bluuebunny/crossref_metadata_2025_split huggingface dataset:
FBXO31 is upregulated by METTL3 to promote pancreatic cancer progression via regulating SIRT2 ubiquitination and degradation
Authors: Chen Kai , Wang Yue , Dai Xingna , Luo Jingjing , Hu Shangshang , Zhou Zhihui , Shi Jinglong , Pan Xueshan , Cao Tong , Xia Jun , Li Yuyun , Wang Zhiwei , Ma Jia 
Published: January 2024

AbstractFBXO31, a member of F-box family to comprise of SCF complex, contributes to a pivotal role in cancer progression. However, the possible involvements of FBXO31 in PC are unelucidated. Here, we reported that FBXO31 was overexpressed in PC patients, which was negatively associated with survival in PC patients. Furthermore, FBXO31 significantly enhanced growth, migration and invasion of PC cells in vitro. Consistently, FBXO31 overexpression promoted tumor growth in nude mice. Mechanistically, SIRT2 was a target of FBXO31 and interacted with FBXO31. Protein half-life and ubiquitination analysis demonstrated that FBXO31 promoted proteasome-dependent degradation of SIRT2. In addition, FBXO31 binds to sirtuin-type domain of SIRT2. Moreover, SIRT2 is required for the oncogenic role of FBXO31 in PC progression. Impressively, METTL3 induced m6A modification of FBXO31 and up-regulated FBXO31 expression, subsequently leading to SIRT2 down-regulation in PC cells. The results showed that METTL3 enhanced FBXO31 mRNA translation in YTHDF1-dependent manner. Taken together, we suggest that METTL3–FBXO31–SIRT2 axis was involved in PC tumorigenesis, which could identify new targets for PC treatment.
Germline specific genes increase DNA double-strand break repair and radioresistance in lung adenocarcinoma cells
Authors: Liu Wenqing , Bruggeman Jan Willem , Lei Qijing , van Pelt Ans M. M. , Koster Jan , Hamer Geert 
Published: January 2024

AbstractIn principle, germline cells possess the capability to transmit a nearly unaltered set of genetic material to infinite future generations, whereas somatic cells are limited by strict growth constraints necessary to assure an organism’s physical structure and eventual mortality. As the potential to replicate indefinitely is a key feature of cancer, we hypothesized that the activation of a “germline program” in somatic cells can contribute to oncogenesis. Our group recently described over one thousand germline specific genes that can be ectopically expressed in cancer, yet how germline specific processes contribute to the malignant properties of cancer is poorly understood. We here show that the expression of germ cell/cancer (GC) genes correlates with malignancy in lung adenocarcinoma (LUAD). We found that LUAD cells expressing more GC genes can repair DNA double strand breaks more rapidly, show higher rates of proliferation and are more resistant to ionizing radiation, compared to LUAD cells that express fewer GC genes. In particular, we identified the HORMA domain protein regulator TRIP13 to be predominantly responsible for this malignant phenotype, and that TRIP13 inhibition or expression levels affect the response to ionizing radiation and subsequent DNA repair. Our results demonstrate that GC genes are viable targets in oncology, as they induce increased radiation resistance and increased propagation in cancer cells. Because their expression is normally restricted to germline cells, we anticipate that GC gene directed therapeutic options will effectively target cancer, with limited side effects besides (temporary) infertility.
Activated hepatic stellate cell-derived Bmp-1 induces liver fibrosis via mediating hepatocyte epithelial-mesenchymal transition
Authors: Wan Sizhe , Liu Xianzhi , Sun Ruonan , Liu Huiling , Jiang Jie , Wu Bin 
Published: January 2024

AbstractLiver fibrosis is a reparative response to injury that arises from various etiologies, characterized by activation of hepatic stellate cells (HSCs). Periostin, a secreted matricellular protein, has been reported to participate in tissue development and regeneration. However, its involvement in liver fibrosis remains unknown. This study investigated the roles and mechanisms of Periostin in phenotypic transition of HSCs and relevant abnormal cellular crosstalk during liver fibrosis. The fate of hepatic stellate cells (HSCs) during liver fibrogenesis was investigated using single-cell and bulk RNA sequencing profiles, which revealed a significant proliferation of activated HSCs (aHSCs) in fibrotic livers of both humans and mice. αSMA-TK mice were used to demonstrate that depletion of proliferative aHSCs attenuates liver fibrosis induced by carbon tetrachloride and 3,5-diethoxycarbonyl-1,4-dihydrocollidine. Through integrating data from single-cell and bulk sequencing, Periostin was identified as a distinctive hallmark of proliferative aHSC subpopulation. Elevated levels of Periostin were detected in fibrotic livers of both humans and mice, primarily within aHSCs. However, hepatic Periostin levels were decreased along with depletion of proliferative aHSCs. Deficiency of Periostin led to reduced liver fibrosis and suppressed hepatocyte epithelial-mesenchymal transition (EMT). Periostin-overexpressing HSCs, exhibiting a proliferative aHSC phenotype, release bone morphogenetic protein-1 (Bmp-1), which activates EGFR signaling, inducing hepatocyte EMT and contributing to liver fibrosis. In conclusion, Periostin in aHSCs drives their acquisition of a proliferative phenotype and the release of Bmp-1. Proliferative aHSC subpopulation-derived Bmp-1 induces hepatocyte EMT via EGFR signaling, promoting liver fibrogenesis. Bmp-1 and Periostin should be potential therapeutic targets for liver fibrosis.
Extracellular vesicle-mediated ferroptosis, pyroptosis, and necroptosis: potential clinical applications in cancer therapy
Authors: Yang Yi-Chi , Jiang Qian , Yang Ke-Ping , Wang Lingzhi , Sethi Gautam , Ma Zhaowu 
Published: January 2024

AbstractExtracellular vesicles (EVs) have gained increasing recognition as significant regulators of intercellular communication in various physiological and pathological processes. These vesicles play a pivotal role in cancer progression by facilitating the transfer of diverse cargoes, including lipids, proteins, and nucleic acids. Regulated cell death (RCD), the orderly and autonomous death of cells, is controlled by a variety of biomacromolecules and, in turn, influences various biological processes and cancer progression. Recent studies have demonstrated that EV cargoes regulate diverse oncogenes and tumor suppressors to mediate different nonapoptotic forms of RCD, notably ferroptosis, pyroptosis, and necroptosis. Nevertheless, comprehensive exploration of EV-mediated nonapoptotic RCD forms in the context of cancer has not been performed. This review summarizes the progress regarding the biological functions and underlying mechanisms of EVs in mediating nonapoptotic RCD by delivery of cargoes to regulate tumor progression. Additionally, the review delves into the potential clinical applications of EV-mediated cell death and its significance in the areas of cancer diagnosis and therapy.
Leveraging mechanochemistry for sustainable polymer degradation
Authors: Aydonat Simay , Hergesell Adrian H. , Seitzinger Claire L. , Lennarz Regina , Chang George , Sievers Carsten , Meisner Jan , Vollmer Ina , Göstl Robert 
Published: January 2024

AbstractOver 8 billion tons of plastic have been produced to date, and a 100% reclamation recycling strategy is not foreseeable. This review summarizes how the mechanochemistry of polymers may contribute to a sustainable polymer future by controlling the degradation not only of de novo developed designer polymers but also of plastics in existing waste streams. The historical development of polymer mechanochemistry is presented while highlighting current examples of mechanochemically induced polymer degradation. Additionally, theoretical and computational frameworks are discussed that may lead to the discovery and better understanding of new mechanochemical reactions in the future. This review takes into account technical and engineering perspectives converging the fields of trituration and polymer mechanochemistry with a particular focus on the fate of commodity polymers and potential technologies to monitor mechanochemical reactions while they occur. Therefore, a unique perspective of multiple communities is presented, highlighting the need for future transdisciplinary research to tackle the high-leverage parameters governing an eventually successful mechanochemical degradation approach for a circular economy.
Mutant KRAS-activated circATXN7 fosters tumor immunoescape by sensitizing tumor-specific T cells to activation-induced cell death
Authors: Zhou Chi , Li Wenxin , Liang Zhenxing , Wu Xianrui , Cheng Sijing , Peng Jianhong , Zeng Kaixuan , Li Weihao , Lan Ping , Yang Xin , Xiong Li , Zeng Ziwei , Zheng Xiaobin , Huang Liang , Fan Wenhua , Liu Zhanzhen , Xing Yue , Kang Liang , Liu Huashan 
Published: January 2024

AbstractMutant KRAS (KRASMUT) is often exploited by cancers to shape tumor immunity, but the underlying mechanisms are not fully understood. Here we report that tumor-specific cytotoxic T lymphocytes (CTLs) from KRASMUT cancers are sensitive to activation-induced cell death (AICD). circATXN7, an NF-κB-interacting circular RNA, governs T cell sensitivity to AICD by inactivating NF-κB. Mechanistically, histone lactylation derived from KRASMUT tumor cell-produced lactic acid directly activates transcription of circATXN7, which binds to NF-κB p65 subunit and masks the p65 nuclear localization signal motif, thereby sequestering it in the cytoplasm. Clinically, circATXN7 upregulation in tumor-specific CTLs correlates with adverse clinical outcomes and immunotherapeutic resistance. Genetic ablation of circAtxn7 in CD8+ T cells leads to mutant-selective tumor inhibition, while also increases anti-PD1 efficacy in multiple tumor models in female mice. Furthermore, targeting circATXN7 in adoptively transferred tumor-reactive CTLs improves their antitumor activities. These findings provide insight into how lymphocyte-expressed circRNAs contribute to T-cell fate decisions and anticancer immunotherapies.
Plant macrofossil data for 48-0 ka in the USGS North American Packrat Midden Database, version 5.0
Authors: Strickland Laura E. , Thompson Robert S. , Shafer Sarah L. , Bartlein Patrick J. , Pelltier Richard T. , Anderson Katherine H. , Schumann R. Randall , McFadden Andrew K. 
Published: January 2024

AbstractPlant macrofossils from packrat (Neotoma spp.) middens provide direct evidence of past vegetation changes in arid regions of North America. Here we describe the newest version (version 5.0) of the U.S. Geological Survey (USGS) North American Packrat Midden Database. The database contains published and contributed data from 3,331 midden samples collected in southwest Canada, the western United States, and northern Mexico, with samples ranging in age from 48 ka to the present. The database includes original midden-sample macrofossil counts and relative-abundance data along with a standardized relative-abundance scheme that makes it easier to compare macrofossil data across midden-sample sites. In addition to the midden-sample data, this version of the midden database includes calibrated radiocarbon (14C) ages for the midden samples and plant functional type (PFT) assignments for the midden taxa. We also provide World Wildlife Fund ecoregion assignments and climate and bioclimate data for each midden-sample site location. The data are provided in tabular (.xlsx), comma-separated values (.csv), and relational database (.mdb) files.
A bite force database of 654 insect species
Authors: Rühr Peter Thomas , Edel Carina , Frenzel Melina , Blanke Alexander 
Published: January 2024

AbstractBite force is a decisive performance trait in animals because it plays a role for numerous life history components such as food consumption, inter- and intraspecific interactions, and reproductive success. Bite force has been studied across a wide range of vertebrate species, but only for 32 species of insects, the most speciose animal lineage. Here we present the insect bite force database with bite force measurements for 654 insect species covering 476 genera, 111 families, and 13 orders with body lengths ranging from 3.76 to 180.12 mm. In total we recorded 1906 bite force series from 1290 specimens, and, in addition, present basal head, body, and wing metrics. As such, the database will facilitate a wide range of studies on the characteristics, predictors, and macroevolution of bite force in the largest clade of the animal kingdom and may serve as a basis to further our understanding of macroevolutionary processes in relation to bite force across all biting metazoans.
An electricity smart meter dataset of Spanish households: insights into consumption patterns
Authors: Quesada Carlos , Astigarraga Leire , Merveille Chris , Borges Cruz E. 
Published: January 2024

AbstractSmart meters are devices that provide detailed information about the energy consumed by specific electricity supply points, such as homes, offices, and businesses. Data from smart meters are useful for modeling energy systems, predicting electricity consumption, and understanding human behavior. We present the first smart meter dataset from Spanish electricity supply points, expanding the geographic diversity of available data on energy consumption at the household level and reducing biases in existing data, which typically come from a limited number of countries. The dataset consists of 25,559 raw hourly time series with an average length of nearly three years, spanning from November 2014 to June 2022. It also includes three subsets obtained by segmenting and cleaning the raw time series data, each focusing on the periods before, during, and after the COVID-19 lockdowns in Spain. This dataset is a valuable resource for studying electricity consumption patterns and behaviors that emerge in response to different natural experiments, such as nationwide and regional lockdowns, nighttime curfews, and changes in electricity pricing.
Genomic resources for a historical collection of cultivated two-row European spring barley genotypes
Authors: Schreiber Miriam , Wonneberger Ronja , Haaning Allison M. , Coulter Max , Russell Joanne , Himmelbach Axel , Fiebig Anne , Muehlbauer Gary J. , Stein Nils , Waugh Robbie 
Published: January 2024

AbstractBarley genomic resources are increasing rapidly, with the publication of a barley pangenome as one of the latest developments. Two-row spring barley cultivars are intensely studied as they are the source of high-quality grain for malting and distilling. Here we provide data from a European two-row spring barley population containing 209 different genotypes registered for the UK market between 1830 to 2014. The dataset encompasses RNA-sequencing data from six different tissues across a range of barley developmental stages, phenotypic datasets from two consecutive years of field-grown trials in the United Kingdom, Germany and the USA; and whole genome shotgun sequencing from all cultivars, which was used to complement the RNA-sequencing data for variant calling. The outcomes are a filtered SNP marker file, a phenotypic database and a large gene expression dataset providing a comprehensive resource which allows for downstream analyses like genome wide association studies or expression associations.
Developing an advanced prediction model for new employee turnover intention utilizing machine learning techniques
Authors: Park Jungryeol , Feng Yituo , Jeong Seon-Phil 
Published: January 2024

AbstractIn recent years, the turnover phenomenon of new college graduates has been intensifying. The turnover of new employees creates many difficulties for businesses as it is difficult to recover the costs spent on their hiring and training. Therefore, it is necessary to promptly identify and effectively manage new employees who are inclined to change jobs. So far previous studies related to turnover intention have contributed to understanding the turnover phenomenon of new employees by identifying factors influencing turnover intention. However, with these factors, there is a limitation that it has not been able to present how much it is possible to predict employees who are actually willing to change jobs. Therefore, this study proposes a method of developing a machine learning-based turnover intention prediction model to overcome the limitations of previous studies. In this study, data from the Korea Employment Information Service's Job Movement Path Survey for college graduates were used, and OLS regression analysis was performed to confirm the influence of predictors. And model learning and classification were performed using a logistic regression (LR), k-nearest neighbor (KNN), and extreme gradient boosting (XGB) classifier. A novel finding of this research is the diminished or reversed influence of certain traditional factors, such as workload importance and the relevance of one's major field, on turnover intention. Instead, job security emerged as the most significant predictor. The model's accuracy rates, highest with XGB at 78.5%, demonstrate the efficacy of applying machine learning in turnover intention prediction, marking a significant advancement over traditional econometric models. This study breaks new ground by integrating advanced predictive analytics into turnover intention research, offering a more nuanced understanding of the factors influencing the turnover intentions of new college graduates. The insights gained could guide organizations in effectively managing and retaining new talent, highlighting the need for a focus on job security and organizational satisfaction, and the shifting relevance of traditional factors like job preference.
MedGAN: optimized generative adversarial network with graph convolutional networks for novel molecule design
Authors: Macedo Bruno , Ribeiro Vaz Inês , Taveira Gomes Tiago 
Published: January 2024

AbstractGenerative Artificial Intelligence can be an important asset in the drug discovery process to meet the demand for novel medicines. This work outlines the optimization and fine-tuning steps of MedGAN, a deep learning model based on Wasserstein Generative Adversarial Networks and Graph Convolutional Networks, developed to generate new quinoline-scaffold molecules from complex molecular graphs, including hyperparameter adjustments and evaluations of drug-likeness attributes such as pharmacokinetics, toxicity, and synthetic accessibility. The best model was capable of generating 25% valid molecules, 62% fully connected, from which 92% were quinolines, 93% were novel, and 95% unique, preserving chirality, atom charge, and favorable drug-like properties while generating 4831 novel quinolines. These results provide valuable insights into how activation functions, optimizers, learning rates, neuron units, molecule size and constitution, and scaffold structure affect the performance of generative models and their potential to create new molecular structures, enhancing deep learning applications in computational drug design.
The ultrastructure of nymphal dermal pores and the genitalia of adult male of Phenacoccus solenopsis (Hemiptera: Pseudococcidae)
Authors: Abd El-Ghany Nesreen M. , Abd El-Aziz Shadia E. , Faucheux Michel J. 
Published: January 2024

AbstractThe cotton mealybug, Phenacoccus solenopsis, has established itself as an invasive insect pest worldwide. It causes structural and physiological damage to various crops and can cause substantial financial losses in their production. The successful reproduction of this pest under a wide range of conditions is a key to its success. Despite this, the morphology of its genitalia, genital sensilla, and wax-producing dermal pores has received little attention, with little descriptions of their ultrastructure. By investigating those features with SEM, the present study revealed considerable new insights into the identification of the nymphal and adult stages of P. solenopsis. In addition, the description of the ultrastructural genital morphology of the immature stages of P. solenopsis has revealed characteristics that facilitate their discrimination. Trilocular pores were observed on both sides of the body, while the quinquelocular pores were distributed only on the ventral surface in both the first and second nymphal instars. The adult male is characterized by two pairs of waxy caudal filaments surrounded by clusters of 55 to 60 stellate pores, and each pregenital segment bears a pair of stellate pores composed of 4 or 5 peripheral loculi. Sensilla trichodea and numerous microtrichia are present on the pregenital segments. The penile sheath bears three subtypes of sensilla basiconica and also campaniformia, whereas the style bears three subtypes of sensilla campaniformia. The findings of this study could assist in the identification of the adult and nymphal stages of P. solenopsis, and also provide insights into the structures found on the genitalia of the adult male that possibly have an important role in mating events and copulatory behavior. Furthermore, these findings were able to contribute to better understanding the functional morphology of P. solenopsis.
Exogenous melatonin induces salt and drought stress tolerance in rice by promoting plant growth and defense system
Authors: Khan Zakirullah , Jan Rahmatullah , Asif Saleem , Farooq Muhammad , Jang Yoon-Hee , Kim Eun-Gyeong , Kim Nari , Kim Kyung-Min 
Published: January 2024

AbstractDue to global climate change, crops are certainly confronted with a lot of abiotic and biotic stress factors during their growth that cause a serious threat to their development and overall productivity. Among different abiotic stresses, salt and drought are considered the most devastating stressors with serious impact on crop’s yield stability. Here, the current study aimed to elucidate how melatonin works in regulating plant biomass, oxidative stress, antioxidant defense system, as well as the expression of genes related to salt and drought stress in rice plants. Eight groups of rice plants (3 replicates, 5 plants each) underwent varied treatments: control, melatonin, salt, drought, salt + drought, salt + melatonin, drought + melatonin, and salt + drought + melatonin. Melatonin (100 µM) was alternately applied a week before stress exposure; salt stress received 100 mM NaCl every 3 days for 3 weeks, and drought stress involved 10% PEG. Young leaves were randomly sampled from each group. The results showed that melatonin treatment markedly reduces salt and drought stress damage by promoting root, shoot length, fresh and dry weight, increasing chlorophyll contents, and inhibiting excessive production of oxidative stress markers. Salt and drought stress significantly decreased the water balance, and damaged cell membrane by reducing relative water contents and increasing electrolyte leakage. However, melatonin treated rice plants showed high relative water contents and low electrolyte leakage. Under salt and drought stress conditions, exogenous application of melatonin boosted the expression level of salt and drought stress responsive genes like OsSOS, OsNHX, OsHSF and OsDREB in rice plants. Taken together, our results reveal that melatonin treatment significantly increases salt and drought tolerance of rice plants, by increasing plant biomass, suppressing ROS accumulation, elevating antioxidants defense efficiency, and up-regulating the expression of salt and drought stress responsive genes.