bluuebunny/crossref_metadata_2025_split huggingface dataset:
A cross-sectional survey of material deprivation and suicide-related ideation among Vietnamese technical interns in Japan in 2021
Authors: Yamashita Tadashi , Quy Pham Nguyen , Yamada Chika , Nogami Emi , Seto-Suh Erina , Iwamoto Saori , Kato Kenji 
Published: December 2022

AbstractBackgroundMany technical intern trainees in Japan are economically impoverished because of the need to send money back to their home country, debts from the intermediaries that arranged their arrival in Japan, and reduced working hours because of the coronavirus disease 2019 (COVID-19) pandemic. In addition, there is concern that COVID-19 may cause mental instability in response to the life changes experienced by interns. The purpose of this study was to elucidate the experience of material deprivation and the relationship between the state of material deprivation and suicidal ideation among Vietnamese intern trainees in Japan.MethodsA cross-sectional study was conducted from September to October 2021. Of 310 Vietnamese technical intern trainees who responded, we analyzed data from 200 individuals with no missing or abnormal values. The questionnaire obtained information about gender, age, length of residence in Japan, Japanese language proficiency, changes in income related to the COVID-19 pandemic, material deprivation status, and suicidal ideation. The ninth item of the Patient Health Questionnaire-9 was used to examine suicidal ideation. Logistic regression analysis was used to analyze the relationship between material deprivation items and suicidal ideation.ResultsRespondents’ mean age was 26.0 ± 5.1 years, and 62.0% (n = 124) were male. Regarding material deprivation items, food was reported in 82 (41.0%) cases, cellphone bills were reported in 49 (24.5%) cases, and medical expenses were reported in 34 (22.0%) cases. Forty-six (23.0%) respondents reported experiencing suicidal ideation, and the prevalence was associated with age (p = 0.031, odds ratio [OR] = 0.889, 95% confidence interval [CI] = 0.799–0.990), deprivation regarding food expenses (p = 0.003, OR = 3.897, 95% CI = 1.597–9.511), and deprivation regarding cellphone usage (p = 0.021, OR = 3.671, 95% CI = 1.217–11.075).ConclusionsVietnamese technical intern trainees in Japan experienced material deprivation in multiple ways, and exhibited a high prevalence of serious psychological problems. Factors contributing to suicidal ideation included age, experience of deprivation in relation to food expenses, and deprivation in relation to cellphone bills. Inability to pay cellphone bills may have increased isolation among Vietnamese trainees during the COVID-19 pandemic.
Pantothenate auxotrophy in a naturally occurring biocontrol yeast
Authors: Rueda-Mejia Maria Paula , Ortiz-Merino Raúl A. , Lutz Stefanie , Ahrens Christian H. , Künzler Markus , Freimoser Florian M. 
Published: December 2022

AbstractThe genusHanseniasporais characterized by some of the smallest genomes among budding yeasts. These fungi are primarily found on plant surfaces and in fermented products and represent promising biocontrol agents against notorious fungal plant pathogens. In this work, we identify aHanseniaspora meyeriisolate that shows strong antagonism against the plant pathogenFusarium oxysporumas a pantothenate auxotroph. Furthermore, strong biocontrol activityin vitrorequired both pantothenate and biotin in the growth medium. We show that theH. meyeriisolate APC 12.1 can obtain the vitamin from plants and other fungi. The underlying reason for the auxotrophy is the lack of key pantothenate biosynthesis genes, but at least six genes encoding putative pantothenate transporters are present in the genome. By constructing and using aSaccharomyces cerevisiaereporter strain, we identified oneHanseniasporatransporter, out of the six candidate proteins, that conferred pantothenate uptake activity toS. cerevisiae. Pantothenate auxotrophy is rare and has only been described in a few bacteria and inS. cerevisiaestrains that were isolated from sake. Such auxotrophic strains may seem an unexpected and unlikely choice as potential biocontrol agents, but they may be particularly competitive in their ecological niche and their specific growth requirements are an inherent biocontainment strategy preventing uncontrolled growth in the environment. Auxotrophic strains such as theH. meyeriisolate APC 12.1 may thus represent a new strategy for developing biocontrol agents that will be easier to register than prototrophic strains, which are normally used for such applications.Significance StatementAs a precursor of the essential coenzyme CoA, pantothenate is present in all organisms. Plants, bacteria and fungi are known to synthesize this vitamin, while animals must obtain it through their diet. Pantothenate auxotrophy has not been described in naturally occurring, environmental fungi and is an unexpected property for an antagonistic yeast. Here, we report that yeasts from the genusHanseniasporalack key enzymes for pantothenate biosynthesis and identify a transporter responsible for the acquisition of pantothenate from the environment.Hanseniasporaisolates are strong antagonists of fungal plant pathogens. Their pantothenate auxotrophy is a natural biocontainment feature that could make such isolates interesting candidates for new biocontrol approaches and allow easier registration as plant protection agents compared to prototrophic strains.
Differential adenine methylation analysis reveals increased variability in 6mA in the absence of methyl-directed mismatch repair
Authors: Stone Carl J. , Boyer Gwyneth F. , Behringer Megan G 
Published: December 2022

ABSTRACTMethylated DNA adenines (6mA) are an important epigenetic modification in bacteria that affect varied cell processes like replication, stress response, and pathogenesis. While much work has been done characterizing the influence of 6mA on specific loci, very few studies have examined the evolutionary dynamics of 6mA over long time scales. Utilizing third-generation sequencing technology, we produced a detailed analysis of 6mA methylation across theEscherichia coliK-12 substr. MG1655 genome. 6mA levels were consistently high across GATC sites; however, we identified regions where 6mA is decreased, particularly in intergenic regions, especially around the -35 promoter element, and within cryptic prophages and IS elements. We further examined 6mA in WT and methyl-directed mismatch repair-knockout (MMR-) populations after 2400 generations of experimental evolution. We find that, after evolution, MMR-populations acquire significantly more epimutations resulting in a genome-wide decrease in 6mA methylation. Here, clones from evolved MMR-populations display non-deterministic sets of epimutations, consistent with reduced selection on these modifications. Thus, we show that characterization of 6mA in bacterial populations is complementary to genetic sequencing and informative for molecular evolution.
Cataloging Viral Diversity from Nonaxenic Terrestrial Cyanobacteria Cultures
Authors: Ettinger Cassandra L. , Paul Sudipto R. , Flores Neptali , Ward Ryan D. , Pietrasiak Nicole , Stajich Jason E. 
Published: December 2022

AbstractViruses are exceedingly common, but little is known about their diversity let alone how they behave in extreme environments, and whether viruses facilitate adaptation of their hosts to harsh conditions. To set a foundation for understanding of these understudied viral-host interactions, we created a catalog of viruses through analysis of metagenomes from 50 unialgal but nonaxenic Cyanobacteria cultures with 47 cultures isolated from various terrestrial habitats, including desert soil and rock surfaces, tropical soil, and vernal pools. These cultures represent low diversity microbial consortia dominated by the terrestrial Cyanobacteria and its associated cyanosphere microbiome containing heterotrophic microbes. We identified viral sequences in metagenomes, grouped these into viral operational taxonomic units (vOTUs) and then placed vOTUs into viral clusters (VCs). We also calculated vOTU relative abundance and predicted possible bacterial hosts. In total we predicted 814 viral sequences representing 726 vOTUs. We assigned putative taxonomy to 72 of the 814 putative viral sequences; these were distributed into 15 VCs — mostly assigned to the recently abolished Caudovirales order (now Caudoviricetes class) of viruses. We found that nonaxenic cultures were dominated by unclassified and unclustered viral sequences. Furthermore, we predicted putative bacterial hosts for 211 vOTUs, with the majority of viruses predicted to infect a Proteobacteria (now Pseudomonadota) host. Overall, while limited, these results are consistent with the notion that both viruses and Cyanobacteria isolated from extreme environments are underrepresented in reference datasets. This work increases knowledge of viral diversity and sets a foundation for future exploration of viruses associated with terrestrial Cyanobacteria and their heterotroph associates, such as connecting specific viruses to critical cycling processes and investigating their metabolic functions.
DIS3L, cytoplasmic exosome catalytic subunit, is essential for development but not cell viability in mice
Authors: Brouze Michał , Szpila Marcin , Czerwińska Areta , Antczak Wiktor , Mroczek Seweryn , Kuliński Tomasz M. , Hojka-Osińska Anna , Cysewski Dominik , Adamska Dorota , Gruchota Jakub , Borsuk Ewa , Dziembowski Andrzej 
Published: December 2022

AbstractAmong numerous enzymes involved in RNA decay, processive exoribonucleases are the most prominent group responsible for the degradation of the entire RNA molecules. The role of mammalian cytoplasmic 3’-5’ exonuclease DIS3L at the organismal level remained unknown. Herein we established knock-in and knock-out mouse models to study DIS3L functions in mice. DIS3L is indeed a subunit of the cytoplasmic exosome complex, which disruption leads to severe embryo degeneration and death in mice soon after implantation. These changes could not be prevented by supplementing extraembryonic tissue with functional DIS3L through the construction of chimeric embryos. PreimplantationDis3l-/-embryos were unaffected in their morphology and ability to produce functional embryonic stem cells showing that DIS3L is not essential for cell viability. There were also no major changes in the transcriptome level for both embryonic stem cells and blastocysts, as revealed by RNA sequencing experiments. Notably, however, DIS3L knock-out led to inhibition of the global protein synthesis. These results point to the essential role of DIS3L in mRNA quality control pathways crucial for proper protein synthesis during embryo development.
Nanopore sequencing unveils the complexity of the cold-activated murine brown adipose tissue transcriptome
Authors: Engelhard Christoph Andreas , Khani Sajjad , Derdak Sophia , Bilban Martin , Kornfeld Jan-Wilhelm 
Published: December 2022

1.AbstractAlternative transcription increases transcriptome complexity by expression of multiple transcripts per gene and thus fine tunes cellular identity and function. Annotation and quantification of transcripts at complex loci using short-read sequencing is non-trivial. Recent long-read sequencing methods such as those from Oxford Nanopore Technologies (ONT) and Pacific Biosciences aim at overcoming these problems by sequencing full length transcripts. Activation of BAT thermogenesis involves major transcriptomic remodelling and positively affects metabolism via increased energy expenditure and endocrine factors. Here we comprehensively benchmark features of ONT long-read sequencing protocols compared to Illumina shortread sequencing assessing alignment characteristics, gene and transcript detection and quantification, differential gene and transcript expression, transcriptome reannotation and differential transcript usage (DTU). We find that ONT sequencing is superior to Illumina for transcriptome reassembly and reduces the risk of false-positive events due to the ability to unambiguously map reads to transcripts, at the expense of statistical power for calling differentially expressed features. We identified novel isoforms of genes undergoing DTU in cold-activated BAT including Cars2, Adtrp, Acsl5, Scp2, Aldoa and Pde4d, validated by RT-qPCR. Finally, we provide a reannotation of the murine iBAT transcriptome as a valuable resource for researchers interested in the molecular biology underlying the regulation of BAT.
Inhibition of AMPA receptors bound to transmembrane AMPA receptor regulatory protein γ-8 (TARP γ-8) blunts the positive reinforcing properties of alcohol and sucrose in a brain region-dependent manner
Authors: Hoffman Jessica L , Faccidomo Sara P , Taylor Seth M. , DeMiceli Kristina G. , May Ashley M. , Smith Evan N. , Whindleton Ciarra M. , Hodge Clyde W 
Published: December 2022

AbstractRationaleThe development and progression of alcohol use disorder (AUD) is widely viewed as maladaptive neuroplasticity. The transmembrane alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionic acid receptor (AMPAR) regulatory protein γ8 (TARP γ-8) is a molecular mechanism of neuroplasticity that has not been evaluated in AUD or other addictions.ObjectiveTo address this gap in knowledge, we evaluated the mechanistic role of TARP γ-8 bound AMPAR activity in the basolateral amygdala (BLA) and ventral CA3 hippocampus (vHPC) in the positive reinforcing effects of alcohol, which drive repetitive alcohol use throughout the course of AUD, in C57BL/6J mice. These brain regions were selected because they exhibit high levels of TARP γ-8 expression and send glutamate projections to the nucleus accumbens (NAc), which is a key nucleus in the brain reward pathway.Methods and ResultsSite-specific pharmacological inhibition of AMPARs bound to TARP γ-8 in the BLA via bilateral infusion of the selective negative modulator JNJ-55511118 significantly decreased operant alcohol self-administration with no effect on sucrose self-administration in behavior-matched controls. Temporal analysis showed that reduction of alcohol-reinforced responding occurred >25 min after the onset of responding, consistent with a blunting of the positive reinforcing effects of alcohol in the absence of nonspecific behavioral effects. In contrast, inhibition of TARP γ-8 bound AMPARs in the vHPC selectively decreased sucrose self-administration with no effect on alcohol.ConclusionsThis study reveals a novel brain region-specific role of TARP γ-8 bound AMPARs as a molecular mechanism of the positive reinforcing effects of alcohol and non-drug rewards.
Impact of supervisor leadership on construction worker safety behavior in China: the moderating role of social capital
Authors: Wu Xiuyu , Qian Qinzhen , Zhang Meng 
Published: December 2022

PurposeLeaders' behavior has a critical impact on workers' safety behavior. However, previous studies have shown contradictive views on the effect of different leadership styles on safety behavior. One reason may be that the effectiveness of leaders' behavior varies according to diverse contexts. This study examines the effect of transformational and transactional leadership (TsL) on the safety behavior of on-site workers under different levels of social capital in construction projects.Design/methodology/approachSafety behavior is divided into three types: safety compliance (SC), organizational-oriented safety participation and individual-oriented safety participation (ISP). Questionnaire survey data were collected from 302 construction workers in the Chinese construction industry.FindingsThe results indicate that the positive effect of transformational leadership (TfL) of frontline supervisors on the two types of construction workers' safety participation is enhanced when social capital is high, although TfL has no significant effect on SC behavior. In contrast, TsL can promote construction workers' SC behavior and organizational-oriented safety participation and social capital positively moderating these relationships. TsL has no significant effect on ISP, but its interaction with safety behavior is positively related to ISP.Research limitations/implicationsThis study explains the inconsistent findings of previous research related to the role of leadership in safety behavior by introducing the social capitaltheory and distinguishing safety participation into two typesThis study is confined to one specific country, future research may benefit from investigating whether the conclusions of this study will be different in other nations with diverse cultures.Practical implicationsThe findings of the study provide frontline supervisors with new insights into improving workers' safety and the efficiency of leadership in safety management.Originality/valueThis study explains the inconsistent findings of previous research related to the role of leadership in safety behavior by introducing the social capital theory and distinguishing safety participation into two types.
Network analysis of comovements among newly-built residential house price indices of seventy Chinese cities
Authors: Xu Xiaojie , Zhang Yun 
Published: December 2022

Purpose
Understandings of house prices and their interrelationships have undoubtedly drawn a great amount of attention from various market participants. This study aims to investigate the monthly newly-built residential house price indices of seventy Chinese cities during a 10-year period spanning January 2011–December 2020 for understandings of issues related to their interdependence and synchronizations.

Design/methodology/approach
Analysis here is facilitated through network analysis together with topological and hierarchical characterizations of price comovements.

Findings
This study determines eight sectoral groups of cities whose house price indices are directly connected and the price synchronization within each group is higher than that at the national level, although each shows rather idiosyncratic patterns. Degrees of house price comovements are generally lower starting from 2018 at the national level and for the eight sectoral groups. Similarly, this study finds that the synchronization intensity associated with the house price index of each city generally switches to a lower level starting from early 2019.

Originality/value
Results here should be of use to policy design and analysis aiming at housing market evaluations and monitoring.
Credit constraints in Colombia: evidence from the use of credit cards among low- and middle-income individuals
Authors: Arango Luis E. , Quevedo Ingri K. 
Published: December 2022

PurposeThe authors estimate the determinants of the value of purchases of semi-durable goods using permanent and transitory income, and the demographic characteristics of customers. The purpose is to identify whether individuals face remaining liquidity constraints, and how this friction affects their purchases.Design/methodology/approachThis study uses anonymized data of 516,525 credit card holders, with more than 7,501,065 records of purchases between 2010 and 2015. The authors decompose the income of individuals into permanent and transitory components to test the prevalence of the life cycle–permanent income hypothesis (LC–PIH). Determinants of the value of purchases for constrained and unconstrained consumers are estimated, considering the period in which individual characteristics are valid, the decisions not to make purchases in some months, and the potential endogeneity of the interest rate and the transitory component of income.FindingsThe authors present evidence of liquidity constraints for individuals who have used a high percentage of the credit limit on their cards. For these restricted customers, the value of purchases is inelastic to the interest rate, whereas the response is sizable for customers who are less restricted. The restricted customers increase the value of purchases when faced with increases in their credit limit. The elasticity of the value of purchases of semi-durable goods to permanent income is less than that for transitory income; regardless of the constraints, this still supports the LC–PIH.Research limitations/implicationsThis credit card is targeted at low- and middle-income individuals in Bogotá. Although the results might be considered as indicative of the behavior of those with similar characteristics in Colombia, the authors regard this work as the study of a particular case. A limitation of this work is that the authors do not have alternative sources of credit at an individual level.Practical implicationsThe broad credit channel of monetary policy does not apply to the restricted customers. This should be considered not only by the monetary authority, to understand the true extent of this policy, but also by the financial institutions that use this business model. The monetary authority should be cautious not to overreact when intervening in the money market to try to prompt an adequate consumer response.Social implicationsFinancial institutions have the policy of modifying the credit limits of their customers' credit cards which affects the well-being of restricted customers. Given that the card is aimed at low and middle income individuals, the credit limits of customers who use a high percentage of their credit limit might be increased.Originality/valueThis is the first paper to study liquidity restrictions with a retail credit card in Colombia and Latin America using information on customers' characteristics. The results are highly relevant for the implementation of monetary policy.
Developing a civic capacity index: measuring community capacity to respond to civic challenges
Authors: Chrislip David D. , MacPhee David , Schmitt Patti 
Published: December 2022

PurposeSome communities in the USA are remarkably better at responding to civic challenges than others. These communities are more competent at marshaling their resources – material and human – in service of their own needs. The authors’ purpose in this paper is to enhance their collective understanding of ideas related to community-driven change and to describe the development of a civic capacity index (CCI), a measure of a community's capacity to respond to civic challenges and disruptions like COVID-19.Design/methodology/approachThe authors used a concept mapping process (akin to grounded theory) to develop the CCI. Using this process, a panel of 34 scholars and practitioners of civic leadership and civic engagement worked together to create measurable descriptors of civic capacity.FindingsThe CCI measures dynamic processes related to collective leadership, inclusion of diverse voices, how institutions and coalitions address shared challenges and collaboration among community members. Sample data from several states show the CCI's scales to have high internal reliabilities and to correlate strongly with validation scales such as collective efficacy, social justice and community connectedness. Confirmatory factor analyses support a bifactor model of a general CCI factor and six CCI scales.Practical implicationsWith the help of the CCI, civic actors can take advantage of existing civic capacity, understand where it is lacking and build resilience for the future.Originality/valueTo date, most scholars have used qualitative research to determine the elements of civic capacity. The authors wanted to know what civic capacity looks like in sufficient detail to assess the extent to which it is present or not in a community. Other efforts to quantify or assess civic capacity or related ideas are less comprehensive or lack the specificity to provide guidance for building and mobilizing it in communities. This work enhances our understanding of leadership in the civic arena, a little understood aspect of leadership studies.