Genes to Cells最新文献

Knockdown of Cav2.2 Calcium Channel in Macrophages Aggravates Colitis Induced by Dextran Sodium Sulfate 葡聚糖硫酸钠诱导巨噬细胞Cav2.2钙通道下调加重结肠炎

IF 1.3 4区生物学

Genes to Cells Pub Date : 2025-09-21 DOI: 10.1111/gtc.70051

Hironao Saegusa, Xiaoxu Li, Xinshuang Wang, Tsutomu Tanabe

{"title":"Knockdown of Cav2.2 Calcium Channel in Macrophages Aggravates Colitis Induced by Dextran Sodium Sulfate","authors":"Hironao Saegusa, Xiaoxu Li, Xinshuang Wang, Tsutomu Tanabe","doi":"10.1111/gtc.70051","DOIUrl":"https://doi.org/10.1111/gtc.70051","url":null,"abstract":"<div>\u0000 \u0000 <p>Voltage-dependent calcium channels (VDCCs) have previously been thought to be functional in excitable cells, but recently accumulating evidence suggests that they are also functional in non-excitable cells such as microglia. In the present study, we investigated the role of the N-type VDCC (Cav2.2) in macrophages, a kind of non-excitable cell, in a mouse model of inflammatory bowel disease (IBD). The dextran sodium sulfate (DSS) colitis model, a widely used chemically induced model of IBD, was applied to Cav2.2 knockdown (KD) mice, where Cav2.2 expression in macrophages can be downregulated by the application of tamoxifen. After the 7 days of oral administration of 2.5% DSS, Cav2.2KD mice had a significantly higher disease activity index for colitis compared to wild-type (WT) mice, and histological examination of the colon from DSS-treated mice also suggested more severe intestinal damage in Cav2.2KD mice. Moreover, the densities of Iba1<sup>+</sup> cells (macrophages/dendritic cells) in the colon were also elevated in Cav2.2KD mice. TNFα levels were significantly higher in Cav2.2KD mice as revealed by ELISA experiments. Collectively, these data suggest that the Cav2.2KD mice had more severe colonic inflammation compared to WT mice. Therefore, Cav2.2 in macrophages may play some roles in suppressing inflammation in the intestinal immune system.</p>\u0000 </div>","PeriodicalId":12742,"journal":{"name":"Genes to Cells","volume":"30 5","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145110929","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Machine Learning Extracts Radiation Resistant-Specific EdU Fluorescence Pattern in Cancer Cells 机器学习提取肿瘤细胞抗辐射特异性EdU荧光模式。

IF 1.3 4区生物学

Genes to Cells Pub Date : 2025-09-16 DOI: 10.1111/gtc.70050

Masae Ikura, Tsuyoshi Ikura, Kanji Furuya

{"title":"Machine Learning Extracts Radiation Resistant-Specific EdU Fluorescence Pattern in Cancer Cells","authors":"Masae Ikura, Tsuyoshi Ikura, Kanji Furuya","doi":"10.1111/gtc.70050","DOIUrl":"10.1111/gtc.70050","url":null,"abstract":"<div>\u0000 \u0000 <p>The thymidine analog EdU (5-ethynyl-2-deoxyuridine) is incorporated into DNA during replication and has traditionally been used as a marker of S-phase cells. In this study, we discovered that EdU fluorescence images display substantial cell-to-cell variability, which could be classified into multiple clusters by unsupervised machine learning. This suggests that seemingly random EdU patterns contain reproducible, computationally recognizable features. Building on our observation that distinct patterns emerged in response to radiation stress, we investigated whether radioresistant cancer cells exhibit specific EdU signatures. Analysis of PLK1-overexpressing cells, which acquire radioresistance through altered DNA replication, revealed radiation-induced EdU patterns distinct from control cells. Prompted by the observation that these cells displayed markedly enlarged and intensified γ-H2AX foci, a marker of DNA damage, we employed a supervised machine learning model based on γ-H2AX patterns to isolate the radioresistant cell subpopulation. We then extracted the EdU signals from these isolated cells and, through further unsupervised machine learning, successfully identified a characteristic pattern specific to radioresistance. This establishes a machine learning framework capable of extracting universal rules from the dynamic networks that vary among individual cells, which provides a novel platform for a screening system to identify molecules involved in radioresistance, focusing on cancer heterogeneity.</p>\u0000 </div>","PeriodicalId":12742,"journal":{"name":"Genes to Cells","volume":"30 5","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-09-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145077166","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Correction to “The Meeting Report on the Fifth International Conference of the Chromosomal SMC Complexes” 更正“第五届国际染色体SMC复合体会议报告”

IF 1.3 4区生物学

Genes to Cells Pub Date : 2025-09-08 DOI: 10.1111/gtc.70048

引用次数: 0

Transcriptional Regulation of the Interferon Alpha-Inducible Protein-27 Like 2b by the Peroxisome Proliferator-Activated Receptor γ in Fatty Liver Disease 过氧化物酶体增殖物激活受体γ对脂肪肝中干扰素α诱导蛋白27样2b的转录调节

IF 1.3 4区生物学

Genes to Cells Pub Date : 2025-09-07 DOI: 10.1111/gtc.70049

Ai Sakaguchi, Daisuke Aibara, Kimihiko Matsusue

引用次数: 0

Staphylococcal γ-Hemolysin AB and γ-Hemolysin CB Differentially Activate Murine Bone Marrow-Derived Mast Cells 葡萄球菌γ-溶血素AB和γ-溶血素CB对小鼠骨髓源性肥大细胞的差异激活

IF 1.3 4区生物学

Genes to Cells Pub Date : 2025-09-03 DOI: 10.1111/gtc.70047

Hikaru Inoue, Haruka Sakakibara, Shion Kamada, Ayana Ogata, Kazuhito Hayashi, Shigeaki Hida, Saotomo Itoh

{"title":"Staphylococcal γ-Hemolysin AB and γ-Hemolysin CB Differentially Activate Murine Bone Marrow-Derived Mast Cells","authors":"Hikaru Inoue, Haruka Sakakibara, Shion Kamada, Ayana Ogata, Kazuhito Hayashi, Shigeaki Hida, Saotomo Itoh","doi":"10.1111/gtc.70047","DOIUrl":"https://doi.org/10.1111/gtc.70047","url":null,"abstract":"<div>\u0000 \u0000 <p><i>Staphylococcus aureus</i> (<i>S. aureus</i>) produces various bicomponent pore-forming toxins (PFTs), including the γ-hemolysins (HlgAB and HlgCB) and leukocidins (LukAB and LukED). This study aimed to examine the effect of PFTs on murine bone marrow-derived mast cells (BMMCs). All the PFTs assessed in this study (HlgAB, HlgCB, LukAB, and LukED) were found to bind to BMMCs. Specifically, HlgAB and LukED, but not HlgCB or LukAB, induced membrane damage. Furthermore, only HlgAB induced BMMC degranulation, whereas HlgAB and HlgCB significantly augmented the degranulation caused by ionophore, immunocomplex, and staphylococcal δ-toxin. The augmentation of degranulation by HlgAB was impaired when a pore-formation defect mutant of HlgB (HlgBΔstem) was used. Conversely, the augmentation by HlgCB was unaffected following the use of HlgBΔstem, suggesting that HlgAB but not HlgCB augments degranulation in a pore-formation-dependent manner. These results highlight the novel roles for the staphylococcal γ-hemolysins HlgAB and HlgCB, as they differentially affect the degranulation of mast cells in the effector phase of allergic inflammation.</p>\u0000 </div>","PeriodicalId":12742,"journal":{"name":"Genes to Cells","volume":"30 5","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144929715","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Loss of Nuclear Protein Dyro Causes Abnormalities in Nurse Cell Nuclei and Abort Oogenesis at Mid-Oogenesis Checkpoint 核蛋白Dyro缺失导致护士细胞核异常和卵子发生中期流产

IF 1.3 4区生物学

Genes to Cells Pub Date : 2025-09-01 DOI: 10.1111/gtc.70045

Takamoto Shima, Yuuki Kawabata, Yoshimasa Yagi

{"title":"Loss of Nuclear Protein Dyro Causes Abnormalities in Nurse Cell Nuclei and Abort Oogenesis at Mid-Oogenesis Checkpoint","authors":"Takamoto Shima, Yuuki Kawabata, Yoshimasa Yagi","doi":"10.1111/gtc.70045","DOIUrl":"https://doi.org/10.1111/gtc.70045","url":null,"abstract":"<div>\u0000 \u0000 <p>The mid-oogenesis checkpoint in <i>Drosophila melanogaster</i> functions to optimize nutrient usage by triggering abortion of oogenesis when females are starved or when developmental defects arise in the egg chamber. In the <i>Dyro</i> mutant, which encodes a nuclear factor, oogenesis is aborted during stages 8–9, corresponding to the mid-oogenesis checkpoint. To investigate the relationship between <i>Dyro</i> and this checkpoint, we analyzed the phenotype of the <i>Dyro</i> mutant. Mosaic analysis showed that loss of Dyro in germline cells results in female sterility. Although inhibition of programmed cell death suppressed germline cell death during oogenesis, it failed to rescue the fertility of <i>Dyro</i> mutants, suggesting that oogenesis arrest in the <i>Dyro</i> mutant is not due to misregulation of the cell death signal. We then examined germline cell defects in the <i>Dyro</i> mutant and observed morphological abnormalities in the nucleoli and chromosomes of nurse cells. The chromosomes in <i>Dyro</i> mutant nurse cells were not fully dispersed, and the nucleoli were confined to small spaces between thickened chromosomes. These findings suggest that <i>Dyro</i> plays an important role in nurse cells and that loss of Dyro leads to defects in the chromosomes and nuclei of nurse cells, which leads to abortion of oogenesis.</p>\u0000 </div>","PeriodicalId":12742,"journal":{"name":"Genes to Cells","volume":"30 5","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144927516","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Maturation Status of Rat Lung Epithelial Cells in Interspecies Chimeras Generated by Blastocyst Complementation 胚泡互补产生的种间嵌合体中大鼠肺上皮细胞的成熟状态

IF 1.3 4区生物学

Genes to Cells Pub Date : 2025-08-21 DOI: 10.1111/gtc.70046

Yamato Murata, Shunsuke Yuri, Masahito Ikawa, Ayako Isotani

{"title":"Maturation Status of Rat Lung Epithelial Cells in Interspecies Chimeras Generated by Blastocyst Complementation","authors":"Yamato Murata, Shunsuke Yuri, Masahito Ikawa, Ayako Isotani","doi":"10.1111/gtc.70046","DOIUrl":"https://doi.org/10.1111/gtc.70046","url":null,"abstract":"<div>\u0000 \u0000 <p>This study investigates the maturation status of rat lung epithelial cells in interspecies chimeras generated via blastocyst complementation (BC) using <i>Fgfr2b</i>-knockout mouse embryos. In our previous study, we succeeded in generating rat-derived lung epithelium in interspecies chimeras using tetraploid complementation; however, the resulting cells remained immature and failed to support respiratory function. In this study, we established two <i>Fgfr2b</i>-KO mouse lines via CRISPR/Cas9 and injected GFP-labeled rat embryonic stem (ES) cells into blastocysts, which were then transferred to pseudopregnant female mice. Comparative histological analysis of airway spaces between wild-type rat lungs (E19.5–E21.5) and BC chimeras revealed that BC lungs reached a maturation stage comparable to E20.5–E21.5 rat lungs. Quantitative Polymerase Chain Reaction of key epithelial maturation markers—including ENaC subunits, Aqp5, and surfactant protein genes—demonstrated late-gestational upregulation in wild-type rat lungs, while expression levels in BC lungs exhibited significant inter-individual variability, corresponding to stages between E19.5 and E21.5 in wild-type rats. These findings suggest that the mouse host environment may partially promote maturation of rat-derived lung epithelial cells; however, additional mechanisms are likely required to achieve functional respiratory capacity.</p>\u0000 </div>","PeriodicalId":12742,"journal":{"name":"Genes to Cells","volume":"30 5","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-08-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144885092","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

ERSAtool: A User-Friendly R/Shiny Comprehensive Transcriptomic Analysis Interface Suitable for Education ERSAtool：一个用户友好的R/Shiny综合转录组分析接口适合教育

IF 1.3 4区生物学

Genes to Cells Pub Date : 2025-08-18 DOI: 10.1111/gtc.70044

Sujith Taridalu, Ayyappa Kumar Sista Kameshwar, Masako Suzuki

{"title":"ERSAtool: A User-Friendly R/Shiny Comprehensive Transcriptomic Analysis Interface Suitable for Education","authors":"Sujith Taridalu, Ayyappa Kumar Sista Kameshwar, Masako Suzuki","doi":"10.1111/gtc.70044","DOIUrl":"https://doi.org/10.1111/gtc.70044","url":null,"abstract":"<p>RNA sequencing (RNA-seq) has become an essential technology for assessing gene expression profiles in biomedical research. However, the coding complexity of RNA-seq data analysis remains a significant barrier for students and researchers without extensive bioinformatics expertise. We present the Educational RNA-Seq Analysis tool (ERSAtool), a comprehensive R/Shiny interface that provides an intuitive graphical visualization of the complete RNA-seq analysis workflow. The application is built on established Bioconductor packages and upholds high standards in analyses while significantly reducing the technical expertise required to conduct sophisticated transcriptomic analyses. ERSAtool supports various input formats, such as raw count matrices and STAR alignment outputs. It generates sample information metadata through direct integration with the international public repository, Gene Expression Omnibus (GEO). The application guides users through normalization, data visualization, differential expression analysis, and functional interpretation using Gene Ontology and Gene Set Enrichment Analyses. All results can be compiled into comprehensive, downloadable reports that enhance reproducibility and knowledge sharing. The design targets features that support educational use, making it especially helpful for teaching transcriptomics in undergraduate to graduate-level bioinformatics courses and enhancing access to advanced transcriptomic analysis, potentially accelerating discoveries across various biological fields. ERSAtool is available for free at https://github.com/SuzukiLabTAMU/ERSAtool.</p>","PeriodicalId":12742,"journal":{"name":"Genes to Cells","volume":"30 5","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-08-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/gtc.70044","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144869494","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The Meeting Report on the Fifth International Conference of the Chromosomal SMC Complexes 第五届染色体SMC复合体国际会议报告

IF 1.3 4区生物学

Genes to Cells Pub Date : 2025-08-05 DOI: 10.1111/gtc.70039

Hironori Niki, Yasuto Murayama

引用次数: 0

Functional Differences Between SIRPα Splice Isoforms SIRPα剪接异构体的功能差异

IF 1.3 4区生物学

Genes to Cells Pub Date : 2025-08-05 DOI: 10.1111/gtc.70041

Mihoko Kajita, Yojiro Matsui, Kotaro Sugimoto, Shuto Takeuchi, Shota Matsumoto, Takahiro Okumura, Hiroyuki Kajiura, Kazuki Motomura, Atsushi Takeda, Tomomi Koshiyama, Kyoko Shirakabe

{"title":"Functional Differences Between SIRPα Splice Isoforms","authors":"Mihoko Kajita, Yojiro Matsui, Kotaro Sugimoto, Shuto Takeuchi, Shota Matsumoto, Takahiro Okumura, Hiroyuki Kajiura, Kazuki Motomura, Atsushi Takeda, Tomomi Koshiyama, Kyoko Shirakabe","doi":"10.1111/gtc.70041","DOIUrl":"https://doi.org/10.1111/gtc.70041","url":null,"abstract":"<p>Signal regulatory protein (SIRP) α, an inhibitory receptor belonging to the immunoglobulin (Ig) superfamily is abundantly expressed in phagocytes such as macrophages. CD47, the ligand for SIRPα, is expressed in most healthy cells, and called “don't eat me” signal because it binds to SIRPα on the surface of macrophages and inhibits phagocytosis. SIRPα has multiple splice isoforms, but most functional analyses have been carried out using long SIRPα, the SIRPα isoform with three extracellular Ig domains. In this study, we analyzed the expression and function of short SIRPα, an SIRPα isoform with only one extracellular Ig domain. In resting mouse macrophage Raw 264.7 cells, the short and long SIRPα mRNA expression levels were similar, and the proportion of short SIRPα mRNA decreased substantially after endotoxin stimulation. Short SIRPα bound to CD47 as same as long SIRPα, however, did not suppress the phagocytosis of recombinant CD47-coated beads, unlike long SIRPα. These results suggest that short SIRPα may be a “don't eat me” signal regulator with different expression and function from long SIRPα.</p>","PeriodicalId":12742,"journal":{"name":"Genes to Cells","volume":"30 5","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/gtc.70041","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144782757","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0