Roles of the rpoEc-chrR-chrA operon in superoxide tolerance and β-lactam susceptibility of Stenotrophomonas maltophilia by Ren-Hsuan Ku, Hsu-Feng Lu, Li-Hua Li, Li-Hua Li, Ting-Yu Yeh, Yi-Tsung Lin, Yi-Tsung Lin, Tsuey-Ching Yang

“…Although it is not a photosynthetic microorganism, a rpoE-chrR homolog (smlt2377-smlt2378) was found in the S. maltophilia genome. In this study, we aimed to assess the significance of σEc-ChrR pair in oxidative stress alleviation and antibiotic susceptibility of S. maltophilia KJ.MethodsReverse transcription-polymerase chain reaction was used to validate the presence of operon. …”
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Dissemination of IncQ1 Plasmids Harboring NTE_KPC-IId in a Brazilian Hospital by Camila Maria dos Santos Boralli, Julian Andres Paganini, Rodrigo Silva Meneses, Camila Pacheco Silveira Martins da Mata, Edna Marilea Meireles Leite, Anita C. Schürch, Fernanda L. Paganelli, Rob J. L. Willems, Ilana L. B. C. Camargo

“…Different clones were selected using PFGE, and their genomes were sequenced using Illumina and Oxford Nanopore methods. …”
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First report of serological, molecular detection, and characterization of human parvovirus B19 infections among sickle cell anaemia patients in Khartoum State, Sudan by Khalid Salman, Sittna Hayder El Nagar, Abdel Rahim M. El Hussein, Mohammed A. El Hussein, Hadi M. Yassine, Hebah A. Al Khatib, Mashael Ali Al- Badr, Ibrahim Farah, Khalid A. Enan

“…The virus targets specific integration sites in the human genome, disrupting cellular division. However, the molecular mechanisms of infection remain poorly understood. …”
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N6-methyladenosine RNA modification regulates the transcription of SLC7A11 through KDM6B and GATA3 to modulate ferroptosis by Haisheng Zhang, Cheng Yi, Jianing Li, Yunqing Lu, Haoran Wang, Lijun Tao, Jiawang Zhou, Yonghuang Tan, Jiexin Li, Zhuojia Chen, Gholamreza Asadikaram, Jie Cao, Jianxin Peng, Wanglin Li, Junming He, Hongsheng Wang

“…The dm6ACRISPR system was utilized for the demethylation of specific transcripts. The Cancer Genome Atlas Program (TCGA) database and immunohistochemistry validated the role of the METTL3/SLC7A11 axis in cancer progression. …”
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Emerging Resistance and Virulence Patterns in <i>Salmonella enterica</i>: Insights into Silver Nanoparticles as an Antimicrobial Strategy by Irina Gheorghe-Barbu, Ilda Czobor Barbu, Rareș-Ionuț Dragomir, Ioana Cristina Marinaș, Miruna Silvia Stan, Radu Pericleanu, Andreea Ștefania Dumbravă, Liviu-Iulian Rotaru, Simona Paraschiv, Leontina Mirela Bănică, Ionuț Pecete, Dan Oțelea, Violeta Corina Cristea, Mircea Ioan Popa, Marilena Monica Țânțu, Marius Surleac

“…., <i>invA</i>, <i>spvC</i>, <i>pldA</i>, and <i>held</i>). Whole-genome sequencing (WGS) was performed on 19 selected isolates. …”
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Promotive effect of cancer-testis antigen CT57 on proliferation, invasion, migration and epithelial-mesenchymal transition of liver cancer cells by LUO Lange, ZHENG Chao, LEI Ming

“…Results·Bioinformatics analysis of multiple tumors and corresponding normal tissues in The Cancer Genome Atlas Program (TCGA) database showed that CT57 was highly expressed in most tumor tissues, including liver cancer, and the expression level of CT57 was significantly correlated with the prognosis of liver cancer patients. …”
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Structural and functional features of phytoene synthase isoforms PSY1 and PSY2 in pepper Capsicum annuum L. cultivars by E. A. Dyachenko, M. A. Filyushin, G. I. Efremov, E. A. Dzhos, A. V. Shchennikova, E. Z. Kochieva

“…A key regulator of carotenoid biosynthesis is the phytoene synthase encoded by the PSY gene. The Capsicum annuum genome contains two isoforms of this enzyme, localized in leaf (PSY2) and fruit (PSY1) plastids. …”
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In silico analysis of hub genes and regulatory networks implicates the putamen in non-motor Parkinson’s disease disorders by Stephen Tunmise Akanbi, Joshua Ayodele Yusuf, Thompson Oluwaferanmi Ayandele, Dayo Samson Oladipupo, Darasimi Racheal Olorunlowu, Blessing Dorcas Olawuyi, Joshua Oluwafisayo Adepoju, Dolapo Emmanuel Opasina, Elizabeth Kehinde Opoola, Uchenna Victor Ugwuanyi, Olufunto Omodele Adeleye

“…Enrichment analysis of target genes was conducted using Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG). Also, we constructed transcription factor (TF)-hub gene expression networks, miRNA-hub gene expression networks, and disease hub gene association networks using the JASPAR database, Tarbase database, and DisGeNET via NetworkAnalyst platform, respectively. …”
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Macrophage heterogeneity and oncogenic mechanisms in lung adenocarcinoma: insights from scRNA-seq analysis and predictive modeling by Han Zhang, Jiaxing Dai, Qiuqiao Mu, Xiaojiang Zhao, Ziao Lin, Ziao Lin, Kai Wang, Meng Wang, Meng Wang, Daqiang Sun

“…Data from The Cancer Genome Atlas (TCGA) was used to assess the impact of various macrophage subtypes on LUAD prognosis. …”
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Proteomic analysis of spinal dorsal horn in prior exercise protection against neuropathic pain by Binglin Chen, Jiabao Guo, Chan Gong, Chenchen Zhu, Yang Wu, Shengbo Wang, Yili Zheng, Haixia Lu

“…Gene Ontology (GO) annotations, the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways, and protein–protein interaction networks were employed to explore the biological importance of DEPs. …”
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Rumen DNA virome and its relationship with feed efficiency in dairy cows by Xiaohan Liu, Yifan Tang, Hongyi Chen, Jian-Xin Liu, Hui-Zeng Sun

“…Additionally, 2,232 vOTU-host metagenome-assembled genome (hMAG) linkages were predicted, with Firmicutes_A (33.60%) and Bacteroidota (33.24%) being the most prevalent host phyla. …”
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Expression of the NUP153 and YWHAB genes from their canonical promoters and alternative promoters of the LINE-1 retrotransposon in the placenta of the first trimester of pregnancy by V. V. Demeneva, E. N. Tolmacheva, T. V. Nikitina, E. A. Sazhenova, S. Yu. Yuriev, A. Sh. Makhmutkhodzhaev, A. S. Zuev, S. A. Filatova, A. E. Dmitriev, Ya. A. Darkova, L. P. Nazarenko, I. N. Lebedev, S. A. Vasilyev

“…The placenta has a unique hypomethylated genome. Due to this feature of the placenta, there is a potential possibility of using regulatory elements derived from retroviruses and retrotransposons, which are suppressed by DNA methylation in the adult body. …”
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Obstructive sleep apnea and structural and functional brain alterations: a brain-wide investigation from clinical association to genetic causality by Kang Wu, Qiming Gan, Yuhong Pi, Yanjuan Wu, Wenjin Zou, Xiaofen Su, Sun Zhang, Xinni Wang, Xinchun Li, Nuofu Zhang

“…Additionally, large-scale Mendelian randomization analyses were performed using genome-wide association study (GWAS) data on OSA and 3935 brain imaging-derived phenotypes (IDPs), assessed in up to 33,224 individuals between December 2023 and March 2024, to explore potential genetic causality between OSA and alterations in whole brain structure and function. …”
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Shaoyao Gancao decoction alleviates paclitaxel-induced cognitive impairment by activating PTEN/PI3K/AKT pathway to inhibit NETs formation by Xu Ying, Su Yue, Hu Yuwen, Li Xiang, Zhou Ziyan, Yuan Ningning, Ji Xiaowei, Jiang Ruoyu, Wang Wenzhu, Zhang Yafeng, Zhai Guojie, Cheng Xiaolan

“…Finally, Mendelian randomization was performed using genome-wide association analysis data of PTEN and cognitive disorders in OpenGWAS database. …”
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Methodological aspects in gastroenteric methane evaluation trial in water buffalo by Maria Chiara La Mantia, Emanuela Rossi, Francesco Cenci, David Meo Zilio, Roberto Steri, Miriam Iacurto, Antonella Chiariotti

“…It has been hypothesized that the host’s genome ultimately controls rumen microbial communities, but numerous samples are needed to achieve robust results. …”
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Integrated single-cell and bulk transcriptome analysis of R-loop score-based signature with regard to immune microenvironment, lipid metabolism and prognosis in HCC by Long Chen, Houzhi Yang, Xianfu Wei, Xianfu Wei, Jianchao Liu, Xiuxin Han, Chao Zhang, Yongheng Liu, Yan Zhang, Yao Xu, Yiqin Li, Guowen Wang, Jinyan Feng

“…Dysregulated R-loops, three-stranded nucleic acid structures associated with genome instability, play a key role in the malignant characteristics of various tumors. …”
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MTMR6 downregulation contributes to cisplatin resistance in oral squamous cell carcinoma by Kah Young Lee, Su Young Oh, Heon-Jin Lee, Tae-Geon Kwon, Jin-Wook Kim, Chang-Geol Shin, Su-Hyung Hong, So-Young Choi

“…A survival analysis based on The Cancer Genome Atlas (TCGA) head and neck squamous cell carcinoma (HNSCC) dataset was performed to evaluate the correlation between MTMR6 expression and patient outcomes following cisplatin treatment. …”
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Integrating single-cell RNA-Seq and bulk RNA-Seq data to explore the key role of fatty acid metabolism in hepatocellular carcinoma by Hua Dai, Xin Tao, Yuansen Shu, Fanrong Liu, Xiaoping Cheng, Xiushen Li, Bairui Shu, Hongcheng Luo, XuXiang Chen, Zhaorui Cheng

“…Data procurement encompassed transcriptomic and clinical datasets from HCC patients, sourced from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) repositories. …”
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miR-9-5p/HMMR regulates the tumorigenesis and progression of clear cell renal cell carcinoma through EMT and JAK1/STAT1 signaling pathway by Xinyang Niu, Dingheng Lu, Weitao Zhan, Jiazhu Sun, Yuxiao Li, Yuchen Shi, Kai Yu, Suyuelin Huang, Xueyou Ma, Xiaoyan Liu, Ben Liu

“…Methods We used The Cancer Genome Atlas (TCGA) database to preliminarily investigate HMMR expression and function in ccRCC and the data for 19 samples from the NCBI GEO database (GSE207493) for single-cell analysis. …”
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Detection of CRISPR‒Cas and type I R–M systems in Klebsiella pneumoniae of human and animal origins and their relationship to antibiotic resistance and virulence by Xue Li, Ling Wang, Jinghuan Lin, Yingjuan Gu, Zhihua Liu, Jing Hu

“…In this study, the whole genomes of 520 strains of K. pneumoniae from GenBank, including 325 from humans and 195 from animals, were collected for CRISPR‒Cas systems and type I R-M systems, virulence genes, antibiotic resistance genes, and multilocus sequence typing detection. …”
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