bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Cys-2088-Arg mutation in ACCase confers cross-resistance to ACCase-inhibiting herbicides in barnyard grass (Echinochloa crus-galli)
Authors: Hu Wei , Li Yuguo , Zhao Chaowei , Zhang Liya , Ma Yumeng , Gao Quan , Cao Haiqun , Liao Min 
Published: February 2025

Abstract
Barnyardgrass [Echinochloa crus-galli (L.) P. Beauv.] is a dominant weed species occurring in rice fields across China. Metamifop, a common herbicide, is frequently applied to control E. crus-galli and other grassy weeds in rice fields. Herein, HS01, an E. crus-galli population suspected to be resistant (R) to metamifop, was collected from Hanshan County in Anhui Province. Whole-plant dose-response testing revealed that, compared with the susceptible (S) population FD03, HS01 had developed high-level resistance to metamifop with a resistance index (RI) of 11.76 and showed cross-resistance to cyhalofop-butyl (RI=9.33), fenoxaprop-P-ethyl (RI=5.80) and clethodim (RI=3.24). Gene sequencing revealed a Cys-2088-Arg mutation in ACCase 1,5 allele of all the R plants, while ACCase gene overexpression was not involved in the resistance. Molecular docking indicated that the less negative binding energies might be the main reason for the resistance of HS01 to ACCase-inhibiting herbicides. A derived cleaved amplified polymorphic sequence (dCAPS) method was developed for the rapid identification of the Cys-to-Arg mutation in the ACCase gene at codon position 2088 in E. crus-galli. Additionally, pretreatment with the cytochrome P450 inhibitor piperonyl butoxide or the glutathione S-transferase inhibitor 4-chloro-7-nitrobenzoxa-diazole had no significant effects (p> 0.05) on the resistance of HS01 to metamifop. To our knowledge, this is the first report of a Cys-2088-Arg mutation in E. crus-galli ACCase that confers cross-resistance to ACCase-inhibiting herbicides.
Short‐Term Associations Between Ambient Ozone and Acute Myocardial Infarction Onset Among Younger Patients: Results From the VIRGO Study
Authors: Zhang Siqi , Chu Lingzhi , Lu Yuan , Wei Jing , Dubrow Robert , Chaudhry Sarwat I. , Spatz Erica , Krumholz Harlan , Chen Kai 
Published: February 2025

AbstractThe association between ambient ozone (O3) and acute myocardial infarction (AMI) onset is unclear, particularly for younger patients and AMI subtypes. This study examined the short‐term association of O3 with AMI onset in patients aged 18–55 years and explored differences by AMI subtypes and patient characteristics. We analyzed 2,322 AMI patients admitted to 103 US hospitals (2008–2012). Daily maximum 8‐hr O3 concentrations estimated using a spatiotemporal deep learning approach were assigned to participants' home addresses. We used a time‐stratified case‐crossover design with conditional logistic regression to assess the association between O3 and AMI, adjusting for fine particulate matter, air temperature, and relative humidity. We conducted stratified analyses to examine associations for AMI subtypes and effect modification by sociodemographic status, lifestyle factors, and medical history. An interquartile range (16.6 ppb) increase in O3 concentrations was associated with an increased AMI risk at lag 4 days (odds ratio [OR] = 1.21, 95% confidence interval [CI]: 1.08–1.34) and lag 5 days (OR = 1.11, 95% CI: 1.00–1.24). The association was more pronounced for non‐ST‐segment elevation AMI and type 2 AMI compared with ST‐segment elevation AMI and type 1 AMI, respectively. Stronger O3‐AMI associations were observed in non‐Hispanic Blacks than in non‐Hispanic Whites. Our study provides evidence that short‐term O3 exposure is associated with increased AMI risk in younger patients, with varying associations across AMI subtypes. The effect modification by race/ethnicity highlights the need for population‐specific intervention strategies.
Improved prognosis of advanced-stage extranodal NK/T-cell lymphoma: results of the NKEA-Next study
Authors: Fujimoto Ayumi , Miyazaki Kana , Yakushijin Kimikazu , Fujino Takahiro , Munakata Wataru , Ejima Yasuo , Maruyama Dai , Kubota Nobuko , Maeda Takeshi , Takizawa Jun , Hiramoto Nobuhiro , Takeuchi Masahiro , Sakai Rika , Fukuhara Noriko , Taguchi Senzo , Asano Naoko , Yamaguchi Motoko , Suzuki Ritsuro 
Published: February 2025

Abstract
A retrospective study of extranodal natural killer/T-cell lymphoma (ENKL) patients diagnosed between 2014 and 2021 in Japan was conducted. Among 351 patients with sufficient data, 116 (33%) were in the advanced stage (5 in stage III and 111 in stage IV) at diagnosis, and were further analyzed. The median age was 60 years (range: 19–90), and 68 (59%) were male. Ninety-four (85%) of stage IV patients had two or more extranodal involvements. The most common first-line regimen was SMILE (steroid, methotrexate, ifosfamide, L-asparaginase, and etoposide; 52%). The 2-year overall survival (OS) for all patients was 38.5%, which was significantly improved after 2017 (25.2% for 2014–2017 vs. 50.7% for 2018–2021; P = 0.008). Patients treated with SMILE showed better OS than those treated with DeVIC or CHOP (2y-OS: 57.1%, 35.8%, and 0%, respectively; P < 0.001). The prognosis was significantly better in patients who received hematopoietic stem cell transplantation (HSCT) than in those who did not (2-year OS: 68.3% vs. 17.6%, P < 0.001). Multivariate analysis showed SMILE and HSCT were significant factors for OS. In conclusion, the prognosis of advanced-stage ENKL has improved in recent years. The L-asparaginase-containing chemotherapy and subsequent HSCT is considered the recommended strategy.
Deletion of 17p in cancers: Guilt by (p53) association
Authors: van Kampen Francisca , Clark Abigail , Soul Jamie , Kanhere Aditi , Glenn Mark A. , Pettitt Andrew R. , Kalakonda Nagesh , Slupsky Joseph R. 
Published: February 2025

Abstract
Monoallelic deletion of the short arm of chromosome 17 (del17p) is a recurrent abnormality in cancers with poor outcomes. Best studied in relation to haematological malignancies, associated functional outcomes are attributed mainly to loss and/or dysfunction of TP53, which is located at 17p13.1, but the wider impact of deletion of other genes located on 17p is poorly understood. 17p is one of the most gene-dense regions of the genome and includes tumour suppressor genes additional to TP53, genes essential for cell survival and proliferation, as well as small and long non-coding RNAs. In this review we utilise a data-driven approach to demarcate the extent of 17p deletion in multiple cancers and identify a common loss-of-function gene signature. We discuss how the resultant loss of heterozygosity (LOH) and haploinsufficiency may influence cell behaviour but also identify vulnerabilities that can potentially be exploited therapeutically. Finally, we highlight how emerging animal and isogenic cell line models of del17p can provide critical biological insights for cancer cell behaviour.
Small molecule-mediated inhibition of the oxidoreductase ERO1A restrains aggressive breast cancer by impairing VEGF and PD-L1 in the tumor microenvironment
Authors: Varone Ersilia , Retini Michele , Cherubini Alessandro , Chernorudskiy Alexander , Marrazza Alice , Guidarelli Andrea , Cagnotto Alfredo , Beeg Marten , Gobbi Marco , Fumagalli Stefano , Bolis Marco , Guarrera Luca , Barbera Maria Chiara , Grasselli Chiara , Bleve Augusto , Generali Daniele , Milani Manuela , Mari Michele , Salmona Mario , Piersanti Giovanni , Bottegoni Giovanni , Broggini Massimo , Janssen-Heininger Yvonne M. W. , Cho Jaehyung , Cantoni Orazio , Zito Ester 
Published: February 2025

Abstract
Cancer cells adapt to harsh environmental conditions by inducing the Unfolded Protein Response (UPR), of which ERO1A is a mediator. ERO1A aids protein folding by acting as a protein disulfide oxidase, and under cancer-related hypoxia conditions, it favors the folding of angiogenic VEGFA, leading tumor cells to thrive and spread. The upregulation of ERO1A in cancer cells, oppositely to the dispensability of ERO1A activity in healthy cells, renders ERO1A a perfect target for cancer therapy. Here, we report the upregulation of ERO1A in a cohort of aggressive triple-negative breast cancer (TNBC) patients in which ERO1A levels correlate with a higher risk of breast tumor recurrence and metastatic spread. For ERO1A target validation and therapy in TNBC, we designed new ERO1A inhibitors in a structure-activity campaign of the prototype EN460. Cell-based screenings showed that the presence of the Micheal acceptor in the compound is necessary to engage the cysteine 397 of ERO1A but not sufficient to set out the inhibitory effect on ERO1A. Indeed, the ERO1 inhibitor must adopt a non-coplanar rearrangement within the ERO1A binding site. I2 and I3, two new EN460 analogs with different phenyl-substituted moieties, efficiently inhibited ERO1A, blunting VEGFA secretion. Accordingly, in vitro assays to measure ERO1A engagement and inhibition confirmed that I2 and I3 bind ERO1A and restrain its activity with a IC50 in a low micromolar range. EN460, I2 and I3 triggered breast cancer cytotoxicity while specifically inhibiting ERO1A in a dose-dependent manner. I2 more efficiently impaired cancer-relevant features such as VEGFA secretion and related cell migration. I2 also acted on the tumor microenvironment and viability of xenografts and syngeneic TNBC. Thus, small molecule-mediated ERO1A pharmacological inhibition is feasible and promises to lead to effective therapy for the still incurable TNBC.
AI for glaucoma, Are we reporting well? a systematic literature review of DECIDE-AI checklist adherence
Authors: Leonard-Hawkhead Benedict , Higgins Bethany E. , Wright David , Azuara-Blanco Augusto 
Published: February 2025

Abstract

Background/Objectives
This systematic literature review examines the quality of early clinical evaluation of artificial intelligence (AI) decision support systems (DSS) reported in glaucoma care. Artificial Intelligence applications within glaucoma care are increasing within the literature. For such DSS, there needs to be standardised reporting to enable faster clinical adaptation. In May 2022, a checklist to facilitate reporting of early AI studies (DECIDE-AI) was published and adopted by the EQUATOR network.

Methods
The Cochrane Library, Embase, Ovid MEDLINE, PubMed, SCOPUS, and Web of Science Core Collection were searched for studies published between January 2020 and May 2023 that reported clinical evaluation of DSS for the diagnosis of glaucoma or for identifying the progression of glaucoma driven by AI. PRISMA guidelines were followed (PROSPERO registration: CRD42023431343). Study details were extracted and were reviewed against the DECIDE-AI checklist. The AI-Specific Score, Generic-Item Score, and DECIDE-AI Score were generated.

Results
A total of 1,552 records were screened, with 19 studies included within the review. All studies discussed an early clinical evaluation of AI use within glaucoma care, as defined by the a priori study protocol. Overall, the DECIDE-AI adherence score was low, with authors under reporting the AI specific items (30.3%), whilst adhering well to the generic reporting items (84.7%).

Conclusion
Overall, reporting of important aspects of AI studies was suboptimal. Encouraging editors and authors to incorporate the checklist will enhance standardised reporting, bolstering the evidence base for integrating AI DSS into glaucoma care workflows, thus help improving patient care and outcomes.
Monosaccharides drive Salmonella gut colonization in a context-dependent or -independent manner
Authors: Schubert Christopher , Nguyen Bidong D. , Sichert Andreas , Näpflin Nicolas , Sintsova Anna , Feer Lilith , Näf Jana , Daniel Benjamin B. J. , Steiger Yves , von Mering Christian , Sauer Uwe , Hardt Wolf-Dietrich 
Published: February 2025

Abstract
The carbohydrates that fuel gut colonization by S. Typhimurium are not fully known. To investigate this, we designed a quality-controlled mutant pool to probe the metabolic capabilities of this enteric pathogen. Using neutral genetic barcodes, we tested 35 metabolic mutants across five different mouse models with varying microbiome complexities, allowing us to differentiate between context-dependent and context-independent nutrient sources. Results showed that S. Typhimurium uses D-mannose, D-fructose and likely D-glucose as context-independent carbohydrates across all five mouse models. The utilization of D-galactose, N-acetylglucosamine and hexuronates, on the other hand, was context-dependent. Furthermore, we showed that D-fructose is important in strain-to-strain competition between Salmonella serovars. Complementary experiments confirmed that D-glucose, D-fructose, and D-galactose are excellent niches for S. Typhimurium to exploit during colonization. Quantitative measurements revealed sufficient amounts of carbohydrates, such as D-glucose or D-galactose, in the murine cecum to drive S. Typhimurium colonization. Understanding these key substrates and their context-dependent or -independent use by enteric pathogens will inform the future design of probiotics and therapeutics to prevent diarrheal infections such as non-typhoidal salmonellosis.
Virtual fragment screening for DNA repair inhibitors in vast chemical space
Authors: Luttens Andreas , Vo Duc Duy , Scaletti Emma R. , Wiita Elisée , Almlöf Ingrid , Wallner Olov , Davies Jonathan , Košenina Sara , Meng Liuzhen , Long Maeve , Mortusewicz Oliver , Masuyer Geoffrey , Ballante Flavio , Michel Maurice , Homan Evert , Scobie Martin , Kalderén Christina , Warpman Berglund Ulrika , Tarnovskiy Andrii V. , Radchenko Dmytro S. , Moroz Yurii S. , Kihlberg Jan , Stenmark Pål , Helleday Thomas , Carlsson Jens 
Published: February 2025

Abstract
Fragment-based screening can catalyze drug discovery by identifying novel scaffolds, but this approach is limited by the small chemical libraries studied by biophysical experiments and the challenging optimization process. To expand the explored chemical space, we employ structure-based docking to evaluate orders-of-magnitude larger libraries than those used in traditional fragment screening. We computationally dock a set of 14 million fragments to 8-oxoguanine DNA glycosylase (OGG1), a difficult drug target involved in cancer and inflammation, and evaluate 29 highly ranked compounds experimentally. Four of these bind to OGG1 and X-ray crystallography confirms the binding modes predicted by docking. Furthermore, we show how fragment elaboration using searches among billions of readily synthesizable compounds identifies submicromolar inhibitors with anti-inflammatory and anti-cancer effects in cells. Comparisons of virtual screening strategies to explore a chemical space of 1022 compounds illustrate that fragment-based design enables enumeration of all molecules relevant for inhibitor discovery. Virtual fragment screening is hence a highly efficient strategy for navigating the rapidly growing combinatorial libraries and can serve as a powerful tool to accelerate drug discovery efforts for challenging therapeutic targets.
Realizing four-electron conversion chemistry for all-solid-state Li||I2 batteries at room temperature
Authors: Cheng Zhu , Liu Hang , Zhang Menghang , Pan Hui , Sheng Chuanchao , Li Wei , Wagemaker Marnix , He Ping , Zhou Haoshen 
Published: February 2025

Abstract
Rechargeable Li||I2 batteries based on liquid organic electrolytes suffer from pronounced polyiodides shuttling and safety concerns, which can be potentially tackled by the use of solid-state electrolytes. However, current all-solid-state Li||I2 batteries only demonstrate limited capacity based on a two-electron I−/I2 polyiodides chemistry at elevated temperatures, preventing them from rivaling state-of-the-art lithium-ion batteries. Herein, we report a fast, stable and high-capacity four-electron solid-conversion I−/I2/I+ chemistry in all-solid-state Li||I2 batteries at room temperature. Through the strategic use of a highly conductive, chlorine-rich solid electrolyte Li4.2InCl7.2 as the catholyte, we effectively activate the I2/I+ redox couple. This activation is achieved through a robust I-Cl interhalogen interaction between I2 and the catholyte, facilitated by an interface-mediated heterogeneous oxidation mechanism. Moreover, apart from serving as Li-ion conduction pathway, the Li4.2InCl7.2 catholyte is demonstrated to show a reversible redox behavior and contribute to the electrode capacity without compromising its conductivity. Based on the I−/I2/I+ four-electron chemistry, the as-designed all-solid-state Li||I2 batteries deliver a high specific capacity of 449 mAh g-1 at 44 mA g-1 based on I2 mass and an impressive cycling stability over 600 cycles with a capacity retention of 91% at 440 mA g-1 and at 25 °C.
Impact of household size and co-resident multimorbidity on unplanned hospitalisation and transition to care home
Authors: MacRae Clare , Mercer Stewart W. , Abubakar Eleojo , Lawson Andrew , Lone Nazir , Rawlings Anna , Lyons Jane , Lyons Ronan A. , Mizen Amy , Fry Rich , Baranyi Gergő , Pearce Jamie , Dibben Chris , Modig Karin , Owen Rhiannon , Guthrie Bruce 
Published: February 2025

Abstract
The ability to manage ill health and care needs might be affected by who a person lives with. This study examined how the risk of unplanned hospitalisation and transition to living in a care home varied according to household size and co-resident multimorbidity. Here we show results from a cohort study using Welsh nationwide linked healthcare and census data, that employed multilevel multistate models to account for the competing risk of death and clustering within households. The highest rates of unplanned hospitalisation and care home transition were in those living alone. Event rates were lower in all shared households and lowest when co-residents did not have multimorbidity. These differences were more substantial for care home transition. Therefore, living alone or with co-residents with multimorbidity poses additional risk for unplanned hospitalisation and care home transition beyond an individual’s sociodemographic and health characteristics. Understanding the mechanisms behind these associations is necessary to inform targeted intervention strategies.
Neuronal hyperactivity in neurons derived from individuals with gray matter heterotopia
Authors: Di Matteo Francesco , Bonrath Rebecca , Pravata Veronica , Schmidt Hanna , Ayo Martin Ane Cristina , Di Giaimo Rossella , Menegaz Danusa , Riesenberg Stephan , de Vrij Femke M. S. , Maccarrone Giuseppina , Holzapfel Maria , Straub Tobias , Kushner Steven A. , Robertson Stephen P. , Eder Matthias , Cappello Silvia 
Published: February 2025

Abstract
Periventricular heterotopia (PH), a common form of gray matter heterotopia associated with developmental delay and drug-resistant seizures, poses a challenge in understanding its neurophysiological basis. Human cerebral organoids (hCOs) derived from patients with causative mutations in FAT4 or DCHS1 mimic PH features. However, neuronal activity in these 3D models has not yet been investigated. Here we show that silicon probe recordings reveal exaggerated spontaneous spike activity in FAT4 and DCHS1 hCOs, suggesting functional changes in neuronal networks. Transcriptome and proteome analyses identify changes in neuronal morphology and synaptic function. Furthermore, patch-clamp recordings reveal a decreased spike threshold specifically in DCHS1 neurons, likely due to increased somatic voltage-gated sodium channels. Additional analyses reveal increased morphological complexity of PH neurons and synaptic alterations contributing to hyperactivity, with rescue observed in DCHS1 neurons by wild-type DCHS1 expression. Overall, we provide new comprehensive insights into the cellular changes underlying symptoms of gray matter heterotopia.
Enhancing children’s numeracy and executive functions via their explicit integration
Authors: Scerif Gaia , Sučević Jelena , Andrews Hannah , Blakey Emma , Gattas Sylvia U. , Godfrey Amy , Hawes Zachary , Howard Steven J. , Kent Liberty , Merkley Rebecca , O’Connor Rosemary , O’Reilly Fionnuala , Simms Victoria 
Published: February 2025

Abstract
Executive functions (EF) are crucial to regulating learning and are predictors of emerging mathematics. However, interventions that leverage EF to improve mathematics remain poorly understood. 193 four-year-olds (mean age = 3 years; 11 months pre-intervention; 111 female, 69% White) were assessed 5 months apart, with 103 children randomised to an integrated EF and mathematics intervention. Our pre-registered hypotheses proposed that the intervention would improve mathematics more than practice as usual. Multi-level modelling and network analyses were applied to the data. The intervention group improved more than the control group in overall numeracy, even when controlling for differences across settings in EF and mathematics-enhancing practices. EF and mathematics measures showed greater interconnectedness post-intervention. In addition, disadvantaged children in the intervention group made greater gains than in the control group. Our findings emphasise the need to consider EFs in their integration with co-developing functions, and in their educational and socio-economic context.
Application of in-silico docking for green electrochemical quantification of prucalopride succinate in pharmaceutical, urine, and milk matrices
Authors: Mohamed Ahmed R. , Sayed Rania A. , Shalaby Abdalla , Ibrahim Hany 
Published: February 2025

Abstract
The development of ion-selective sensors as green and energy-efficient substitutes is a promising trend in today’s analytical techniques. So, three distinct polyvinyl chloride sensors modulated by ionophores of cyclodextrins (α-, β-, and γ-cyclodextrins) were built, and their composition was optimized for rapid in-situ estimation of prucalopride succinate in different matrices. The experimental work was backed up by applying molecular docking, whose results were consistent with the practical findings, offering a creative strategy to reduce the experiment’s costs and duration. According to findings, the α-cyclodextrin sensor outperformed the other proposed sensors in terms of Nernstian slope (56.87 mV/decade), linearity range (1 × 10−6 M – 1 × 10−2 M), and detection limit (7.50 × 10−7 M). For the first time and with minimal sample pre-treatment, prucalopride was quantified with excellent recoveries in dissolution media, human urine, and formula milk samples employing the proposed α-cyclodextrin sensor. The proposed three sensors were validated following IUPAC guidelines. The proposed technique, represented by the proposed three sensors, has the following merits: high sample throughput, quick analysis, high selectivity, wide linearity ranges, and low detection limits, making it apt for routine prucalopride assessment, either in QC centers or in bioavailability units, at the most affordable price. Concerning the statistical assessment, there weren’t palpable disparities in functioning between the suggested technique and the published one. Concerning green assessment, the proposed technique surpassed the published techniques in both GAPI and analytical eco-scale metrics.