Enhanced Quinolone Resistance and Differential Expression of Efflux Pump <i>nor</i> Genes in <i>Staphylococcus aureus</i> Grown in Platelet Concentrates by Carina Paredes, Que Chi Truong-Bolduc, Yin Wang, David C. Hooper, Sandra Ramirez-Arcos

“…<b>Methods/Results</b>: Four transfusion-relevant <i>S. aureus</i> strains (TRSs) were subjected to comparative transcriptome analyses when grown in PCs vs. trypticase soy broth (TSB). …”
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The biocontrol effects and mechanisms of mycoparasitic Alternaria alternata against Chinese rose powdery mildew by Yanping Tang, Yanping Tang, Ruotian Gao, Ruotian Gao, Changle Ma, Jin Wang, Jing Li, Jing Li

“…A total of 15 GH18 family genes were mined in KMR13, and a total of 10 chitinase genes were detected to be expressed in the transcriptome under spore induction, 5 genes were consistently up-regulated for expression after induction, and 5 genes had the highest expression at 24h of induction. …”
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Knockout of bcas3 gene causes neurodevelopment defects in zebrafish by Huihui Liu, Nianyi Sun, Zhenxing Liu, Jinze Li, Xianqin Zhang

“…The bcas3 knockout zebrafish model provides a valuable tool to identify dysregulated molecular targets for therapeutic intervention during the early stages of disease progression.…”
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Genetic variants influencing liver fat in normal-weight individuals of European ancestry by Ignazio S. Piras, Janith Don, Nicholas J. Schork, Johanna K. DiStefano

“…Impact and implications: This study provides new insights into the genetic risk factors underlying metabolic dysfunction-associated steatotic liver disease in individuals with a normal BMI, a group often under-represented in steatotic liver disease research. …”
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scRNA-seq and scATAC-seq reveal that Sertoli cell mediates spermatogenesis disorders through stage-specific communications in non-obstructive azoospermia by Shimin Wang, Hongxian Wang, Bicheng Jin, Hongli Yan, Qingliang Zheng, Dong Zhao

“…Our study profiled the single-cell transcriptome of human spermatogenesis and provided many potential molecular markers for developing testicular puncture-specific marker kits for NOA patients.…”
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Identification, Classification of the MIKC-Type MADS-Box Gene Family, and Expression Analysis of Female and Male Flower Buds in Walnut (<i>Juglans regia,</i> Juglandaceae) by Caihua Guo, Olumide Phillip Fesobi, Zhongrong Zhang, Xing Yuan, Haochang Zhao, Shaowen Quan, Jianxin Niu

“…In this study, we identified 52 <i>JrMADS</i> genes in the walnut genome and transcriptome, and categorized them into 14 subfamilies through structural domain and phylogenetic tree analysis. …”
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Single-cell RNA-sequencing reveals cellular heterogeneity and immune microenvironment characteristics between ocular adnexal mucosa-associated lymphoid lymphoma and IgG4−related op... by Yu Yang, Yu Yang, Yujiao Wang, Xuelian Jin, Weimin He

“…Our results reveal the cellular composition, key pathways, and critical immune microenvironment implicated in the development of these two diseases. These findings provide important insights into the pathogenesis of these two diseases and highlight the differences between them.…”
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Genetic associations of plasma metabolites with immune cells in hyperthyroidism revealed by Mendelian randomization and GWAS-sc-eQTLs xQTLbiolinks analysis by Yutong Li, Xingyu Song, Yuyang Huang, Sifan Zhou, Linkun Zhong

“…In addition, sensitivity analyses were used to evaluate robustness, heterogeneity, and horizontal pleiotropy of results. Single-cell transcriptome-based exploration of potential key molecule and mechanism by which plasma metabolites regulated the immune cell differentiation in HD pathogenesis. …”
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Differential landscape of immune evasion in oncogenic RAS-driven primary and metastatic colorectal cancers by Emil Lou, Joanne Xiu, Yasmine Baca, Anwaar Saeed, Ajay Prakash, Sepideh Gholami, Subbaya Subramanian, Timothy K. Starr, Elisa Fontana, Ritu Pandey, Heinz-Josef Lenz, Anthony F. Shields, Chadi Nabhan, Matthew Oberley, Andreas Seeber, Wafik El-Deiry

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Genome-wide identification of key genes related to chloride ion (Cl−) channels and transporters in response to salt stress in birch by Xiuyan Bian, Tao Xie, Jiying Chen, Chunxu Li, Dandan Yin, Wenbo Zhang

“…The findings of our study can provide valuable resources for genetic improvement of salt-tolerant birch varieties for high-quality plantation forests in harsh environments.…”
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Gut microbiota dysbiosis orchestrates vitiligo-related oxidative stress through the metabolite hippuric acid by Qingrong Ni, Lin Xia, Ye Huang, Xiaoying Yuan, Weijie Gu, Yueqi Chen, Yijin Wang, Meng Nian, Shengxi Wu, Hong Cai, Jing Huang

“…Results Here, we compared transcriptome data of vitiligo lesions and normal skin and identified a high expression of oxidative stress-related genes in vitiligo lesions. …”
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Undernutrition disrupts jejunal and ileal microbiota and epithelial tissue homeostasis in a pregnant sheep model by Weibin Wu, Muhammad Faheem Akhtar, Jiahong Geng, Huizhen Lu, Muhammad Ajwad Rahim, Jianbo Cheng, Xiaoling Ding, Shengyong Mao, Yanfeng Xue

“…These affected the energy and protein system in the epithelium and reprogrammed substance metabolism and extracellular structures, which probably further influenced cell growth and immune response. These insights provide a foundation for completely clarifying the crosstalk between small intestinal microbiota and the host.…”
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Genetic dissection and validation of a new dominant QTL associated with chlorophyll content and its regulatory networks analysis in soybean by Yuxin Qi, Xiangwen Pan, Yanping Wang, Chaoyue Zhao, Tong Zhang, Xiaomei Wang, Feifei Wang

“…These findings provide valuable insights into the biological function and regulatory mechanism of chlorophyll metabolism and offer guidance for breeding soybean varieties with enhanced photosynthetic efficiency and high yield.…”
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Decreased expression of LEF1 caused defective decidualization by inhibiting IL-11 expression in patients with adenomyosis by Jingru Duan, Xiaowei Zhou, Hanfei Zhu, Mingjuan Zhou, Mengyu Liu, Yan Zhou, Wenzhu Li, Bufang Xu, Aijun Zhang

“…In vitro experiments demonstrated that LEF1 knockdown in stromal cells led to impaired decidualization. Transcriptome sequencing, dual-luciferase reporter assays, and chromatin immunoprecipitation (ChIP) experiments showed that LEF1 could bind to the promoter region of interleukin (IL)-11 and promote its transcription, and IL-11 expression was also found to be downregulated in adenomyosis patients. …”
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Genome-wide identification and analysis of the WRKY gene family in Sainfoin (Onobrychis viciifolia) and their response to drought, salt, and alkali stress by Wenxiang Li, Yinuo Yan, Yanxia Liang, Shiyao Yue, Yaling Liu, Feng Yuan, Mengrong Xu, Dengxia Yi, Jun Li, Yan Zhao, Lili Nan, Wenbo Jiang

“…Some key genes were identified based on enrichment analysis, potential protein network, and the expression under drought, salt, and alkali stress. This study provides insights into the diversity of the WRKY gene family and their roles in drought, salt, and alkali stress responses in Sainfoin.…”
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The Identification of Regulatory Genes Involved in Light-Induced Anthocyanin Accumulation in <i>Aft</i> Tomato Developing Fruits by Jiazhen Li, Ji Li, Rui Su, Haifang Yan, Fei Zhao, Qijiang Xu, Bo Zhou

“…These findings contribute to a foundational understanding of the regulatory network that influences light-induced processes and fruit development impacting anthocyanin accumulation, which will facilitate in-depth study of the functions of these identified genes and provide a foundation for breeding anthocyanin-rich tomato varieties.…”
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Investigating the shared genetic structure between rheumatoid arthritis and stroke by Qian Qin, Yong’An Jiang, Hengyi Fan, Raorao Yuan, Bo Zhong, Yichen Zhang, Zile Zhang, Xin Lei, Jianhui Cai, Shiqi Cheng

“…Conclusions The findings suggest a shared genetic structure between RA and stroke. These findings may provide new insights into RA and stroke pathogenesis, and contribute to the development of new diagnostic markers and therapeutic targeted drugs to improve the clinical outcomes of patients with RA and stroke.…”
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Central lung gene expression associates with myofibroblast features in idiopathic pulmonary fibrosis by Imre Noth, Yong Huang, Aliya N Husain, Shwu-Fan Ma, Jonathan Jou, Rob Guzy, Catherine A Bonham, Jefree J Schulte, John S Kim, Andrew J Barros, Milena S Espindola, Cory M Hogaboam, Anne I Sperling

“…Further elucidation of pathological transcriptomic state of cells in the central regions of the IPF lung that are relatively spared from morphological rearrangements may provide insights into molecular changes in the IPF progression.…”
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Exploring the response of yellow lupine (Lupinus luteus L.) root to drought mediated by pathways related to phytohormones, lipid, and redox homeostasis by Sebastian Burchardt, Małgorzata Czernicka, Agata Kućko, Wojciech Pokora, Małgorzata Kapusta, Krzysztof Domagalski, Katarzyna Jasieniecka-Gazarkiewicz, Jacek Karwaszewski, Emilia Wilmowicz

“…To understand how lupine responds to this stress, global transcriptome sequencing was conducted, along with in-depth biochemical, chromatography, and microscopy analyses of roots subjected to drought. …”
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Effects of rumen-protected lysine on antler growth performance, fecal bacterial community, and blood gene expression in sika deer by Bo Yang, Yuhang Zhu, Yongxiang Li, Yating Gao, Huazhe Si, Zhipeng Li, Zhipeng Li, Zhipeng Li, Zhipeng Li

“…Down regulated DEGs were enriched in glutathione metabolism, lysine degradation, fatty acid elongation, biosynthesis of unsaturated fatty acids, Th17 and Th2 cell differentiation.ConclusionOverall, these results provide novel insights into the effect of rumen-protected lysine supplementation on antler growth, host digestibility and metabolism, fecal microbiota, and blood transcriptome of sikadeer.…”
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