Xiaoxia Li , Qiaojing Lin , Bingyue Guan , Minghuan Yang , Xingxin Huang , Lianhuang Li , Chun Chen , Jinsheng Hong , Mingwei Zhang
{"title":"Multi-Omics Analysis Links Mitochondrial-Related Genes to Idiopathic Pulmonary Fibrosis and In Vivo Transcriptome Validation","authors":"Xiaoxia Li , Qiaojing Lin , Bingyue Guan , Minghuan Yang , Xingxin Huang , Lianhuang Li , Chun Chen , Jinsheng Hong , Mingwei Zhang","doi":"10.1016/j.trsl.2025.02.002","DOIUrl":"10.1016/j.trsl.2025.02.002","url":null,"abstract":"<div><div>Mitochondrial dysfunction is closely associated with idiopathic pulmonary fibrosis (IPF). However, the causal association between mitochondria-related genes and IPF remains to be determined. We obtained gene expression, protein abundance, and methylation quantitative trait locus data for mitochondria-related genes from previous studies. Genome-wide association study data for patients with IPF were obtained from the FinnGen study. A two-sample Mendelian randomisation analysis was conducted to assess the association between mitochondria-related genes and IPF. Furthermore, we conducted validation of expression differences utilizing transcriptome data derived from the BLM-induced pulmonary fibrosis mouse model (n=15). Concurrently, multiphoton imaging was utilized to quantify collagen contents and structural assessment. The direction of causality was verified using the Steiger test, and colocalisation analysis was used to better validate causality. Single-cell data were used to explore the localisation and expression of positive genes across different cell types. The study identified significant associations between mitochondria-related genes and IPF, with <em>POLG</em> and <em>NDUFB10</em> classified as Grade 1; <em>LYRM4, NBR1</em>, and <em>ACSF3</em> as Grade 2; <em>MCL1, GFER, MFN2, IVD</em>, and <em>SLC25A35</em> as Grade 3; and <em>METAP1D</em> and <em>MTX1</em> as Grade 4. Single-cell analysis showed elevated expression of <em>NBR1, MCL1</em>, and <em>MTX1</em> in pulmonary myofibroblasts of IPF. This study elucidated the causal effects of mitochondria-related genes on IPF, underscoring their significance in pathogenesis. These findings contribute to an improved understanding of the mechanisms underlying IPF, offering new potential therapeutic targets for interventions.</div></div>","PeriodicalId":23226,"journal":{"name":"Translational Research","volume":"278 ","pages":"Pages 10-21"},"PeriodicalIF":6.4,"publicationDate":"2025-02-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143426815","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Infectious agents in the pathogenesis of autoimmune rheumatic diseases","authors":"Aleksandra Korzeniowska, Ewa Bryl","doi":"10.1016/j.trsl.2024.12.004","DOIUrl":"10.1016/j.trsl.2024.12.004","url":null,"abstract":"<div><div>Autoimmune rheumatic diseases (AIRDs) are diseases with complex outset and courses, in which both genetic and environmental factors participate. Many environmental factors can be committed to AIRDs outset and development. The most popular of them, with confirmed impact, are smoking, age, gender, and microorganisms. In light of recent research an assumption about the importance of various microorganisms in the pathogenesis of AIRDs is growing in popularity.</div><div>The human immune system has various protective mechanisms against infectious antigens which in normal cases let organism manage potential infection faster and more effectively. Unfortunately in some situations, specific errors in those mechanisms can cause an autoreactive response despite mitigation of infection. Viruses including EBV, CMV, and even SARS-CoV2 can cause these errors. This in combination with genetic factors can lead to rheumatic disease development.</div><div>This research aims to provide a brief review of the role of viruses in the outset and development of AIRDs.</div></div>","PeriodicalId":23226,"journal":{"name":"Translational Research","volume":"276 ","pages":"Pages 39-45"},"PeriodicalIF":6.4,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142916755","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Dissecting the cellular reprogramming and tumor microenvironment in left- and right-sided Colorectal Cancer by single cell RNA sequencing","authors":"Congxue Hu, Xiaozhi Huang, Jing Chen, Weixin Liang, Kaiyue Yang, Hui Jiang, Kuan Yang, Qi Ou, Xia Li, Yunpeng Zhang","doi":"10.1016/j.trsl.2024.12.002","DOIUrl":"10.1016/j.trsl.2024.12.002","url":null,"abstract":"<div><div>Sidedness and staging are major sources of tumor microenvironment (TME) differences in colorectal cancer (CRC). Subpopulation compositions of stromal cells and immune cells, and interactions between cells collectively constitute the immunosuppressive microenvironment of CRC. In this study, we comprehensively collected single-cell RNA sequencing data from public databases. We filtered out 126,279 cells from 55 CRC samples to characterize the differences in cellular composition, and to elucidate the transcriptional features and potential functions of cell types, temporally and positionally. We observed an increased degree of hypoxia in right side-specific cancer cells compared to left-sided cancer. Cancer-associated fibroblasts (CAFs) illustrated molecular signatures tremendously tended to be associated with functions that orchestrate extracellular matrix remodeling and angiogenesis, and right-sided CAFs characterized the stronger cancer invasion signals. Crosstalk between side-specific cancer cells and stromal together with immune cells characterized CRC via different sample groups, and was pertinent to worse prognosis. Our study captured immunosuppressive pattern exhibiting more intricate intercellular interactions in right-sided CRC. Additionally, during malignant progression of CRC, the transformation of CD8+ T cell cytotoxic and exhausted properties and macrophage pro-inflammatory and anti-inflammatory properties epitomized the cellular reprogramming phenomenon that the function of TME shifted from promoting immunity to suppressive immunity. Our study shed lights on refining personalized therapeutic regimens during malignant progression in left- and right-sided CRCs.</div></div>","PeriodicalId":23226,"journal":{"name":"Translational Research","volume":"276 ","pages":"Pages 22-37"},"PeriodicalIF":6.4,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142831450","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Deborah Lenoci , Carlo Resteghini , Mara S. Serafini , Federico Pistore , Silvana Canevari , Brigette Ma , Stefano Cavalieri , Salvatore Alfieri , Annalisa Trama , Lisa Licitra , Loris De Cecco
{"title":"Corrigendum to “Tumor molecular landscape of Epstein-Barr virus (EBV) related nasopharyngeal carcinoma in EBV-endemic and non-endemic areas: Implications for improving treatment modalities” [Transl. Res. 265 (2024) 1-16]","authors":"Deborah Lenoci , Carlo Resteghini , Mara S. Serafini , Federico Pistore , Silvana Canevari , Brigette Ma , Stefano Cavalieri , Salvatore Alfieri , Annalisa Trama , Lisa Licitra , Loris De Cecco","doi":"10.1016/j.trsl.2024.12.001","DOIUrl":"10.1016/j.trsl.2024.12.001","url":null,"abstract":"","PeriodicalId":23226,"journal":{"name":"Translational Research","volume":"276 ","pages":"Page 21"},"PeriodicalIF":6.4,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142848780","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}