bluuebunny/crossref_metadata_2025_split huggingface dataset:
Vagal TRPV1+sensory neurons regulate myeloid cell dynamics and protect against influenza virus infection
Authors: Yang Daping , Almanzar Nicole , Xia Jingya , Udit Swalpa , Yeung Stephen T. , Khairallah Camille , Hoagland Daisy A. , Umans Benjamin D. , Sarden Nicole , Erdogan Ozge , Baalbaki Nadia , Beekmayer-Dhillon Anna , Lee Juhyun , Meerschaert Kimberly A. , Liberles Stephen D. , Yipp Bryan G. , Franklin Ruth A. , Khanna Kamal M. , Baral Pankaj , Haber Adam L. , Chiu Isaac M. 
Published: August 2024

AbstractInfluenza viruses are a major global cause of morbidity and mortality. Vagal TRPV1+nociceptive sensory neurons, which innervate the airways, are known to mediate defenses against harmful agents. However, their function in lung antiviral defenses remains unclear. Our study reveals that both systemic and vagal-specific ablation of TRPV1+nociceptors reduced survival in mice infected with influenza A virus (IAV), despite no significant changes in viral burden or weight loss. Mice lacking nociceptors showed exacerbated lung pathology and elevated levels of pro-inflammatory cytokines. The increased mortality was not attributable to the loss of the TRPV1 ion channel or neuropeptides CGRP or substance P. Immune profiling through flow cytometry and single-cell RNA sequencing identified significant nociceptor deficiency-mediated changes in the lung immune landscape, including an expansion of neutrophils and monocyte-derived macrophages. Transcriptional analysis revealed impaired interferon signaling in these myeloid cells and an imbalance in distinct neutrophil sub-populations in the absence of nociceptors. Furthermore, anti-GR1-mediated depletion of myeloid cells during IAV infection significantly improved survival, underscoring a role of nociceptors in preventing pathogenic myeloid cell states that contribute to IAV-induced mortality.One Sentence Summary: TRPV1+neurons facilitate host survival from influenza A virus infection by controlling myeloid cell responses and immunopathology.
The complete mitochondrial genome ofHeikeopsis japonica(Decapoda: Brachyura: Dorippidae): Phylogenetic implications of the family Dorippidae
Authors: Pang Xiaoke , Zhao Yifan , Liu Yufei , Lu Xueqiang 
Published: August 2024

AbstractCharacterizing complete mitochondrial genome (mitogenome) supports comprehensive understanding in gene arrangement, molecular evolution and phylogenetic status. Previously, no studies have been conducted on the complete mitogenomes of the Dorippidae family within infraorder Brachyura. Herein, we firstly determined the sequence ofHeikeopsis japonica(Decapoda: Brachyura: Dorippidae) mitogenome by high-throughput sequencing. Its mitogenome sequence is 15,980 bp in size, with 13 protein-coding genes, two ribosomal RNA genes, and 22 transfer RNA genes. The genome has a high A + T content of 73.52%, and low G + C content of 26.48%. The AT-skew is negative, -0.0079; and the GC-skew is positive, 0.322. The phylogenetic analysis ofH. japonicausing 40 Brachyuran mitogenome datasets indicated thatPyrhila pisumof family Leucosiidae had the closet relationship withH. japonica. Further selection pressure analysis ofH. japonicasuggested the presence of strong positive purification selection in Brachyuran. Meanwhile, a total of 31 residues located in genesatp6, atp8, cox1-3, cob, nad1-5, andnad4Lwere detected as the positively selected sites. This study reports the first available complete mitogenome of family Dorippidae, and our results could offer a useful phylogenetic implication of Dorippidae in the infraorder Brachyura.
DrosophilaClueless ribonucleoprotein particles display novel dynamics that rely on the availability of functional protein and polysome equilibrium
Authors: Hwang Hye Jin , Sheard Kelsey M. , Cox Rachel T. 
Published: August 2024

AbstractThe cytoplasm is populated with many ribonucleoprotein (RNP) particles that post-transcriptionally regulate mRNAs. These membraneless organelles assemble and disassemble in response to stress, performing functions such as sequestering stalled translation pre-initiation complexes or mRNA storage, repression and decay.DrosophilaClueless (Clu) is a conserved multi-domain ribonucleoprotein essential for mitochondrial function that forms dynamic particles within the cytoplasm. Unlike well-known RNP particles, stress granules and Processing bodies, Clu particles completely disassemble under nutritional or oxidative stress. However, it is poorly understood how disrupting protein synthesis affects Clu particle dynamics, especially since Clu binds mRNA and ribosomes. Here, we capitalize onex vivoandin vivoimaging ofDrosophilafemale germ cells to determine what domains of Clu are necessary for Clu particle assembly, how manipulating translation using translation inhibitors affects particle dynamics, and how Clu particle movement relates to mitochondrial association. Using Clu deletion analysis and live and fixed imaging, we identified three protein domains in Clu, which are essential for particle assembly. In addition, we demonstrated that overexpressing functional Clu disassembled particles, while overexpression of deletion constructs did not. To examine how decreasing translation affects particle dynamics, we inhibited translation inDrosophilagerm cells using cycloheximide and puromycin. In contrast to stress granules and Processing bodies, cycloheximide treatment did not disassemble Clu particles yet puromycin treatment did. Surprisingly, cycloheximide stabilized particles in the presence of oxidative and nutritional stress. These findings demonstrate that Clu particles have novel dynamics in response to altered ribosome activity compared to stress granules and Processing bodies and support a model where they function as hubs of translation whose assembly heavily depends on the dynamic availability of polysomes.
Genetically encoded fluorescent sensors for visualizing polyamine levels, uptake, and distribution
Authors: Tamura Ryo , Chen Jialin , De Jaeger Marijke , Morris Jacqueline F. , Scott David A. , Vangheluwe Peter , Looger Loren L. 
Published: August 2024

ABSTRACTPolyamines are abundant and physiologically essential biomolecules that play a role in numerous processes, but are disrupted in diseases such as cancer, and cardiovascular and neurological disorders. Despite their importance, measuring free polyamine concentrations and monitoring their metabolism and uptake in cells in real-time remains impossible due to the lack of appropriate biosensors. Here we engineered, characterized, and validated the first genetically encoded biosensors for polyamines, named iPASnFRs. We demonstrate the utility of iPASnFR for detecting polyamine import into mammalian cells, to the cytoplasm, mitochondria, and the nucleus. We demonstrate that these sensors are useful to probe the activity of polyamine transporters and to uncover biochemical pathways underlying the distribution of polyamines amongst organelles. The sensors powered a high-throughput small molecule compound library screen, revealing multiple compounds in different chemical classes that strongly modulate cellular polyamine levels. These sensors will be powerful tools to investigate the complex interplay between polyamine uptake and metabolic pathways, address open questions about their role in health and disease, and enable screening for therapeutic polyamine modulators.
chrna3modulates alcohol response in zebrafish
Authors: Raine Joshua , Kibat Caroline , Banerjee Tirtha Das , Monteiro Antónia , Mathuru Ajay S. 
Published: August 2024

AbstractAlcohol use disorders (AUDs) are complex phenomena governed by genetics, neurophysiology, environment, and societal structures. New methods to understand the underlying neurogenetics are valuable for designing personalised interventional strategies. Here, we used a novel, two-choice self-administration zebrafish assay (SAZA) to isolate the function of nicotinic acetylcholine receptor (nAChR) subunit alpha3 (chrna3) in alcohol response. Juvenile zebrafish exhibited a biphasic response when self-administering alcohol that transitioned from attraction to aversion within minutes, suggesting they can regulate exposure to alcohol. This inverted U-shaped self-administration mirrored the effect alcohol has on shoaling behaviour. Exposure to low concentration of alcohol reduced anxiety-like behaviours, while sedative effects became prominent at higher concentrations resulting in reduced locomotion and uncoordinated swimming. In contrast, these responses are blunted inchrna3mutants. They exhibit prolonged alcohol self-administration, and increased gregariousness. Transcriptomic analyses suggest that glutamatergic and GABAergic neurotransmission alongside cholinergic signalling is impacted in the mutant brains. Our results thus suggest thatchrna3dysfunction has a systemic change with an increase in alcohol tolerance being one effect. These findings also highlight the use of non-rodent alternatives to understand the neurogenetics of development of AUD.HighlightsSAZA reveals hormesis to alcohol self-administration in zebrafish.chrna3is crucial to mount an aversive response to alcohol.Anxiolytic effects of alcohol are blunted inchrna3mutants.
Pangenome and Transcriptomic Analysis Revealed Distinct Virulence Genes Profiles and Infection Responses inShigella SonneiandShigella Flexneri
Authors: Wong Bao Chi , Wee Wei Yee , Tan Hock Siew 
Published: August 2024

AbstractShigellosis, a major cause of diarrheal death, is predominantly caused byShigella flexneriandShigella sonnei. Notably,S. sonneihas begun to overtakeS. flexneriin incidence worldwide. We conducted a comparative pangenome and transcriptomic analysis of these two species using the well-established modelCaenorhabditis elegansas an infection model to explore this shift. Pangenome analysis of 46S. sonneiand 111S. flexneristrains revealed thatS. sonneihas more core genes (44%) thanS. flexneri(13.6%). Additionally,S. sonnei,but notS. flexneri,has core virulence genes. The transcriptomic study duringC. elegansinfection showed thatS. sonneisignificantly upregulates the ferric enterobactin outer membrane transporter (fepA) and other metabolic processes (sulfur, thiamine and arginine). In contrast,S. flexneriupregulates regulatory genes involved in biofilm formation, transcription, cellular processes, and cell communication. These findings suggest thatS. sonnei’s ability to upregulate specific genes, includingfepA,may confer a competitive advantage overS. flexneri. These findings provide a comprehensive understanding of the genetic and functional adaptations that may contribute to the global epidemiological shift fromS. flexneritoS. sonnei, underscoring the need for further research into the mechanisms drivingS. sonnei’s increased virulence and adaptability.
Learning of state representation in recurrent network: the power of random feedback and biological constraints
Authors: Tsurumi Takayuki , Kato Ayaka , Kumar Arvind , Morita Kenji 
Published: August 2024

AbstractHow external/internal ‘state’ is represented in the brain is crucial, since appropriate representation enables goal-directed behavior. Recent studies suggest that state representation and state value can be simultaneously learnt through reinforcement learning (RL) using reward-prediction-error in recurrent-neural-network (RNN) and its downstream weights. However, how such learning can be neurally implemented remains unclear because training of RNN through the ‘backpropagation’ method requires downstream weights, which are biologically unavailable at the upstream RNN. Here we show that training of RNN using random feedback instead of the downstream weights still works because of the ‘feedback alignment’, which was originally demonstrated for supervised learning. We further show that if the downstream weights and the random feedback are biologically constrained to be non-negative, learning still occurs without feedback alignment because the non-negative constraint ensures loose alignment. These results suggest neural mechanisms for RL of state representation/value and the power of random feedback and biological constraints.
A deep-learning based analysis framework for ultra-high throughput screening time-series data
Authors: Balzerowski Patrick , Hebig Lukas , de Abreu e Lima Francisco , Manesso Erica , Müller Thomas , Diedam Holger , Gnutt David 
Published: August 2024

AbstractAnalysis of ultra-high-throughput screening data sets is a highly critical step in drug discovery campaigns. Due to various environmental and experimental error sources fast and reliable identification of possible candidate compounds is challenging. In this work, we introduce a novel deep-learning based analysis framework to analyze uHTS time-series data sets. Our framework is based on two independent deep-learning models. A deep-learning regression model reduces temporal and spatial signal variation across multitier plates caused by systematic and random errors and a separate variational autoencoder model is used for dimensionality reduction. In contrast to classical evaluation methods our approach is capable to derive lower dimensional representations of time-series signals without a-priori knowledge of the data generating mechanism. We tested our analysis framework on an experimental uHTS data set and identified two distinct classes of substances in the screened library which could be attributed to two biological modes of action. Selected substances belonging to both modes of action were successfully validated in a secondary screening experiment.
Directionality Theory and Mortality Patterns Across the Primate Lineage
Authors: Demetrius Lloyd A. , Sahasranaman Anand , Ziehe Martin 
Published: August 2024

AbstractEmpirical studies of aging in primates show that local selective forces rather than phylogenetic history determine the exceptional nature of human longevity (Bronikowski, et al., 2011).This article proposes an evolutionary rationale for this pattern of primate mortality by invoking the parameter,Life-Table Entropy, a measure of the uncertainty in the life span of a randomly chosen newborn. Life-table entropy is positively correlated with maximal life span, that is, the mean life span of a species living under favourable conditions.The logic which underlies the exceptional nature of human longevity derives from the terrestrial life-history of humans – a singularity within the primate lineage; and the concomitant ecological constraints - the hunter-gatherer, agricultural, and industrial modes of subsistence, that have defined human evolutionary history. The effect of these ecological constraints on the evolution of life span is encoded in theEntropic Principle of Longevity: life-table entropyincreases in equilibrium species, populations evolving in environments with stable, renewable resources; anddecreasesin opportunistic species, populations subject to fluctuating resource endowments.The Entropic Principle of Longevity is a derivative ofDirectionality Theory, an analytic study of the evolutionary process of variation and selection based onEvolutionary Entropy, a statistical measure of the uncertainty in the age of the mother of a randomly chosen newborn. Evolutionary entropy is the organizing concept ofThe Entropic Principle of Evolution: Evolutionary Entropy increases in equilibrium species and decreases in opportunistic species.
Tariff effects on industrial performance: symmetric and asymmetric evidence from Nigeria
Authors: Ojike Richard O. , Ikpe Marius , Odionye Joseph Chukwudi , Agu Sunday V. 
Published: August 2024

PurposeDespite the government’s efforts to protect domestic industries from foreign competition through tariffs, the industrial sector’s contribution to GDP continued to decline in Nigeria. Based on the scenario, this study assessed the symmetric and asymmetric effects of tariffs on industrial performance in Nigeria for the period 1988–2021. Tariff was captured with a tariff rate applied to the weighted mean of all products, while industry value added as a percent of GDP was used as a proxy for industrial performance.Design/methodology/approachLinear and nonlinear ARDL techniques were used for the analysis.FindingsThe symmetric (linear ARDL) results revealed that tariffs have a significant positive effect on industrial performance in both the short and long term. The asymmetric (nonlinear ARDL) results showed that a long-term asymmetry exists between tariffs and industrial performance. It revealed positive effects on industrial performance for both positive and negative tariff changes, with the negative change having a greater impact.Practical implicationsGenerally, the results showed that the use of tariffs to protect domestic industries in Nigeria promotes industrial performance. The implication is that the declining contribution of the industrial sector to GDP in Nigeria is not a result of the tariff policy. It shows that the government should look beyond tariff policy to enhance the industrial contribution to GDP.Originality/valueNigeria should exercise caution in using tariff policies to protect domestic industries to avoid retaliation from their trade partners that could reverse the positive impacts.
How chief data officers promote data-driven innovation: an empirical investigation
Authors: Xiao Jianying , Ding Huiying , Zhang Hui 
Published: August 2024

PurposeWith the arrival of the big data era, governments have appointed a chief data officer (CDO) to meet the opportunities and challenges brought by big data. The existing research on the CDOs is very limited, and what does exist focuses primarily on what are CDOs do. Little research has explored how CDOs do. To fill this gap, this study employed ambidexterity theory to investigate the ambidexterity of CDOs’ impact on data-driven innovation.Design/methodology/approachTo empirically test the model, a survey study was conducted to empirically test the model. Data were collected from 261 CDOs in government and government employees in big data management centers or bureaus. The collected data were analyzed quantitatively to answer hypotheses using a structural equation model.FindingsThe findings suggest that data exploitation and data exploration significantly influence data-driven leadership, culture and value propositions. Data-driven leadership and value propositions significantly impact government performance.Originality/valueThis study is one of the first attempts to investigate how CDOs work, especially when promoting data-driven innovation. In addition, this study extends ambidexterity theory into the issue of the CDO in government.
The role of virtual training in implementing Sustainable Development Goals globally
Authors: Bilderback Stephanie , Movahed Mohammad , McCarthy Vikkie 
Published: August 2024

Purpose
This paper aims to investigate the role of virtual training in supporting Sustainable Development Goals (SDGs) and reducing workforce inequalities. It analyzes both the advantages and challenges of integrating virtual training within sustainable development frameworks and the circular economy, underlining its crucial role in transforming workforce strategies and enhancing economic and social progress.

Design/methodology/approach
The study uses Becker’s human capital theory (1964) and Bandura’s social learning theory (1977) to explore the impact of virtual training on human capital development and its contributions to specific SDGs. This integrated approach provides a detailed exploration of how virtual training intersects with sustainable development initiatives.

Findings
The findings highlight the pivotal role of technology in training and development, particularly in the post-pandemic landscape. Virtual training significantly enhances global collaboration, inclusivity and sustainability. It highlights the necessity of adapting corporate training practices to digital environments, thereby improving the quality of education, advancing gender equality and stimulating economic growth.

Originality/value
This paper presents unique perspectives on the influence of workplace training in the post-pandemic era, focusing on technological integration. It discusses how such integration supports diversity, equity and inclusion within the workforce and highlights the essential role of virtual training in promoting organizational flexibility and enhancing employee skills amidst ongoing digital transformations.
Examining the role of concrete 3D printing for housing construction on Indigenous Reserves in Canada
Authors: Soto Rubio Mauricio , Mirza Muhammad Fauzan , Kagdi Mustafa , Bisati Ahmad Ali 
Published: August 2024

PurposeThis research explores the role of concrete 3D printing (C3DP) in the development of culturally appropriate housing in Indigenous Reserves in Canada through the design, building and evaluation of the Star Lodge project located in the Siksika Nation of Alberta, Canada. The project aims to assess the potential of C3DP in addressing the escalating housing demands in Indigenous communities in Canada.Design/methodology/approachThe research involved a collaborative and multidisciplinary approach, engaging Blackfoot Elders, Knowledge Keepers from the Siksika Nation, Siksika Housing and Nidus3D. Central to this was the design, build and documentation of the Star Lodge project to analyse the advantages and challenges, guided by weekly meetings and site visits.FindingsThe project harnessed C3DP to streamline construction, enhance durability, reduce maintenance costs and enhance the energy performance of the homes. Notable time savings were achieved compared to conventional construction methods. Challenges included developing strategies to overcome extreme cold weather conditions, achieving a consistent concrete mix and integrating conventional construction elements such as drywall construction in interiors. The project served as a platform for collaboration and community participation, shaping the design and construction process while raising awareness of innovative construction techniques in the community.Originality/valueThis study provides an evidence-based framework for the evaluation of C3DP technology by analysing the Star Lodge Project, the first C3DP project in Alberta and the largest of its kind in Canada. By addressing housing challenges in Indigenous communities, the research holds broader implications for sustainable development and Indigenous empowerment across Canada.
Lessons learned in establishing an institutional micro-credential initiative
Authors: Lokey-Vega Anissa , Callahan Brendan E. , Doehling Ashley Archer , Head Michelle 
Published: August 2024

PurposeThis design case serves to identify barriers to implementing a micro-credential initiative and describes how the institution in the case addresses them to provide strategies and lessons learned to practitioners at other institutions of higher education who may be designing a micro-credential initiative.Design/methodology/approachThis design case traces a systems approach to designing a centralized and sustainable university micro-credential initiative. Sources include historical documents from the original working group, email-documented community feedback, current initiative communications, participant report, and frequency counts of micro-credentials awarded. This data is used to recount the design process and key decisions that led to revisions, or iterations, of the initiative's design.FindingsThe institution has seen rapid growth in the awarding of micro-credentials. Lessons learned included the need for thoughtful inclusion of stakeholders, selective terminology, a well-communicated attitude of iteration, repurposing of established tools and processes, and on-going support of academic faculty.Research limitations/implicationsLike any design case, this study is not generalizable.Originality/valueThis paper provides a unique empirical account of the design, development, and implementation of a micro-credential initiative that functioned in tandem with, rather than in conflict with, shared governance and academic traditions at a higher education institution.