual reality (VR) technology has emerged as a crucial solution in the tourism industry, allowing tourists to explore destinations virtually. However, there are still limited studies examining the role of this technology in the context of religious tourism destinations. Thus, this study investigates factors influencing the intention to visit religious tourism destinations by integrating VR applications’ quality, religiosity and the cognitive appraisal theory (CAT) model.Design/methodology/approachData were collected from 638 VR application users and analysed using partial least squares-structural equation modelling (PLS-SEM) and importance performance map analysis (IPMA).FindingsBased on the results from PLS-SEM and IPMA, the findings revealed that VR quality, religiosity and constructs in the CAT model are essential to visiting religious tourism destinations.Practical implicationsThis study highlights the necessity for the religious tourism industry to advance VR application technology, aiming to enrich visitor experiences. The study provides a framework for marketing managers, government agencies and other relevant stakeholders to develop strategic initiatives to elevate visitor numbers at religious tourism sites.Originality/valueThis study offers a new perspective on the theory and application of VR quality, religiosity and CAT in the religious tourism industry.
Islamic social finance and corporate social responsibilities during the COVID-19 pandemic: a content analysis of BPMB CSR report
Authors: Nik Abdul Majid Wan Zurina , Madah Marzuki Marziana , Rosman Romzie , Tumiran Kamal Nasser Siti Dalina 
Published: February 2025

Purpose
This study aims to explore on how the Islamic social finance mechanism, specifically zakat, influences the corporate social responsibilities (CSRs) of Bank Pembangunan Malaysia Berhad (BPMB) before and during the COVID-19 pandemic.

Design/methodology/approach
A content analysis was used to examine the disclosure of BPMB for six years (2015–2020). This duration covers the period before and during the COVID-19 pandemic. The content analysis was then analysed manually and also by using NVivo.

Findings
It is apparent that BPMB not only actively engages in CSR activities, especially during difficult times like the COVID-19 pandemic, but also fulfils its religious commitments by making regular zakat payments. The finding also shows that BPMB concentrates more on CSR that covers all population, especially during the COVID-19 pandemic.

Practical implications
This study provides implication to the body of knowledge by highlighting the connection between zakat and CSR and implication to the society and regulators on how zakat plays a role in CSR activities before and during the COVID-19 pandemic.

Originality/value
The novelty of the research and the original study on content analysis of zakat and CSR information in BPMB attest to the originality of this work.
From facilitation coaching style to adaptive performance in health care: a serial mediation model
Authors: Bejan Cristina Gabriela , Rus Claudia Lenuța , Ratiu Lucia Claudia Ioana 
Published: February 2025

Purpose
Although several studies evidence the positive outcomes of facilitation coaching style in various professional settings, it has received less attention in the health-care context. Thus, drawing on previous research and the tenets of Self-Determination Theory (Deci and Ryan, 1985), Job Demands-Resources Theory (Demerouti et al., 2001) and Conservation of Resources Theory (Hobfoll, 1989), this study aims to investigate the relationship between facilitation coaching style and adaptive performance in health-care professionals, considering a serial mediation mechanism in which job-related anxiety and informal field-based learning are antecedents of positive psychological capital (PsyCap).

Design/methodology/approach
Self-reported data were collected from 253 Romanian health-care professionals using a cross-sectional research design.

Findings
The authors found that facilitation coaching style reduces job-related anxiety and promotes informal field-based learning, thereby improving PsyCap and, ultimately, contributing to higher adaptive performance.

Originality/value
These results emphasize the critical role of facilitation coaching style in the health-care sector and provide actionable insights for health-care organizations seeking to enhance their staff’s adaptive performance and, consequently, patient care.
The influence of training and field experience on police knowledge of and familiarity with human trafficking
Authors: Allen Kathleen M. , Gibbs Jennifer C. , Strohacker Emily R. , Liu Siyu 
Published: February 2025

PurposePolice knowledge of and familiarity with human trafficking determine whether a victim is referred to services or arrested as an offender, along with other implications. Both field experience and training may affect how police officers recognize and respond to human trafficking scenarios. However, recent research suggests the relationship between officer experience and their ability to identify human trafficking is more nuanced. The purpose of this study is to explore whether experience, training or both are preferable to correctly identifying cases of human trafficking.Design/methodology/approachTo do so, 495 police officers from a large Pennsylvania agency were surveyed about their perceptions of human trafficking. Officer demographics and levels of experience and training were compared to their responses to six human trafficking scenario questions.FindingsBivariate and logistic regression analyses conclude that training, but not experience working human trafficking cases, is associated with an increase in the likelihood of officers correctly identifying scenarios of human trafficking. These findings are discussed in light of the literature.Originality/valueThis study extends previous research by comparing the influence of training and experience investigating cases of human trafficking.