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Differences in MicroRNA Expression in Firefighters Responding to a Train Derailment and Fire in East Palestine, Ohio. 俄亥俄州东巴勒斯坦火车脱轨和火灾中消防员MicroRNA表达的差异
IF 4.1
Epigenomes Pub Date : 2026-02-03 DOI: 10.3390/epigenomes10010008
Jaclyn M Goodrich, Yaodong Xin, Shawn C Beitel, John Gulotta, Lu Wang, Bhavya Thotakura, Judith M Graber, Derek Urwin, Alexander C Mayer, Sara Jahnke, Derrick L Edwards, Casey Grant, Sreenivasan Ranganathan, Jefferey L Burgess
{"title":"Differences in MicroRNA Expression in Firefighters Responding to a Train Derailment and Fire in East Palestine, Ohio.","authors":"Jaclyn M Goodrich, Yaodong Xin, Shawn C Beitel, John Gulotta, Lu Wang, Bhavya Thotakura, Judith M Graber, Derek Urwin, Alexander C Mayer, Sara Jahnke, Derrick L Edwards, Casey Grant, Sreenivasan Ranganathan, Jefferey L Burgess","doi":"10.3390/epigenomes10010008","DOIUrl":"10.3390/epigenomes10010008","url":null,"abstract":"<p><p><b>Background/Objectives</b>: High-risk, low-frequency incidents such as building collapses and large chemical fires can result in acute, high-dose exposures to toxic agents for first responders and the surrounding community. While these exposures may last for hours to days, their contribution to firefighters' risks for cancer and other diseases is relatively unknown. In February 2023, a freight train transporting chemicals derailed and caught fire in East Palestine, Ohio, US. More than 350 firefighters, primarily volunteer, responded to the incident. In this cross-sectional study, we evaluated epigenetic markers of toxicity in responding firefighters. We hypothesized that exposures from responding to the train derailment would alter the expression of microRNAs (miRNAs) linked to carcinogenesis. <b>Methods</b>: We enrolled 62 responding firefighters and a comparison group of 26 firefighters from the same region who did not respond to the incident. We measured the relative expression of 800 miRNAs in blood samples using the nCounter Human v3 miRNA expression panel. We compared the expression of miRNA between exposure groups in negative binomial regression models, adjusting for potential confounders. <b>Results</b>: At a false discover rate cut-off of 5% (q-value < 0.05), 16 miRNAs had significantly higher expression and one significantly lower among firefighters that responded to the incident. Top disease-related pathways in which these miRNAs were enriched included those relevant to neurodegenerative diseases, vascular disease, and multiple cancer sites. <b>Conclusions</b>: Overall, results suggest responding to one large incident can have non-transient impacts on miRNA expression. Whether this translates into longer-term health risks or adaptive responses to exposures is unclear.</p>","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"10 1","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-02-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12921792/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146259535","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
An Hsp70 Chaperone Is Involved in Meiotic Silencing by Unpaired DNA. Hsp70伴侣参与未配对DNA的减数分裂沉默。
IF 4.1
Epigenomes Pub Date : 2026-01-26 DOI: 10.3390/epigenomes10010007
Victor T Sy, Sterling S Trawick, Hagen M Tatarsky, Patrick K T Shiu
{"title":"An Hsp70 Chaperone Is Involved in Meiotic Silencing by Unpaired DNA.","authors":"Victor T Sy, Sterling S Trawick, Hagen M Tatarsky, Patrick K T Shiu","doi":"10.3390/epigenomes10010007","DOIUrl":"10.3390/epigenomes10010007","url":null,"abstract":"<p><p>In the filamentous fungus <i>Neurospora crassa</i>, a gene not having a pairing partner during meiosis is seen as a potential intruder and is targeted by a mechanism called meiotic silencing by unpaired DNA (MSUD). MSUD employs core RNA interference (RNAi) components such as the SMS-2 Argonaute, which uses small interfering RNAs (siRNAs) as guides to seek out mRNAs from unpaired genes for silencing. In <i>Drosophila melanogaster</i>, the heat shock protein 70 (Hsp70) chaperone system facilitates the conformational activation of an Argonaute and allows it to load siRNAs. Here, our results demonstrate that an Hsp70 protein in <i>Neurospora</i> interacts with SMS-2 and mediates the silencing of unpaired genes.</p>","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"10 1","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-01-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12921811/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146260436","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
ARS2, a Cofactor of CBC, Promotes Meiotic Silencing by Unpaired DNA. ARS2是CBC的一个辅助因子,通过未配对的DNA促进减数分裂沉默。
IF 4.1
Epigenomes Pub Date : 2026-01-21 DOI: 10.3390/epigenomes10010006
Michael M Vierling, Victor T Sy, Logan M Decker, Hua Xiao, Justine N Hemaya, Patrick K T Shiu
{"title":"ARS2, a Cofactor of CBC, Promotes Meiotic Silencing by Unpaired DNA.","authors":"Michael M Vierling, Victor T Sy, Logan M Decker, Hua Xiao, Justine N Hemaya, Patrick K T Shiu","doi":"10.3390/epigenomes10010006","DOIUrl":"10.3390/epigenomes10010006","url":null,"abstract":"<p><p>The presence of an extra DNA segment in a genome could indicate a transposon or another repetitive element on the move. In <i>Neurospora crassa</i>, a surveillance mechanism called meiotic silencing by unpaired DNA (MSUD) is maintained to monitor these selfish elements. MSUD utilizes common RNA interference (RNAi) factors, including the SMS-2 Argonaute, to target mRNAs from genes lacking a pairing partner during meiosis. In eukaryotes, an mRNA transcript is typically bound at the 5' cap by the cap-binding complex (CBC), which assists in its nuclear export. Previously, we discovered that CBC and its interactor NCBP3 mediate MSUD, possibly by guiding the perinuclear SMS-2 to effectively recognize exported mRNAs. Here, we report that ARS2, a CBC cofactor, is involved in MSUD. ARS2 interacts with both CBC and NCBP3, and it may help bring them together. In addition to its role in silencing, ARS2 also contributes to vegetative growth and sexual sporulation.</p>","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"10 1","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-01-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12922007/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146260375","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Something Old, Something New, Something Borrowed… About the Placenta. 一些旧的,一些新的,一些借来的……关于胎盘。
IF 4.1
Epigenomes Pub Date : 2026-01-19 DOI: 10.3390/epigenomes10010005
Nadezhda Milova, Maria Nikolova, Angel Yordanov, Antoan Milov, Stoilka Mandadzhieva
{"title":"Something Old, Something New, Something Borrowed… About the Placenta.","authors":"Nadezhda Milova, Maria Nikolova, Angel Yordanov, Antoan Milov, Stoilka Mandadzhieva","doi":"10.3390/epigenomes10010005","DOIUrl":"10.3390/epigenomes10010005","url":null,"abstract":"<p><p>The connection between the mother and the child has been considered one of the strongest bonds in nature. Though there are numerous factors that can influence the establishment of pregnancy, in its essence, three are considered major: a good quality embryo, a receptive endometrium, and successful cross-talk between them. The placenta, which derives from the trophoblast of the embryo, develops when a successful implantation occurs. It is an ephemeral organ through which the turnover of nutrients, gases, and waste molecules is realized. It serves as a barrier and can provide the embryo with immune factors. Placental disorders are observed in some rare but life-threatening obstetric conditions like preeclampsia (PE), fetal growth restriction (FGR), gestational trophoblastic diseases (GTDs), and gestational diabetes mellitus (GDM). The etiology and pathogenesis of some are still partially enigmatic. Our attention in this review was driven by the participation of small RNA molecules-miRNAs and piRNAs-as potential epigenetic modulators of genes that play a pivotal role in placental functioning. In this study, we analyze the influence of these epigenetic factors on the mechanisms of the development of preeclampsia. The molecular approach for understanding placental disorders may help new diagnostic and therapeutic solutions to be found.</p>","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"10 1","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-01-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12922103/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146260149","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Epigenetic Alterations in Colitis-Associated Colorectal Cancer. 结肠炎相关结直肠癌的表观遗传改变。
IF 4.1
Epigenomes Pub Date : 2026-01-16 DOI: 10.3390/epigenomes10010004
Nisha Ganesh, William M Grady, Andrew M Kaz
{"title":"Epigenetic Alterations in Colitis-Associated Colorectal Cancer.","authors":"Nisha Ganesh, William M Grady, Andrew M Kaz","doi":"10.3390/epigenomes10010004","DOIUrl":"10.3390/epigenomes10010004","url":null,"abstract":"<p><p>Colitis-associated colorectal cancer (CAC) represents a distinct subtype of colorectal malignancy that arises in the setting of chronic inflammatory bowel disease (IBD). Unlike sporadic colorectal cancer, CAC develops through inflammation-driven molecular pathways, in which epigenetic alterations play a pivotal role in tumor initiation and progression. This review highlights the major epigenetic mechanisms implicated in CAC, including DNA methylation, histone modifications, and microRNA (miRNA) dysregulation. Aberrant DNA methylation patterns, such as promoter hypermethylation of tumor suppressor genes and global hypomethylation, contribute to genomic instability and altered gene expression. In parallel, inflammation-induced changes in histone configuration modulate chromatin accessibility and transcriptional activity of key oncogenic and tumor-suppressive pathways. Furthermore, deregulated miRNAs influence multiple aspects of CAC pathogenesis by targeting genes involved in inflammation and tumor progression. Understanding these epigenetic processes provides valuable insights into the development of colorectal malignancy and identifies potential biomarkers for early detection and intervention in colitis-associated colorectal cancer.</p>","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"10 1","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-01-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12821410/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146013448","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Fisetin Suppresses the Proliferative and Migratory Behavior of HeLa Cells by Modulating Aberrant Epigenetic Marks (Writers and Erasers). 非瑟酮通过调节异常表观遗传标记(书写和擦除)抑制HeLa细胞的增殖和迁移行为。
IF 3.5
Epigenomes Pub Date : 2026-01-12 DOI: 10.3390/epigenomes10010003
Nazia Afroze, Reham I Alagal, Lujain A Almousa, Ritu Raina, Prathap Bava, Lizna Mohamed Ali, Tarique Noorul Hasan, Arif Hussain
{"title":"Fisetin Suppresses the Proliferative and Migratory Behavior of HeLa Cells by Modulating Aberrant Epigenetic Marks (Writers and Erasers).","authors":"Nazia Afroze, Reham I Alagal, Lujain A Almousa, Ritu Raina, Prathap Bava, Lizna Mohamed Ali, Tarique Noorul Hasan, Arif Hussain","doi":"10.3390/epigenomes10010003","DOIUrl":"10.3390/epigenomes10010003","url":null,"abstract":"<p><strong>Purpose: </strong>The reversible deviant in epigenomic modulations is the highlight of developing new anti-cancer drugs, necessitating the use of fisetin as an epigenetic modifier in the study.</p><p><strong>Methods: </strong>In silico and molecular studies were performed to analyze the modulatory effect of fisetin on various writers and erasers. Further, whole genome DNA methylation sequencing and expression studies were performed. Global DNA methylation-LINE 1 kit was used to check global DNA methylation. Additionally, the effect of fisetin on migration was evaluated by colony, scratch, and invasion assays and qPCR and protein expression studies of migration-related genes were carried out on HeLa cells.</p><p><strong>Results: </strong>In silico studies have supported that fisetin interacts with writers and erasers in their catalytic site and the simulation studies showed minimum fluctuations in energy and temperature over a 10 ns timescale indicating that these complexes are likely to remain stable. Fisetin (20-50 µM) dose-dependently inhibited DNA methyltransferases (DNMT), histone deacetyl transferases (HDAC), histone acetyl transferases (HAT), and histone methyltransferases (HMT) activities at 48 h, with inhibition ranging from 24 to 72% compared to the control. The expression and enzymatic activity of these proteins, along with various H4 and H3 modification marks, were observed to be altered following fisetin treatment at 48 h. Fisetin treatment reduced promoter methylation in various tumor suppressor genes ranging from 15.29% to 76.23% and leading to the corresponding reactivation of important tumor suppressor genes; however, it did not lead to any alteration in the global DNA methylation compared to untreated controls linked with the anti-migratory properties of fisetin as the percentage of migrated cells dropped from ~40% to ~8%.</p><p><strong>Conclusions: </strong>This study gives a mechanistic insight of fisetin as a potential epigenetic modifier in HeLa cells.</p>","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"10 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2026-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12821405/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146013467","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Epigenetic Regulation and Gene Expression Profiles in Cervical Swabs: Toward Non-Invasive Biomarkers of Cervical Lesion Progression. 宫颈拭子的表观遗传调控和基因表达谱:宫颈病变进展的非侵入性生物标志物。
IF 3.5
Epigenomes Pub Date : 2026-01-07 DOI: 10.3390/epigenomes10010002
Ivana Kašubová, Andrea Hornáková, Lucia Kotúľová, Tomáš Rokos, Zuzana Kolková, Andrea Kapinová, Terézia Pribulová, Erik Kozubík, Michal Kalman, Kamil Biringer, Erik Kúdela, Veronika Holubeková
{"title":"Epigenetic Regulation and Gene Expression Profiles in Cervical Swabs: Toward Non-Invasive Biomarkers of Cervical Lesion Progression.","authors":"Ivana Kašubová, Andrea Hornáková, Lucia Kotúľová, Tomáš Rokos, Zuzana Kolková, Andrea Kapinová, Terézia Pribulová, Erik Kozubík, Michal Kalman, Kamil Biringer, Erik Kúdela, Veronika Holubeková","doi":"10.3390/epigenomes10010002","DOIUrl":"10.3390/epigenomes10010002","url":null,"abstract":"<p><p><b>Background/Objectives</b>: Cervical cancer is a common malignancy in women worldwide, closely associated with persistent human papillomavirus (HPV) infection. Epigenetic mechanisms, particularly promoter methylation, may contribute to tumour progression. This pilot study aimed to analyse the promoter methylation patterns and gene expression of selected genes (<i>DNMT</i>, <i>BCL2</i>, <i>CDH1</i>, <i>CD8A</i>, <i>MUC1</i>, <i>ALCAM</i>). The goal was to identify associations between promoter hypermethylation, gene expression, and HPV infection in cervical swab specimens obtained from patients with low-grade squamous intraepithelial lesions (SILs), high-grade SILs, or squamous cell carcinomas. <b>Methods</b>: A total of 81 cervical swab samples from Slovak participants were included in the study. DNA methylation and gene expression profiling was performed using real-time PCR (qPCR) and pyrosequencing. <b>Results</b>: <i>BCL2</i> expression was significantly reduced across all lesion grades. <i>CD8A</i> expression was slightly elevated in low- and high-grade SILs, particularly in HPV-positive samples. <i>MUC1</i> showed variability with lesion grade. No statistically significant differences in DNA methylation were observed across groups stratified by HPV status, community state type, and lesion grade. <b>Conclusions</b>: Our findings suggest that <i>BCL2</i> downregulation and gene activity variability influenced by the vaginal microbiome may play a role in cervical lesion progression. These results highlight potential non-invasive biomarkers for monitoring cervical lesions.</p>","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"10 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2026-01-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12821634/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146013503","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Upregulation of a MicroRNA Signature Involving miR-17-5p, miR-26b-5p, miR-106a-5p, and miR-146a-5p During Cervical Epithelial Transformation. 涉及miR-17-5p、miR-26b-5p、miR-106a-5p和miR-146a-5p的MicroRNA特征在宫颈上皮转化过程中的上调
IF 3.5
Epigenomes Pub Date : 2025-12-26 DOI: 10.3390/epigenomes10010001
Andrea Hornakova, Zuzana Kolkova, Lucia Kotulova, Tomas Rokos, Ivana Kasubova, Terezia Pribulova, Erik Kozubik, Kamil Biringer, Erik Kudela, Veronika Holubekova
{"title":"Upregulation of a MicroRNA Signature Involving miR-17-5p, miR-26b-5p, miR-106a-5p, and miR-146a-5p During Cervical Epithelial Transformation.","authors":"Andrea Hornakova, Zuzana Kolkova, Lucia Kotulova, Tomas Rokos, Ivana Kasubova, Terezia Pribulova, Erik Kozubik, Kamil Biringer, Erik Kudela, Veronika Holubekova","doi":"10.3390/epigenomes10010001","DOIUrl":"10.3390/epigenomes10010001","url":null,"abstract":"<p><p><b>Background</b>: Cervical cancer remains the fourth most common malignancy among women worldwide. Despite vaccination and regular screening, new molecular biomarkers are needed for improved early detection and risk assessment. MicroRNAs (miRNAs) play crucial roles in post-transcriptional regulation, and their dysregulation may contribute to cervical carcinogenesis. This study evaluated the expression of selected miRNAs in cervical swab samples and corresponding biopsies from women with various grades of cervical lesions and assessed their relationship with human papillomavirus (HPV) infection. <b>Methods</b>: A total of 72 cervical swab samples were included in this study, divided according to cytological severity: negative for intraepithelial lesion or malignancy (NILM, <i>n</i> = 15), atypical squamous cells of undetermined significance (ASC-US, <i>n</i> = 12), low-grade squamous intraepithelial lesion (LSIL, <i>n</i> = 19), and high-grade squamous intraepithelial lesion (HSIL, <i>n</i> = 26). In a subset of patients, corresponding biopsy specimens were analysed for comparison. The association of miRNA expression with HPV infection status was also examined. miRNA expression was quantified by real-time PCR using commercially available assays. <b>Results</b>: To assess the relationship between miRNA expression, lesion severity, and HPV infection, fold change values were compared to the control group (NILM). No significant differences were observed in the ASC-US group (<i>p</i> > 0.05). In contrast, several miRNAs were significantly upregulated in the LSIL and/or HSIL groups, as well as in HPV-positive samples, indicating their association with both lesion progression and viral infection. Specifically, miR-17-5p, miR-26b-5p, miR-29a-3p, miR-103a-3p, miR-106a-5p, miR-146a-5p, miR-155-5p, and miR-191-5p showed increased expression (<i>p</i> < 0.05) compared with controls. The observed upregulation of miR-26b-5p, miR-106a-5p, and miR-146a-5p highlights their potential role in HPV-associated cervical carcinogenesis. Dysregulated miRNAs were enriched in pathways related to infectious diseases, various types of cancer, and cell adhesion processes. <b>Conclusions</b>: The gradual increase in specific miRNAs with lesion severity and HPV infection suggests their role in cervical carcinogenesis. The identified miRNAs may serve as promising non-invasive biomarkers for early detection and monitoring of HPV-associated cervical lesions.</p>","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"10 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-12-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12821706/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146013492","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Epigenome-Wide Search for Distinctive Methylation Biomarkers of Endothelial and Leukocyte DNA. 内皮细胞和白细胞DNA独特甲基化生物标志物的全表观基因组搜索。
IF 3.5
Epigenomes Pub Date : 2025-12-17 DOI: 10.3390/epigenomes9040053
Valeria A Korolenya, Maxim L Filipenko, Mariya A Smetanina
{"title":"Epigenome-Wide Search for Distinctive Methylation Biomarkers of Endothelial and Leukocyte DNA.","authors":"Valeria A Korolenya, Maxim L Filipenko, Mariya A Smetanina","doi":"10.3390/epigenomes9040053","DOIUrl":"10.3390/epigenomes9040053","url":null,"abstract":"<p><p>The endothelium, as the inner layer of the vascular wall, is in constant contact with blood components, so that leukocytes have the ability to adhere to endotheliocytes and penetrate to the subendothelial space. When studying heterogenic vascular samples containing endothelial cells or pathological processes related to inflammation within the endothelium, it may be necessary to distinguish DNA by endothelial and leukocyte origin, which is possible due to its specific epigenetic modifications. To identify CpG loci that could serve as markers for endothelial cells, we searched for their distinctive stable methylated or demethylated states by applying marginal filtering (selecting CpG loci with methylation Beta values closer to 0 and 1) to the microarray data and identified 47 CpG loci with relatively stable methylation/demethylation status that differentiate endothelial (HUVEC, HCMEC, HPAEC, HPMEC, and LSEC) DNA from leukocyte (granulocytes, monocytes, and lymphocytes) DNA. In addition, we compared CpG loci with high and low levels of DNA methylation between different types of endothelial cells and leukocytes. We believe that the obtained data will hopefully facilitate further studies on endothelial dysfunction.</p>","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"9 4","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-12-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12731890/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145822011","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","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 Exosome-Mediated Epigenome: Non-Coding RNA and mRNA-Coding Networks in Microbiome-Cellular Communication, Inflammation, and Tumorigenesis Along the Oral-Gut-Lung Axis. 外泌体介导的表观基因组:非编码RNA和mrna编码网络在微生物组-细胞通讯,炎症和沿口腔-肠-肺轴的肿瘤发生。
IF 3.5
Epigenomes Pub Date : 2025-12-16 DOI: 10.3390/epigenomes9040052
Beatriz Andrea Otálora-Otálora, César Payán-Gómez, Juan Javier López-Rivera, Luisa Fernanda Patiño-Unibio, Sally Lorena Arboleda-Mojica, Claudia Aristizábal-Guzmán, Mario Arturo Isaza-Ruget, Carlos Arturo Álvarez-Moreno
{"title":"The Exosome-Mediated Epigenome: Non-Coding RNA and mRNA-Coding Networks in Microbiome-Cellular Communication, Inflammation, and Tumorigenesis Along the Oral-Gut-Lung Axis.","authors":"Beatriz Andrea Otálora-Otálora, César Payán-Gómez, Juan Javier López-Rivera, Luisa Fernanda Patiño-Unibio, Sally Lorena Arboleda-Mojica, Claudia Aristizábal-Guzmán, Mario Arturo Isaza-Ruget, Carlos Arturo Álvarez-Moreno","doi":"10.3390/epigenomes9040052","DOIUrl":"10.3390/epigenomes9040052","url":null,"abstract":"<p><p><b>Background/Objectives</b>: The oral-gut-lung axis represents a dynamic system where exosomes carrying mRNAs and non-coding RNAs might help to regulate microbiota and human cell crosstalk to establish transcriptional regulatory networks controlling cellular biological processes and signaling pathways. <b>Methods</b>: We conducted a comprehensive transcriptomic analysis to characterize the molecular cargo of extracellular exosomes in the context of gut and lung cancer. <b>Results</b>: By analyzing gut and lung exosomes cargo with our previous transcriptomic studies from tumoral and inflammatory tissues, we found that exosomes can transport key RNAs that codify specific receptors that facilitate pathogenic interaction with microorganisms and RNAs that are part of interacting gene and transcriptional regulatory networks that control the function of differentially expresses genes, all involved in biological processes like cell cycle, plasticity and growth regulation, invasion, metastasis, microenvironmental remodeling, epigenetic, and microbial and immunological modulation, during the unlocking of phenotypic plasticity for the acquisition of the hallmarks of cancer in the oral-gut-lung axis. <b>Conclusions</b>: Exosomal RNA regulation of transcriptional networks represents a pivotal axis in the interplay between inflammation and cancer, offering opportunities for innovative diagnostic and therapeutic approaches.</p>","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"9 4","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-12-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12731705/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145822096","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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