bluuebunny/crossref_metadata_2025_split huggingface dataset:
Spatial chromosome organization and adaptation of the radiation-resistant extremophileDeinococcus radiodurans
Authors: Qiu Qin-Tian , Zhang Cai-Yun , Gao Zhi-Peng , Ma Bin-Guang 
Published: November 2023

AbstractRadiation-resistantDeinococcus radioduransis an extremophilic microorganism capable of withstanding high levels of ionizing radiation and chemical mutagens. It possesses remarkable DNA repair capability and serves as a model organism for studying stress resistance mechanism. However, our understanding on the spatial chromosome organization of this species remains limited. In this study, we employed chromosome conformation capture (3C) technology to determine the 3D genome structure ofD. radioduransand to further investigate the changes of chromosome conformation induced by ultraviolet (UV) irradiation. We observed that UV irradiation reduced short-range chromosome interactions, and smaller chromosomal interaction domains (CIDs) merged to form larger CIDs. Integrating transcriptomic data analysis, we found that the majority of upregulated differentially expressed genes were significantly enriched near specific CID boundaries. Specially, we comprehensively elucidated that the nucleoid-associated protein Dr_ebfC may serve as a global regulator for gene expression by altering chromosome structure, thereby influencing the physiological state of the bacterium. Overall, our study revealed the chromosome conformations ofD. radioduransunder different conditions, and offered valuable insights into the molecular responses of this extremophile to environmental stresses.
SpaGRN: investigating spatially informed regulatory paths for spatially resolved transcriptomics data
Authors: Li Yao , Liu Xiaobin , Guo Lidong , Han Kai , Fang Shuangsang , Wan Xinjiang , Xu Xun , Fan Guangyi , Xu Mengyang 
Published: November 2023

SUMMARYCells expressing similar transcriptional regulatory circuits spatially aggregate into distinct cell types or states. However, most existing methods for inferring gene regulatory networks from spatially resolved transcriptomics are devoted to spatial co-expression modules or interactions between transcription factors and target genes, neglecting mediated effects from extracellular signals. Here we introduce SpaGRN, a statistical framework for predicting the comprehensive intracellular regulatory network underlying spatial patterns by integrating spatial expression profiles with prior knowledge on regulatory relationships and signaling paths. We validate and assess SpaGRN using simulated and real datasets, demonstrating its efficiency, performance, and robustness. When applied to 3D datasets of developingDrosophilaembryos and larvae, SpaGRN identifies spatiotemporal variations in specific regulatory patterns, delineating the cascade of events from receptor stimulation to downstream transcription factors and targets, revealing synergetic regulation mechanism during organogenesis. Moreover, SpaGRN provides flexible visualization functions. We construct an online 3D regulatory network atlas database for interactive exploration and sharing.
Microplate Format Protein Nanopatterning for High-Throughput Screening of Cellular Microenvironments
Authors: Shahrokhtash Ali , von Tangen Sivertsen Malthe , Laursen Sara Hvidbjerg , Sutherland Duncan S. 
Published: November 2023

AbstractAn advanced protein nanopatterned cell culture platform is engineered to emulate the extracellular matrix’s complexity, enabling precise nanoscale biomolecule copatterning to mimic environments analogous to native tissue for cellular assays. Nanopatterns fabricated through sparse colloidal lithography, with 100 nm to 800 nm features in separate wells, are seamlessly integrated into standard microplate formats (96-well/384-well). Robust patterns are built from fully PEGylated, passivated thin glass coverslips optimized for minimal nonspecific interactions. Biotin-avidin binding and click chemistry to ensure the accurate and robust localization of bioligands. The transparent, metal-free substrates are free of topographical interference, rendering them ideal for diverse fluorescence microscopy techniques encompassing single-molecule TIRFM and extensive high-throughput imaging. The structural stability of these nanopatterns persists beyond a year in storage and long-term in cell culture conditions, endorsing their application for prolonged experimental studies and potential for widespread academic and industrial use. The platform has been demonstrated for nanopatterning an array of biomolecules, from small molecules to proteins, DNA, and extracellular matrix components, instrumental for studying cell signaling. Experiments with C2C12 cells demonstrated the exceptional specificity of the nanopatterned microplates, with nonspecific adhesion remaining below 2% and the platform’s ability to elicit size-dependent cellular reactions when interfaced with nanopatterned fibronectin.
mtDNA “Nomenclutter” and its Consequences on the Interpretation of Genetic Data
Authors: Bajić Vladimir , Schulmann Vanessa Hava , Nowick Katja 
Published: November 2023

AbstractPopulation-based studies of human mitochondrial genetic diversity often require the classification of mitochondrial DNA (mtDNA) haplotypes into more than 5400 described haplogroups, and further grouping those into hierarchically higher haplogroups. Such secondary haplogroup groupings (e.g., “macro-haplogroups”) vary across studies, as they depend on the sample quality, technical factors of haplogroup calling, the aims of the study, and the researchers’ understanding of the mtDNA haplogroup nomenclature. Retention of historical nomenclature coupled with a growing number of newly described mtDNA lineages results in increasingly complex and inconsistent nomenclature that does not reflect phylogeny well. This “clutter” leaves room for grouping errors and inconsistencies across scientific publications, especially when the haplogroup names are used as a proxy for secondary groupings, and represents a source for scientific misinterpretation.Here we explore the effects of phylogenetically insensitive secondary mtDNA haplogroup groupings, and the lack of standardized secondary haplogroup groupings on downstream analyses and interpretation of genetic data. We demonstrate that frequency-based analyses produce inconsistent results when different secondary mtDNA groupings are applied, and thus allow for vastly different interpretations of the same genetic data. The lack of guidelines and recommendations on how to choose appropriate secondary haplogroup groupings presents an issue for the interpretation of results, as well as their comparison and reproducibility across studies.To reduce biases originating from arbitrarily defined secondary nomenclature-based groupings, we suggest that future updates of mtDNA phylogenies aimed for the use in mtDNA haplogroup nomenclature should also provide well-defined and standardized sets of phylogenetically meaningful algorithm-based secondary haplogroup groupings such as “macro-haplogroups”, “meso-haplogroups”, and “micro-haplogroups”. Ideally, each of the secondary haplogroup grouping levels should be informative about different human population history events. Those phylogenetically informative levels of haplogroup groupings can be easily defined usingTreeCluster, and then implemented into haplogroup callers such asHaploGrep3. This would foster reproducibility across studies, provide a grouping standard for population-based studies, and reduce errors associated with haplogroup nomenclatures in future studies.
PPARγ controls ESCRT-dependent fibroblast-like synoviocyte exosome biogenesis and Alleviates Chondrocyte Osteoarthritis Mediated by Exosomal ANXA1
Authors: Jia Shuangshuo , Yang Yue , Liu Jiabao , Wei Yingliang , Wang Ziyuan , Yue Lingyu , Bai Lunhao 
Published: November 2023

AbstractOsteoarthritis (OA) is characterized by synovitis, cartilage degeneration and exercise therapy has been recognized as first line therapy. The exercise related exosome involved in the interaction between fibroblast-like synoviocytes (FLSs) and chondrocytes could be a novel promising strategy for treating OA. In this study, PPARγ was upregulated in FLSs under exercise by single cell transcriptome sequencing. Then, we investigated the underlying mechanisms of PPARγ-treated FLSs derived exosome on OA in vivo and vitro. Our data revealed that overexpression PPARγ FLSs derived exosome could ameliorate the OA severity in vivo and vitro. But knockdown PPARγ FLSs derived exosome aggravate OA. Moreover, we found PPARγ controls the endosomal sorting complex required for the transport (ESCRT)-dependent exosome biogenesis pathway. Annexin A1 (ANXA1) was enriched in OE-PPARγ exosome by quantitative proteomics. By Chip-qPCR and Co-IP methods, PPARγ and its coactivator -1α (PGC-1α) acts with ESCRT subunits including HRS, STAM1, TSG101, CHMP7 and promotes their association to cargo ANXA1. As a therapeutic cargo, exosomal ANXA1 was confirmed be internalization by chondrocyte via exosome labeled experiment and ANXA1 could inhibit the phospharylation of ERK to activate the autophagy and decrease chondrocyte apoptosis. While the ANXA1 receptor blocker BOC-2 could reverse the therapic effect. In conclusion, PPARγ/ESCRT – FLSs exosomal ANXA1 – ERK axis provides a deeper theoretical basis for exercise therapy of OA and a new idea for the clinical transformation of exosomes into OA therapy.
Supply chain management maturity and business models: scientific mapping using SciMAT
Authors: Vasconcelos Lúcio Flavio , Sigahi Tiago F.A.C. , Pinto Jefferson de Souza , Rampasso Izabela Simon , Anholon Rosley 
Published: November 2023

PurposeOrganizations and markets are constantly developing and changing, impacting how organizations create value and manage supply chains. This paper aims to identify the motor themes and subthemes of academic research that relate supply chain management (SCM) maturity and business models (BMs).Design/methodology/approachThe Science Mapping Analysis Tool (SciMAT) was used to conduct a seven-step bibliometric analysis of 889 documents indexed in the Scopus database clustering by relatedness of works and keywords. The methodological approach included content analysis of the literature, longitudinal analysis and strategic diagram analysis.FindingsThe thematic evolution analysis revealed that three themes drive the studies on SCM maturity and BM: industry 4.0 (motor theme), environmental management (transversal theme) and product management (highly developed and isolated theme). The strategic diagrams and co-word networks allowed to graphically identify the main topics connecting SCM maturity and BM. Considering this connection, the scientific mapping emphasizes the significance and strength of the link between digital technologies, technology management and manufacturing management in Industry 4.0. In addition, the connections between the subthemes revealed that circular economy and green human resource management are important concepts to advance theory and practice on the connection between SCM maturity and BM.Originality/valueThis research extends the knowledge base by providing an analysis of the key themes and the links with subthemes in the literature that relate to SCM maturity and BM. Key studies are analyzed and linked with the key topics identified using the SciMAT software. Future research avenues are outlined, providing new insights to advance theory and practice.
Institutional isomorphic pressures: the impact for women on boards
Authors: Ingersoll Alicia R. , Glass Christy , Cook Alison 
Published: November 2023

Purpose
This study aims to analyze the connection between institutional isomorphic pressures and both women serving on boards and women’s influence on boards within large American firms.

Design/methodology/approach
This study examines a longitudinal panel data set of all Standard and Poor’s (S&P) 500 organizations across a seven-year period from 2009 to 2015.

Findings
The analyses affirm that institutional isomorphic pressures impact the prevalence and influence of women on boards. Evidence suggests that coercive and normative pressures strongly impact the number of women serving as corporate directors, whereas the power of women directors is linked only to mimetic pressures.

Practical implications
The research suggests that to increase the number of women serving as directors, the industry must first increase the overall number of women serving in senior management roles. Once women directors gain a critical mass of three women on the board, the association with the total number of women directors, the number of boards upon which they concurrently serve, the power of women directors being selected to board leadership and the influence of women directors increase.

Originality/value
This paper extends existing board diversity work by examining institutional pressures at the international, national and firm levels. By examining the relationship between coercive, normative and mimetic pressures on both the prevalence of women on boards and the influence of women on boards, the authors illuminate certain mechanisms that shape the likelihood of board appointment and placement in more powerful positions.
Academic staff commitment in the face of a role (im)balance between work and personal life: can job satisfaction help?
Authors: Dube Nomusa , Ndofirepi Takawira Munyaradzi 
Published: November 2023

PurposeKeeping happy and committed workers is an imperative goal for organisations in any field, including higher education. Institutions must, however, have a thorough understanding of the elements that influence various organisational commitment levels before they can develop human resource management guidelines and procedures that work. Hence, by using social exchange theory, this study aimed to investigate the connection between work–life balance (WLB), job satisfaction and organisational commitment among a sample of Zimbabwean higher education institutions. These factors have received relatively minimal attention in academic institutions, particularly in developing nations.Design/methodology/approachA cross-sectional survey was conducted, using convenience sampling, to examine 224 members of the teaching staff from two universities in western Zimbabwe. The collected data were analysed using partial least squares structural equation modelling.FindingsThe results revealed that WLB significantly predicted job satisfaction. Furthermore, the relationship between WLB and affective and normative commitment was found to be indirect and mediated by job satisfaction.Research limitations/implicationsThe results of this study suggest that WLB and job satisfaction are crucial factors for higher education institutions that aim to secure their talented faculty's affective and normative commitment. Therefore, universities should implement firm policies and practices that encourage academic staff to maintain a healthy WLB and enhance job satisfaction.Originality/valueThe study's main contribution is the development of a conceptual model that contributes to the ongoing scholarly discourse on how to enhance organisational commitment among academic staff in under-resourced higher education institutions, as well as the concomitant implications for human resource policies within these institutions.
Nexus between monetary policy uncertainty and real estate market volatility in COVID-19 peak and recovery period
Authors: Zou Haobo , Ahmed Mansoora , Raza Syed Ali , Anwar Rija 
Published: November 2023

Purpose
Monetary policy has major impacts on macroeconomic indicators of the country. Accordingly, uncertainty regarding monetary policy shifts can cause challenges and risks for businesses, financial markets and investors. Thus, the purpose of this study is to investigate how real estate market volatility responds to monetary policy uncertainty.

Design/methodology/approach
The GARCH-MIDAS model is applied in this study to investigate the nexus between monetary policy uncertainty and real estate market volatility. This model was fundamentally instituted to accommodate low-frequency variables.

Findings
The results of this study reveal that increased monetary policy uncertainty highly affects the volatility in real estate market during the peak period of COVID-19 as compared to full sample period and COVID-19 recovery period; hence, a significant decline is evident in real estate market volatility during crisis.

Originality/value
This study is particularly focused on peak and recovery period of COVID-19 considering the geographical region of Greece, Japan and the USA. This study provides a complete perspective on the nexus between monetary policy uncertainty and real estate markets volatility in three distinct economic views.
In my opinion, the TOS… Situating personal data literacy interventions
Authors: Raffaghelli Juliana Elisa , Romero Carbonell Marc , Romeu-Fontanillas Teresa 
Published: November 2023

Purpose
It has been demonstrated that AI-powered, data-driven tools’ usage is not universal, but deeply linked to socio-cultural contexts. The purpose of this paper is to display the need of adopting situated lenses, relating to specific personal and professional learning about data protection and privacy.

Design/methodology/approach
The authors introduce the results of a case study based on a large educational intervention at a fully online university. The views of the participants from degrees representing different knowledge areas and contexts of technology adoption (work, education and leisure) were explored after engaging in the analysis of the terms and conditions of use about privacy and data usage. After consultation, 27 course instructors (CIs) integrated the activity and worked with 823 students (702 of whom were complete and correct for analytical purposes).

Findings
The results of this study indicated that the intervention increased privacy-conscious online behaviour among most participants. Results were more contradictory when looking at the tools’ daily usage, with overall positive considerations around the tools being mostly needed or “indispensable”.

Research limitations/implications
Though appliable only to the authors’ case study and not generalisable, the authors’ results show both the complexity of privacy views and the presence of forms of renunciation in the trade-off between data protection and the need of using a specific software into a personal and professional context.

Practical implications
This study provides an example of teaching and learning activities that supports the development of data literacy, with a focus on data privacy. Therefore, beyond the research findings, any educator can build over the authors’ proposal to produce materials and interventions aimed at developing awareness on data privacy issues.

Social implications
Developing awareness, understanding and skills relating to data privacy is crucial to live in a society where digital technologies are used in any area of our personal and professional life. Well-informed citizens will be able to obscure, resist or claim for their rights whenever a violation of their privacy takes place. Also, they will be able to support (through adoption) better quality apps and platforms, instead of passively accepting what is evident or easy to use.

Originality/value
The authors specifically spot how students and educators, as part of a specific learning and cultural ecosystem, need tailored opportunities to keep on reflecting on their degrees of freedom and their possibilities to act regarding evolving data systems and their alternatives.
What motivates consumers’ continued usage intentions of food delivery applications in post-COVID-19 outbreak? Comparing Generations X, Y and Z
Authors: Rungruangjit Warinrampai , Charoenpornpanichkul Kitti 
Published: November 2023

Purpose
Food delivery applications (FDAs) are becoming more and more well-liked across Generations X, Y and Z, with Asia experiencing the biggest growth. These three generations of consumers have distinct views toward using FDAs because they were influenced by various social environments, cultures and experiences. Therefore, marketers ought to present customers with various values. The purpose of this study is to investigate how the theory of consumption values (TCV) affects the intention of various generational cohorts to continued usage intentions.

Design/methodology/approach
Online surveys were distributed to 745 Thai customers who had previously ordered meals from FDAs to collect information. The data were analyzed using partial least squares structural equation modeling and multigroup analysis.

Findings
Results reveal that there are significant differences among Generations X, Y and Z, while emotional value is insignificant. Generation X is concerned about functional and conditional value, whereas Generation Y expresses the highest concern on epistemic and social value. Meanwhile, Generation Z pays attention to epistemic, functional and social value.

Originality/value
The novelty of this study contributes to TCV affecting the different FDAs consumption value among Generations X, Y and Z, while the previous research only focused on gender and age difference, and this study firstly combines FDAs with TCV to predict the consumers’ intention to continuously use FDAs in the post-COVID-19 outbreak.
The impact of rural tourism destination attractiveness on tourists’ environmentally responsible behavioral intentions: the mediating role of green self-identity
Authors: Ding Li , Jiang Caifen 
Published: November 2023

Purpose
This study aims to explore the impact of tourists’ perceptions of two rural destination attractiveness dimensions on tourists’ environmentally responsible behavioral intentions (ERBI). Further, the mediating effects of tourists’ green self-identity on the relationship between the perception of rural destination attractiveness and ERBI are investigated.

Design/methodology/approach
This study collected survey data from 188 tourists who had visiting experiences in rural attractions located in the Guangdong Province of China. Partial least squares structural equation modeling (PLS-SEM) was used to test the proposed hypotheses.

Findings
The results found that rural destination specialty fresh food attractiveness perceived by tourists was positively associated with their ERBI. Moreover, tourists’ green self-identity positively mediated the perception of rural destination attractiveness and ERBI.

Originality/value
This study explains how the tourists’ perceptions of two rural destination attractiveness dimensions influence their ERBI. By exploring the mediating role of tourists’ green self-identity, this study also emphasizes the transforming mechanism from tourists’ perceived experience to their ERBI. The study provides insights into nature-based tourism destination management and sustainability practices.