Felix Clemens Richter, Mariia Saliutina, Ahmed N. Hegazy, Andreas Bergthaler
{"title":"Take my breath away—mitochondrial dysfunction drives CD8+ T cell exhaustion","authors":"Felix Clemens Richter, Mariia Saliutina, Ahmed N. Hegazy, Andreas Bergthaler","doi":"10.1038/s41435-023-00233-8","DOIUrl":"10.1038/s41435-023-00233-8","url":null,"abstract":"","PeriodicalId":12691,"journal":{"name":"Genes and immunity","volume":"25 1","pages":"4-6"},"PeriodicalIF":5.0,"publicationDate":"2024-01-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.com/articles/s41435-023-00233-8.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139520597","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Interleukin-18 produced by gastric epithelial cells protects against pre-neoplastic lesions in Helicobacter pylori infection in mice","authors":"Xiaohu Zhao, Dongmei Tong, Richard L. Ferrero","doi":"10.1038/s41435-024-00253-y","DOIUrl":"10.1038/s41435-024-00253-y","url":null,"abstract":"","PeriodicalId":12691,"journal":{"name":"Genes and immunity","volume":"25 4","pages":"346-347"},"PeriodicalIF":5.0,"publicationDate":"2024-01-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139511887","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Yi Yao, KaiQing Yang, Qiang Wang, Zeming Zhu, Sheng Li, Bin Li, Bin Feng, Caixi Tang
{"title":"Prediction of CAF-related genes in immunotherapy and drug sensitivity in hepatocellular carcinoma: a multi-database analysis","authors":"Yi Yao, KaiQing Yang, Qiang Wang, Zeming Zhu, Sheng Li, Bin Li, Bin Feng, Caixi Tang","doi":"10.1038/s41435-024-00252-z","DOIUrl":"10.1038/s41435-024-00252-z","url":null,"abstract":"This study aims to identify the cancer-associated fibroblasts (CAF)-related genes that can affect immunotherapy and drug sensitivity in hepatocellular carcinoma (HCC). Expression data and survival data associated with HCC were obtained in The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) databases. Weighted correlation network analysis (WGCNA) analysis was performed to obtain CAF-related genes. Least Absolute Shrinkage and Selection Operator (LASSO) regression was used for regression analysis and risk models. Subsequently, Gene Set Enrichment Analysis (GSEA) analysis, Gene Set Enrichment Analysis (ssGSEA) analysis, Tumor Immune Dysfunction and Exclusion (TIDE) analysis and drug sensitivity analysis were performed on the risk models. Survival analysis of CAF scores showed that the survival rate was lower in samples with high CAF scores than those with low scores. However, this difference was not significant, suggesting CAF may not directly influence the prognosis of HCC patients. Further screening of CAF-related genes yielded 33 CAF-related genes. Seven risk models constructed based on CDR2L, SPRED1, PFKP, ENG, KLF2, FSCN1 and VCAN, showed significant differences in immunotherapy and partial drug sensitivity in HCC. Seven CAF-related genes may have important roles in immunotherapy, drug sensitivity and prognostic survival in HCC patients.","PeriodicalId":12691,"journal":{"name":"Genes and immunity","volume":"25 1","pages":"55-65"},"PeriodicalIF":5.0,"publicationDate":"2024-01-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.com/articles/s41435-024-00252-z.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139484880","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Do inhibitory receptors need to be proximal to stimulatory receptors to function?","authors":"Jonathan D. Worboys, Daniel M. Davis","doi":"10.1038/s41435-023-00251-6","DOIUrl":"10.1038/s41435-023-00251-6","url":null,"abstract":"","PeriodicalId":12691,"journal":{"name":"Genes and immunity","volume":"25 4","pages":"343-345"},"PeriodicalIF":5.0,"publicationDate":"2024-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.com/articles/s41435-023-00251-6.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139432443","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Interfer-on time: lessons from genetically diverse mouse models of SARS-CoV-2 infection","authors":"Shelly J. Robertson, Sonja M. Best","doi":"10.1038/s41435-023-00250-7","DOIUrl":"10.1038/s41435-023-00250-7","url":null,"abstract":"","PeriodicalId":12691,"journal":{"name":"Genes and immunity","volume":"25 4","pages":"341-342"},"PeriodicalIF":5.0,"publicationDate":"2023-12-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139073776","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Henderson Zhu, Irina Chelysheva, Andrew J. Pollard, Daniel O’Connor
{"title":"Spotlight on systems vaccinology: a novel approach to elucidate correlates of protection","authors":"Henderson Zhu, Irina Chelysheva, Andrew J. Pollard, Daniel O’Connor","doi":"10.1038/s41435-023-00247-2","DOIUrl":"10.1038/s41435-023-00247-2","url":null,"abstract":"","PeriodicalId":12691,"journal":{"name":"Genes and immunity","volume":"25 4","pages":"336-337"},"PeriodicalIF":5.0,"publicationDate":"2023-12-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.com/articles/s41435-023-00247-2.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139039739","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
José J. Fernández, Cristina Mancebo, Sonsoles Garcinuño, Gabriel March, Yolanda Alvarez, Sara Alonso, Luis Inglada, Jesús Blanco, Antonio Orduña, Olimpio Montero, Tito A. Sandoval, Juan R. Cubillos-Ruiz, Elena Bustamante-Munguira, Nieves Fernández, Mariano Sánchez Crespo
{"title":"Innate IRE1α-XBP1 activation by viral single-stranded RNA and its influence on lung cytokine production during SARS-CoV-2 pneumonia","authors":"José J. Fernández, Cristina Mancebo, Sonsoles Garcinuño, Gabriel March, Yolanda Alvarez, Sara Alonso, Luis Inglada, Jesús Blanco, Antonio Orduña, Olimpio Montero, Tito A. Sandoval, Juan R. Cubillos-Ruiz, Elena Bustamante-Munguira, Nieves Fernández, Mariano Sánchez Crespo","doi":"10.1038/s41435-023-00243-6","DOIUrl":"10.1038/s41435-023-00243-6","url":null,"abstract":"The utilization of host-cell machinery during SARS-CoV-2 infection can overwhelm the protein-folding capacity of the endoplasmic reticulum and activate the unfolded protein response (UPR). The IRE1α-XBP1 arm of the UPR could also be activated by viral RNA via Toll-like receptors. Based on these premises, a study to gain insight into the pathogenesis of COVID-19 disease was conducted using nasopharyngeal exudates and bronchioloalveolar aspirates. The presence of the mRNA of spliced XBP1 and a high expression of cytokine mRNAs were observed during active infection. TLR8 mRNA showed an overwhelming expression in comparison with TLR7 mRNA in bronchioloalveolar aspirates of COVID-19 patients, thus suggesting the presence of monocytes and monocyte-derived dendritic cells (MDDCs). In vitro experiments in MDDCs activated with ssRNA40, a synthetic mimic of SARS-CoV-2 RNA, showed induction of XBP1 splicing and the expression of proinflammatory cytokines. These responses were blunted by the IRE1α inhibitor MKC8866, the TLR8 antagonist CU-CPT9a, and knockdown of TLR8 receptor. In contrast, the IRE1α-XBP1 activator IXA4 enhanced these responses. Based on these findings, the TLR8/IRE1α system seems to play a significant role in the induction of the proinflammatory cytokines associated with severe COVID-19 disease and might be a druggable target to control cytokine storm.","PeriodicalId":12691,"journal":{"name":"Genes and immunity","volume":"25 1","pages":"43-54"},"PeriodicalIF":5.0,"publicationDate":"2023-12-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139036071","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}