bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cooperativity of c-MYC with Krüppel-Like Factor 6 Splice Variant 1 induces phenotypic plasticity and promotes prostate cancer progression and metastasis
Authors: Izadmehr Sudeh , Fernandez-Hernandez Heriberto , Wiredja Danica , Kirschenbaum Alexander , Lee-Poturalski Christine , Tavassoli Peyman , Yao Shen , Schlatzer Daniela , Hoon Divya , Difeo Analisa , Levine Alice C. , Mosquera Juan-Miguel , Galsky Matthew D. , Cordon-Cardo Carlos , Narla Goutham 
Published: February 2024

AbstractMetastasis remains a major cause of morbidity and mortality in men with prostate cancer, and the functional impact of the genetic alterations, alone or in combination, driving metastatic disease remains incompletely understood. The proto-oncogene c-MYC, commonly deregulated in prostate cancer. Transgenic expression of c-MYC is sufficient to drive the progression to prostatic intraepithelial neoplasia and ultimately to moderately differentiated localized primary tumors, however, c-MYC-driven tumors are unable to progress through the metastatic cascade, suggesting that a “second-hit” is necessary in the milieu of aberrant c-MYC-driven signaling. Here, we identified cooperativity between c-MYC and KLF6-SV1, an oncogenic splice variant of the KLF6 gene. Transgenic mice that co-expressed KLF6-SV1 and c-MYC developed progressive and metastatic prostate cancer with a histological and molecular phenotype like human prostate cancer. Silencing c-MYC expression significantly reduced tumor burden in these mice supporting the necessity for c-MYC in tumor maintenance. Unbiased global proteomic analysis of tumors from these mice revealed significantly enriched vimentin, a dedifferentiation and pro-metastatic marker, induced by KLF6-SV1. c-MYC-positive tumors were also significantly enriched for KLF6-SV1 in human prostate cancer specimens. Our findings provide evidence that KLF6-SV1 is an enhancer of c-MYC-driven prostate cancer progression and metastasis, and a correlated genetic event in human prostate cancer with potential translational significance.
A Tale of Twins: The Distinct Roles of Intracellular and Extracellular Formate in Regulating Flagellar and Pathogenicity Island-1 Genes inSalmonellaTyphimurium
Authors: Mukherjee Debapriya , Chakravortty Dipshikha 
Published: February 2024

AbstractHost-derived short-chain fatty acids (SCFAs) are extensively being studied for their role in the virulence and pathogenesis ofSalmonellaTyphimurium (STM). Formate, an SCFA present in the ileum, functions as a signalling molecule to enhance STM invasion. However, the role of intracellular formate inSalmonellavirulence remains poorly understood. To investigate this, we generated knockouts ofpflB(pyruvate-formate lyase) andfocA(formate transporter). Disruption of formate production throughpflBdeletion led to reduced flagellation and increasedhilAandprgHexpression, attributed to elevated intracellular pH and membrane damage. This suppression of flagellar machinery drives a shift from adhesion to invasion, regulated by RpoE via the CsrA/csrBpathway. Additionally, we demonstrate that upon compensation for intracellular deficiency of formate, STMΔpflBstarts to utilize formate as a signalling molecule to regulate downstream processes. To the best of our knowledge, this study is the first to establish the critical role of thepflBgene in maintaining intracellular pH and controlling virulence gene expression in STM. Lastly, our findings emphasize the importance of modulatingpflBexpression across intestinal regions to optimize STM invasion.Graphical abstract
Longitudinal fluctuations in protein concentrations and higher-order structures in the plasma proteome of kidney failure patients subjected to a kidney transplant
Authors: Nteak Sofia Kalaidopoulou , Völlmy Franziska , Lukassen Marie V. , van den Toorn Henk , den Boer Maurits A. , Bondt Albert , van der Lans Sjors P.A. , Haas Pieter-Jan , van Zuilen Arjan D. , Rooijakkers Suzan H. M. , Heck Albert J.R. 
Published: February 2024

AbstractUsing proteomics and complexome profiling we evaluated over a period of a year longitudinal variations in the plasma proteome of kidney failure patients, prior to and after a kidney transplantation, comparing this data with two healthy controls. The post-transplant period was complicated by numerous bacterial infections, resulting in dramatic changes in the plasma proteome, mostly related to an acute phase condition. As positive acute phase proteins, being elevated upon inflammation, we observed the well-described C-reactive protein (CRP) and Serum Amyloid A (SAA1 and SAA2), but our analyses added to that Fibrinogen (FGA, FGB and FGG), Haptoglobin (HP), Leucine-rich alpha-2-glycoprotein (LRG1), Lipopolysaccharide- binding protein (LBP), Alpha-1-antitrypsin (SERPINA1), Alpha-1-antichymotrypsin (SERPINA3), Protein S100 (S100A8, S100A9), Complement protein C4, C4b-binding protein alpha chain (C4BPA), Complement factor B (CFB) and Monocyte differentiation antigen CD14. As negative acute phase proteins, being downregulated upon inflammation, we identified the well-documented Serotransferrin (TF) and Transthyretin (TTR), but add on to that Kallistatin (SERPINA4), Heparin cofactor 2 (SERPIND1), Inter-alpha-trypsin inhibitor heavy chain H1 and H2 (ITIH1, ITIH2). For a patient with the most severe acute phase response, we furthermore performed plasma complexome profiling by SEC-LC-MS on all longitudinal samples. We observe that several plasma proteins displaying alike concentration patterns, co- elute and putatively form macromolecular complexes. These include a) FGA, FGB and FGG (as expected, b) ITIH1 and ITIH2, c) HP together with Hemoglobin (HB), d) the small acute phase biomarker proteins SAA1 and SAA2 with the Apolipoproteins A-I, A-II, A-IV (APOA1, APOA2, APOA4). By complexome profiling we expose how SAA1 and SAA2 become incorporated into high-density lipid particles, thereby replacing partly APOA1 and APOA4. Overall, our data highlight that the combination of in-depth longitudinal plasma proteome and complexome profiling can shed further light on the correlated variations in the abundance of several plasma proteins upon inflammatory events.
Virus-associated Inflammation Imprints an Inflammatory Profile on Long-lived Monocyte-derived Macrophages in the Human Liver
Authors: Sanchez Vasquez Juan Diego , Nkongolo Shirin , Traum Daniel , Kim Samuel C. , Mahamed Deeqa , Mehrotra Aman , Patel Anjali , Chen Diana , Fung Scott , Gaggar Anuj , Feld Jordan J. , Chang Kyong-Mi , Wallin Jeffrey J. , Janssen Harry L.A. , Gehring Adam J. 
Published: February 2024

AbstractChronic liver injury triggers the activation and recruitment of immune cells, causing antigen-independent tissue damage and liver disease progression. Tissue inflammation can reshape macrophage composition through monocyte replacement. Replacement of tissue macrophages with monocytes differentiating in an inflammatory environment can potentially imprint a phenotype that switches the liver from an immunotolerant organ to one predisposed to tissue damage. We longitudinally sampled the liver of chronic hepatitis B (CHB) patients with active liver inflammation starting antiviral therapy. Antiviral therapy suppressed viral replication and liver inflammation, which coincided with decreased myeloid activation markers. Single-cell RNA sequencing mapped peripheral inflammatory markers to a monocyte-derived macrophage population, distinct from Kupffer cells, with an inflammatory transcriptional profile. The inflammatory macrophages (iMacs) differentiated from blood monocytes and established a long-lived population. The iMacs retained their core transcriptional signature, consistent with trained immunity, resulting in a population of macrophages primed for inflammation potentially driving progressive liver disease.
ARX regulates cortical interneuron differentiation and migration
Authors: Lim Youngshin , Akula Shyam K , Myers Abigail K , Chen Connie , Rafael Katherine A , Walsh Christopher A , Golden Jeffrey A , Cho Ginam 
Published: February 2024

AbstractMutations in aristaless-related homeobox (ARX) are associated with neurodevelopmental disorders including developmental epilepsies, intellectual disabilities, and autism spectrum disorders, with or without brain malformations. Aspects of these disorders have been linked to abnormal cortical interneuron (cIN) development and function. To further understand ARX’s role in cIN development, multipleArxmutant mouse lines were interrogated. We found that ARX is critical for controlling cIN numbers and distribution, especially, in the developing marginal zone (MZ). Single cell transcriptomics and ChIP-seq, combined with functional studies, revealed ARX directly or indirectly regulates genes involved in proliferation and the cell cycle (e.g.,Bub3,Cspr3), fate specification (e.g.,Nkx2.1,Maf,Mef2c), and migration (e.g.,Nkx2.1,Lmo1,Cxcr4,Nrg1,ErbB4). Our data suggest that the MZ stream defects primarily result from disordered cell-cell communication. Together our findings provide new insights into the mechanisms underlying cIN development and migration and how they are disrupted in several disorders.
Analysis of arbuscular mycorrhizal fungi (AMF) community composition associated with alkaline saline sodic soils
Authors: Marquez N , Irazoqui JM , Ciacci MB , Amadio AF , Fernandez FD , Giachero ML 
Published: February 2024

ABSTRACTMarginal soils affected by salinity, sodicity and alkalinity decrease crop productivity. In this context, a viable alternative strategy lies in the remediation of degraded lands using beneficial microorganisms. This study aims to characterize native arbuscular mycorrhizal fungal (AMF) communities by sequencing PCR amplicons that cover most of the small subunit rRNA (SSU) gene, the complete internal transcribed spacer (ITS) region, and a portion of the large subunit (LSU) rRNA, employing Oxford Nanopore Technologies (ONT). Three field sites, with varying crop conditions, were selected: a patch with no crop growth (Site 1), a patch with corn stubble (Site 2), and a patch with wheat plants exhibiting 15 days of growth (Site 3). Soil analyses revealed distinct characteristics - alkaline saline sodic soil (ASS) for Site 1, moderately alkaline soil (A) for Site 2, and neutral soil (N) for Site 3. ONT sequencing yielded a total of 4,040,470 raw reads from which 19.13% survived after quality and length filter. Reads were grouped in 556 clusters, of which 222 remained after bioinformatic analysis. Despite moderate error rates in 9.4.1, flowcells chemistry, using a clustering and polishing approach facilitated the ecological analysis and allowed a better taxonomic resolution. Bioinformatic analysis showed no significant differences in AMF diversity among soils. However, results suggest the dominance ofGlomeraceaeandAcaulosporaceaefamilies, specifically the generaGlomusandAcaulosporain ASS soil. Further exploration is required to better understand their role in promoting plant growth under adverse conditions. The study highlights the significance of cutting-edge sequencing tools in advancing the comprehension of essential symbiotic relationships for sustainable agriculture in challenging environments.
1-Aminocyclopropane-1-carboxylic acid oxidase determines the fate of ethylene biosynthesis in a tissue-specific way to fine-tune development and stress resilience
Authors: Houben M. , Vaughan-Hirsch J. , Pattyn J. , Mou W. , Roden S. , Martinez Roig A. , Kabak E. , Rodrigues S. , Polko A. , De Coninck B. , Kieber J. J. , Voet A. , Van de Poel B. 
Published: February 2024

AbstractEthylene is involved in several developmental processes and responses towards (a)biotic stress. In seed plants, ethylene is produced from its precursor 1-aminocyclopropane-1-carboxylic acid (ACC) by the enzyme ACC-oxidase (ACO). Despite its key role in ethylene synthesis, theACOgene family has not yet been fully characterized. We investigated the fiveACOmembers ofArabidopsis thalianaand revealed a tissue-and developmentally specific expression pattern. Furthermore, the five ACO enzymes each have a different capacity to produce ethylene. Combined, this allows for a precise spatial and temporal regulation of ethylene synthesis. At the sub-cellular level, we uncovered that ACOs reside in the cytosol, where ethylene is likely synthesized, but surprisingly also in the nucleus. Using reverse genetics of single and higher orderacomutants we revealed a high degree of gene redundancy and minimal phenotypes. A lack of ethylene synthesis by knocking out all fiveACOsdid not impair normal vegetative and generative development but did influence processes associated with high rates of ethylene production such as petal abscission. This suggests that ethylene is not a prime regulator of development, but more a moderator. We also showed that the inability to synthesize ethylene impairs some abiotic (nutrient deficiency and metal toxicity) and biotic (Botrytis cinerea) stress responses, similar as plants insensitive towards ethylene, corroborating the role of ethylene in mediating stress responses. In conclusion, theACOgene family enables plants to fine-tune their ethylene synthesis rates, but a lack their off is not crucial for normal development and stress survival.
Gate-tunable giant superconducting nonreciprocal transport in few-layer
Td−MoTe2
Authors: Wakamura T. , Hashisaka M. , Hoshino S. , Bard M. , Okazaki S. , Sasagawa T. , Taniguchi T. , Watanabe K. , Muraki K. , Kumada N. 
Published: February 2024

We demonstrate gate-tunable giant field-dependent nonreciprocal transport (magnetochiral anisotropy) in a noncentrosymmetric superconductor Td−MoTe2 in the thin limit. Giant magnetochiral anisotropy (MCA) with a rectification coefficient (or a figure of merit) γ=3.1×106T−1A−1 is observed at 230 mK, below the superconducting transition temperature (Tc). This is one of the largest values reported so far and may be attributed to the reduced symmetry of the crystal structure. The temperature dependence of γ indicates that ratchetlike motion of magnetic vortices is the origin of the MCA, as supported by our theoretical model. For bilayer (2 L) Td−MoTe2, we can successfully modulate γ by gating. Our experimental results provide a new route to realizing electrically controllable superconducting rectification devices in a single material.

Published by the American Physical Society
2024
Review on the application of stainless-clad bimetallic steel in the marine environment
Authors: Wang Dongsheng , Sun Xiaohan , Jiang Yingchang , Chang Xueting , Yonglei Xin 
Published: February 2024

Purpose
Stainless-clad bimetallic steels (SCBS) are widely investigated in some extremely environmental applications areas, such as polar sailing area and tropical oil and gas platforms areas, because of their excellent anticorrosion performance and relatively lower production costs. However, the properties of SCBS, including the mechanical strength, weldability and the anticorrosion behavior, have a direct relation with the manufacturing process and can affect their practical applications. This paper aims to review the application and the properties requirements of SCBS in marine environments to promote the application of this new material in more fields.

Design/methodology/approach
In this paper, the manufacturing process, welding and corrosion-resistant properties of SCBS were introduced systematically by reviewing the related literatures, and some results of the authors’ research group were also introduced briefly.

Findings
Different preparation methods, such as rolling composite, casting rolling composite, explosive composite, laser cladding and plasma arc cladding, as well as the process parameters, including the vacuum degree, rolling temperature, rolling reduction ratio, volume ratios of liquid to solid, explosive ratio and the heat treatment, influenced a lot on the properties of the SCBS through changing the interface microstructures. Otherwise, the variations in rolling temperature, pass, reduction and the grain size of clad steel also brought the dissimilarities of the mechanical properties, microhardness, bonding strength and toughness. Another two new processes, clad teeming method and interlayer explosive welding, deserve more attention because of their excellent microstructure control ability. The superior corrosion resistance of SCBS can alleviate the corrosion problem in the marine environment and prolong the service life of the equipment, but the phenomenon of galvanic corrosion should be noted as much as possible. The high dilution rate, welding process specifications and heat treatment can weaken the intergranular corrosion resistance in the weld area.

Originality/value
This paper summarizes the application of SCBS in marine environments and provides an overview and reference for the research of stainless-clad bimetallic steel.
Can setting up inside debt accelerate the bank's digital transformation? Evidence from China
Authors: Bian Yuchen , Gu Haifeng 
Published: February 2024

PurposeDigital transformation is essential for commercial banks to maintain long-term competitiveness in the digital economy era. This study aims to investigate the relationship between inside debt and the bank's digital transformation.Design/methodology/approachThis study set up a quasi-natural experiment based on implementing the executive compensation deferral system in the Chinese banking industry. Using the annual panel data of 180 commercial banks in China from 2007 to 2021, this study employed the difference-in-differences (DID) method to conduct an empirical analysis.FindingsThis study confirms a significant statistical relationship between inside debt and the bank's digital transformation, and managerial myopia is the transmission channel of inside debt affecting the bank's digital transformation. Furthermore, the development of Internet finance and the enhancement of bankers' confidence will improve the contributions of inside debt to the bank's digital transformation.Originality/valueThis study contributes to the literature on inside debt and the bank's digital transformation. It has specific policy value for the scientific design of the banking compensation mechanism and accelerating banks' digital transformation.
Development of central bank digital currencies: a bibliometric analysis
Authors: Kvedaravičiūtė Evelina , Šapkauskienė Alfreda 
Published: February 2024

PurposeWe aim to conduct a bibliometric analysis that explores and maps quantitative data of the emerging field of central bank digital currencies in science and its implications in practice. We seek to clarify the underlying research structures and streams of the new phenomena, and our motivation is the rising number of pilots between governments seeking to implement different types of central bank digital currency.Design/methodology/approachWe designed the unique set of keywords to explore ongoing projects on central bank digital currencies and the evolution of scientific thought on the topic. We conducted a descriptive analysis and an evaluating bibliometric analysis on the timeline from 2018 to April 18, 2023 and investigated 76 articles in the Web of Science database and 152 articles in the Scopus database using VOSviewer.FindingsWe highlight three main directions of discourse on central bank digital currencies in economics using authors keyword analysis, that are: (1) cash, (2) monetary policy and (3) financial stability. We conducted a map-based text analysis of the abstracts and identified the following main streams of discussion in the field: (1) policy-related research on financial systems, (2) a comprehensive review of the design and features of central bank digital currencies and (3) research on the impact of central bank digital currencies on the banking system.Originality/valueThe unique set of keywords allows us to continue the discourse on central bank digital currencies including implications of ongoing governmental projects on the topic and provide directions for future research. We brought the focus on the impact of central bank digital currencies on the banking sector and the new possible order for cash, deposits and payments.
Effect of sustainability measures on student satisfaction regarding accommodation services: practical study from the University of Northampton in the UK
Authors: Jrad Majida 
Published: February 2024

Purpose
This study aims to examine the relationship between sustainability initiatives and student satisfaction in accommodation services at the University of Northampton.

Design/methodology/approach
Four main sustainability factors, including energy consumption, waste management, environmental responsibility and green infrastructure, are explored in relation to their impact on student satisfaction. A quantitative research approach was used, using a structured questionnaire distributed to 224 students. Correlation and regression analyses were conducted to assess the associations and predictive power of the sustainability factors on student satisfaction.

Findings
The findings underscore the pivotal role of sustainable initiatives in shaping student satisfaction with accommodation services. Particularly, energy consumption, environmental responsibility and green infrastructure emerged as significant factors influencing higher levels of student satisfaction. These outcomes align with the core principles of sustainability and emphasize the importance of implementing effective strategies in these domains to enhance student experiences. Existing literature supports these findings, indicating that sustainable practices significantly contribute to enhanced satisfaction levels. It is crucial to acknowledge that this study focused on a specific context, namely, the University of Northampton, and caution should be exercised when generalizing these findings to other settings.

Originality/value
This study contributes to the existing literature by providing empirical evidence of the specific sustainability factors that influence student satisfaction in university accommodation. Findings offer valuable guidance for universities and accommodation providers in developing and implementing sustainable practices to create a conducive living environment for students.
Analyzing predictors of pearl millet supply chain using an artificial neural network
Authors: Dhankar Nikita , Routroy Srikanta , Sharma Satyendra Kumar 
Published: February 2024

Purpose
The internal (farmer-controlled) and external (non-farmer-controlled) factors affect crop yield. However, not a single study has identified and analyzed yield predictors in India using effective predictive models. Thus, this study aims to investigate how internal and external predictors impact pearl millet yield and Stover yield.

Design/methodology/approach
Descriptive analytics and artificial neural network are used to investigate the impact of predictors on pearl millet yield and Stover yield. From descriptive analytics, 473 valid responses were collected from semi-arid zone, and the predictors were categorized into internal and external factors. Multi-layer perceptron-neural network (MLP-NN) model was used in Statistical Package for the Social Sciences version 25 to model them.

Findings
The MLP-NN model reveals that rainfall has the highest normalized importance, followed by irrigation frequency, crop rotation frequency, fertilizers type and temperature. The model has an acceptable goodness of fit because the training and testing methods have average root mean square errors of 0.25 and 0.28, respectively. Also, the model has R2 values of 0.863 and 0.704, respectively, for both pearl millet and Stover yield.

Research limitations/implications
To the best of the authors’ knowledge, the current study is first of its kind related to impact of predictors of both internal and external factors on pearl millet yield and Stover yield.

Originality/value
The literature reveals that most studies have estimated crop yield using limited parameters and forecasting approaches. However, this research will examine the impact of various predictors such as internal and external of both yields. The outcomes of the study will help policymakers in developing strategies for stakeholders. The current work will improve pearl millet yield literature.