Research on the pathogen causing root rot on Phyllanthus emblica from the perspectives of identification, bionomics, fungicide sensitivity assay, and transcriptome analysis under d... by Yiming Zhang, Minyan Song, Minyan Song, Yonghong He, Yehua Si

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Whole-transcriptome analysis reveals the characteristics of intramuscular fat circRNA expression and its associated network in grazing yaks of different months of age under cold st... by Yaqian Liu, Yonggang Sun, Yincang Han, Weiqin Ding, Shengwei Jin, Jianyu Chen, Fajie Gou

“…Six male yaks with insignificant differences in body weights were selected as test subjects, and 3 yaks (G18_IMF) were randomly slaughtered at the beginning of the experiment, while the remaining 3 yaks were naturally grazed until 24 months of age (G24_IMF), and then slaughtered at the end of the experiment, and the intramuscular fat was collected from the dorsal muscle. …”
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Unveiling the crucial role of CD8+ T cell and endothelial cell interaction in rheumatoid arthritis through the integrated analysis of spatial transcriptomics and bulk/single-cell R... by Yu Lai, Zishao Zhong, Runze Li, Tuliang Liang, Xizi He, Yuan Liu, Hao Yu, Chuanhai Zhang, Yao Xiao, Liang Liu, Hudan Pan

“…Background: Rheumatoid arthritis (RA) is a prevalent chronic autoimmune disease. While the chemokine signaling pathway plays a pivotal role in RA pathogenesis, the specific cellular interactions remain unclear. …”
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Utilizing Multi-Omics Analysis to Elucidate the Molecular Mechanisms of Oat Responses to Drought Stress by Xiaojing Chen, Jinghui Liu, Baoping Zhao, Junzhen Mi, Zhongshan Xu

“…After 7 days of stress, root samples were collected for transcriptome and proteome analyses. Transcriptome analysis revealed that under moderate stress, JIA2 upregulated 1086 differential genes and downregulated 2919 differential genes, while under severe stress, it upregulated 1792 differential genes and downregulated 4729 differential genes. …”
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The cAMP responsive element modulator (CREM) transcription factor influences susceptibility to undernutrition and infection by Audrey C. Brown, Md. Jashim Uddin, Rebecca M. Munday, Farha Naz, G. Brett Moreau, Girija Ramakrishnan, Stephen S. Rich, Rashidul Haque, Genevieve L. Wojcik, Priya Duggal, Chelsea Marie, William A. Petri

“…DEGs related to mitochondrial function were upregulated in the small intestine of children with the rs2148483 reference allele, while adaptive immune response processes were enriched among downregulated genes. …”
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Salidroside ameliorates abnormalities in electrophysiological indices induced by perfusion of the heart with low-potassium solutions by Ruoning Yang, Ruoning Yang, Ruoning Yang, Chi Yan, Chi Yan, Chi Yan, Yifeng Zhou, Yifeng Zhou, Yifeng Zhou, Wenyuan Li, Wenyuan Li, Wenyuan Li, Gongxin Wang, Gongxin Wang, Gongxin Wang, Gongxin Wang, Huan Li, Huan Li, Huan Li, Fei Lin, Fei Lin, Fei Lin, Guoliang Hao, Guoliang Hao, Guoliang Hao, Guoliang Hao

“…Hypokalemia (3.5–2.0 mmol/L) dose-dependently triggered abnormal arrhythmias and increased the incidence of arrhythmias, while SAL (5 ug/ml) improved this situation. Transcriptomics revealed that hypokalemia upregulated Mt-nd6 and disrupted the inflammatory/immune pathways, while SAL reversed these changes and activated PPAR-related genes. …”
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Exploring the Therapeutic Potential of the DOT1L Inhibitor EPZ004777 Using Bioinformatics and Molecular Docking Approaches in Acute Myeloid Leukemia by Mehmet Kivrak, Ihsan Nalkiran, Hatice Sevim Nalkiran

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Using molecular methods to diagnose, classify, and treat neonatal sepsis: a scoping review by Catherine Y. Lee, Sidney E. Zven, Shreyas A. Sathya, Danielle Abukhalaf, Sneha Sahoo, Pratyusha Samal, Stephanie M. Prescott

“…Of 1,043 articles screened, 30 were included in the final review.ResultsThe gut microbiome is associated with both pathogenicity and protection in the setting of neonatal sepsis, while expression levels of immune response and regulation help classify neonatal response to septic events. …”
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Differential effects of short-term and long-term ketogenic diet on gene expression in the aging mouse brain by Matthew S. Stratton, José Alberto López-Domínguez, Alessandro Canella, Jon J. Ramsey, Gino A. Cortopassi

“…Conclusions: This work informs target identification efforts for aging and neurodegenerative disorder therapeutics discovery while also establishing differential effects of short-term vs long-term KD on gene expression in the brain.…”
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Spatial distribution of maternal factors in pig mature oocytes by Fuquan Zhu, Meng Yang, Dayu Wang, Yuan Jiang, Chao Jia, Yanfeng Fu, Aochen Yu, Huijun Liu, Meixia Wang, Tingzhang Wang, Honglin Liu, Juan Li

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Exploring RNA cargo in extracellular vesicles for pleural mesothelioma detection by Agnieszka Kraft, Michaela B. Kirschner, Vanessa Orlowski, Manuel Ronner, Caroline Bodmer, Valentina Boeva, Isabelle Opitz, Mayura Meerang

“…In this study, we characterized the transcriptomic profile of EVs secreted by PM primary cells and explored their potential as a biomarker source for PM detection. …”
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Usnic acid impacts energy production and iron metabolism in Mycobacterium tuberculosis H37Rv by Rafał Sawicki, Anna Zabost, Grzegorz Jankowski, Ewa Augustynowicz-Kopeć, Wiesław Truszkiewicz, Elwira Sieniawska

“…By combining lipidomic and transcriptomic analyses, we uncovered the impact of usnic acid on bacterial metabolism. …”
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Identification and validation of biomarkers, construction of diagnostic models, and investigation of immunological infiltration characteristics for idiopathic frozen shoulder by Han-tao Jiang, Li-ping Shen, Meng-Qi Pang, Min-jiao Wu, Jiang Li, Wei-jie Gong, Gang Jin, Rang-teng Zhu

“…Therefore, we aimed to explore the diagnostic biomarkers and potential mechanisms of FS from a transcriptomics perspective.MethodsTotal RNA was extracted from tissue samples of 15 FS and 11 controls. …”
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Dual roles of Anisakis pegreffii proteins in macrophage immune dynamics by Min-hao Zeng, Min-hao Zeng, Min-hao Zeng, Sarah Alsobaie, Xiao-xu Wang, Shan Li, Fahad M. Aldakheel, Mourad A. M. Aboul-Soud, Wei-bin Liu

“…Conversely, glycoproteins suppressed TNF-α transcription and reduced IL-4-induced Arg-1 expression, displaying immunosuppression. Transcriptomics analysis found that ABP enriched TNF and hematopoietic pathways, with IL6 and IL1β as key pro-inflammatory genes. …”
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Permanent crop cover as a strategy for drought-resistant viticulture: insights on how rhizosphere metagenomics influences leaf-level -omics for an enhanced overall plant response by Iván Jáuregui, María Ancín, José M. García-Mina, José M. García-Mina, Angel M. Zamarreño, Angel M. Zamarreño, Ariadna Iglesias-Sanchez, Ariadna Iglesias-Sanchez, Igor Florez-Sarasa, Igor Florez-Sarasa, Iker Aranjuelo

“…Through comprehensive examinations of gas exchange, isotopic analysis, metabolomics, transcriptomics, and soil metagenomics, this study clarifies the relationships among irrigation methodologies, photosynthesis, and soil health, ultimately aiding in the fortification of agricultural resilience in the face of climate change. …”
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Galangin reduces MPTP-induced dopamine neuron injury via the autophagy dependent-PI3K/AKT pathway by Liping Huang, Liping Huang, Qiaofeng Li, Jingyi Wu, Yingying He, Junwei Huang, Sipeng Xie, Canfeng Yang, Qingling Ruan, Zhongliu Zhou, Minzhen Deng, Minzhen Deng

“…Additionally, Galangin suppressed mRNA expression of PD markers (IL-1β, TNF-α, IL-6, SRC and PTGS2), elevated protein levels of GSH-Px, SOD, P-PI3K, P-CREB, P-AKT, TH, BDNF and P62, while decreasing α-syn, SRC, MDA, Beclin-1 and LC3B expression. …”
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Metabolic mapping of the human solute carrier superfamily by Tabea Wiedmer, Shao Thing Teoh, Eirini Christodoulaki, Gernot Wolf, Chengzhe Tian, Vitaly Sedlyarov, Abigail Jarret, Philipp Leippe, Fabian Frommelt, Alvaro Ingles-Prieto, Sabrina Lindinger, Barbara M G Barbosa, Svenja Onstein, Christoph Klimek, Julio Garcia, Iciar Serrano, Daniela Reil, Diana Santacruz, Mary Piotrowski, Stephen Noell, Christoph Bueschl, Huanyu Li, Gamma Chi, Stefan Mereiter, Tiago Oliveira, Josef M Penninger, David B Sauer, Claire M Steppan, Coralie Viollet, Kristaps Klavins, J Thomas Hannich, Ulrich Goldmann, Giulio Superti-Furga

“…Targeted metabolomics provided a fingerprint of 189 intracellular metabolites, while transcriptomics offered insights into cellular programs modulated by SLC expression. …”
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The mechanism by which oriented polypropylene packaging alleviates postharvest ‘Black Spot’ in radish root (Raphanus sativus) by Zixin Lin, Bihong Feng, Shibei Fang, Xi Pang, Huafeng Liang, Shuzhi Yuan, Xiaodi Xu, Jinhua Zuo, Xiaozhen Yue, Qing Wang

“…Conclusion: PVC packaging enhanced the postharvest onset of ‘black spot’ in radishes, while OPP packaging delayed both its onset and development. …”
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Rapgef3 modulates macrophage reprogramming and exacerbates synovitis and osteoarthritis under excessive mechanical loading by Wen Tang, Jian-bin Yin, Ren-gui Lin, Chun-yu Wu, Jia-luo Huang, Jin-jian Zhu, Ling-feng Yang, Guang-ming Li, Dao-zhang Cai, Liang-liang Liu, Yan-li Liu, Hai-yan Zhang

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Identification of key transcription factors, including DAL80 and CRZ1, involved in heat and ethanol tolerance in Saccharomyces cerevisiae by Rong-Rong Chen, Li Wang, Xue-Xue Ji, Cai-Yun Xie, Yue-Qin Tang

“…In this study, the tolerance mechanisms of the multi-tolerant S. cerevisiae strain E-158 to heat stress and combined heat-ethanol stress were investigated using comparative transcriptomics. Results Under heat stress at 44 °C, glucose transport and reactive oxygen species (ROS) scavenging were significantly upregulated, while gluconeogenesis, acetate formation, and dNDP formation showed significant downregulation. …”
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