Epigenomes最新文献_第4页

Inheritance of Stress Responses via Small Non-Coding RNAs in Invertebrates and Mammals 无脊椎动物和哺乳动物通过小非编码 RNA 遗传应激反应

IF 2.5

Epigenomes Pub Date : 2023-12-19 DOI: 10.3390/epigenomes8010001

Maria C. Ow, Sarah E. Hall

引用次数: 0

Epigenetic Mechanisms in Hematologic Aging and Premalignant Conditions. 血液学衰老和恶性肿瘤前病变的表观遗传机制

IF 2.5

Epigenomes Pub Date : 2023-12-12 DOI: 10.3390/epigenomes7040032

Bowen Yan, Qingchen Yuan, Olga A Guryanova

{"title":"Epigenetic Mechanisms in Hematologic Aging and Premalignant Conditions.","authors":"Bowen Yan, Qingchen Yuan, Olga A Guryanova","doi":"10.3390/epigenomes7040032","DOIUrl":"10.3390/epigenomes7040032","url":null,"abstract":"Hematopoietic stem cells (HSCs) are essential for maintaining overall health by continuously generating blood cells throughout an individual's lifespan. However, as individuals age, the hematopoietic system undergoes significant functional decline, rendering them more susceptible to age-related diseases. Growing research evidence has highlighted the critical role of epigenetic regulation in this age-associated decline. This review aims to provide an overview of the diverse epigenetic mechanisms involved in the regulation of normal HSCs during the aging process and their implications in aging-related diseases. Understanding the intricate interplay of epigenetic mechanisms that contribute to aging-related changes in the hematopoietic system holds great potential for the development of innovative strategies to delay the aging process. In fact, interventions targeting epigenetic modifications have shown promising outcomes in alleviating aging-related phenotypes and extending lifespan in various animal models. Small molecule-based therapies and reprogramming strategies enabling epigenetic rejuvenation have emerged as effective approaches for ameliorating or even reversing aging-related conditions. By acquiring a deeper understanding of these epigenetic mechanisms, it is anticipated that interventions can be devised to prevent or mitigate the rates of hematologic aging and associated diseases later in life. Ultimately, these advancements have the potential to improve overall health and enhance the quality of life in aging individuals.","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"7 4","pages":""},"PeriodicalIF":2.5,"publicationDate":"2023-12-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10743085/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138833186","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

World Trade Center Exposure, DNA Methylation Changes, and Cancer: A Review of Current Evidence 世贸中心暴露、DNA 甲基化变化与癌症：当前证据综述

IF 2.5

Epigenomes Pub Date : 2023-12-08 DOI: 10.3390/epigenomes7040031

S. Tuminello, Emelie Nguyen, N. Durmus, Ramazan Alptekin, Muhammed Yilmaz, Maria Cecilia Crisanti, M. Snuderl, Yu Chen, Yongzhao Shao, Joan Reibman, Emanuela Taioli, Alan A. Arslan

{"title":"World Trade Center Exposure, DNA Methylation Changes, and Cancer: A Review of Current Evidence","authors":"S. Tuminello, Emelie Nguyen, N. Durmus, Ramazan Alptekin, Muhammed Yilmaz, Maria Cecilia Crisanti, M. Snuderl, Yu Chen, Yongzhao Shao, Joan Reibman, Emanuela Taioli, Alan A. Arslan","doi":"10.3390/epigenomes7040031","DOIUrl":"https://doi.org/10.3390/epigenomes7040031","url":null,"abstract":"Introduction: Known carcinogens in the dust and fumes from the destruction of the World Trade Center (WTC) towers on 9 November 2001 included metals, asbestos, and organic pollutants, which have been shown to modify epigenetic status. Epigenome-wide association analyses (EWAS) using uniform (Illumina) methodology have identified novel epigenetic profiles of WTC exposure. Methods: We reviewed all published data, comparing differentially methylated gene profiles identified in the prior EWAS studies of WTC exposure. This included DNA methylation changes in blood-derived DNA from cases of cancer-free “Survivors” and those with breast cancer, as well as tissue-derived DNA from “Responders” with prostate cancer. Emerging molecular pathways related to the observed DNA methylation changes in WTC-exposed groups were explored and summarized. Results: WTC dust exposure appears to be associated with DNA methylation changes across the genome. Notably, WTC dust exposure appears to be associated with increased global DNA methylation; direct dysregulation of cancer genes and pathways, including inflammation and immune system dysregulation; and endocrine system disruption, as well as disruption of cholesterol homeostasis and lipid metabolism. Conclusion: WTC dust exposure appears to be associated with biologically meaningful DNA methylation changes, with implications for carcinogenesis and development of other chronic diseases.","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"4 3","pages":""},"PeriodicalIF":2.5,"publicationDate":"2023-12-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138586231","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Comparison of Yersinia enterocolitica DNA Methylation at Ambient and Host Temperatures. 环境温度和宿主温度下小肠结肠炎耶尔森菌 DNA 甲基化的比较

IF 2.5

Epigenomes Pub Date : 2023-11-30 DOI: 10.3390/epigenomes7040030

Dustin J Van Hofwegen, Carolyn J Hovde, Scott A Minnich

{"title":"Comparison of Yersinia enterocolitica DNA Methylation at Ambient and Host Temperatures.","authors":"Dustin J Van Hofwegen, Carolyn J Hovde, Scott A Minnich","doi":"10.3390/epigenomes7040030","DOIUrl":"10.3390/epigenomes7040030","url":null,"abstract":"Pathogenic bacteria recognize environmental cues to vary gene expression for host adaptation. Moving from ambient to host temperature, Yersinia enterocolitica responds by immediately repressing flagella synthesis and inducing the virulence plasmid (pYV)-encoded type III secretion system. In contrast, shifting from host to ambient temperature requires 2.5 generations to restore motility, suggesting a link to the cell cycle. We hypothesized that differential DNA methylation contributes to temperature-regulated gene expression. We tested this hypothesis by comparing single-molecule real-time (SMRT) sequencing of Y. enterocolitica DNA from cells growing exponentially at 22 °C and 37 °C. The inter-pulse duration ratio rather than the traditional QV scoring was the kinetic metric to compare DNA from cells grown at each temperature. All 565 YenI restriction sites were fully methylated at both temperatures. Among the 27,118 DNA adenine methylase (Dam) sites, 42 had differential methylation patterns, while 17 remained unmethylated regardless of the temperature. A subset of the differentially methylated Dam sites localized to promoter regions of predicted regulatory genes including LysR-type and PadR-like transcriptional regulators and a cyclic-di-GMP phosphodiesterase. The unmethylated Dam sites localized with a bias to the replication terminus, suggesting they were protected from Dam methylase. No cytosine methylation was detected at Dcm sites.","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"7 4","pages":""},"PeriodicalIF":2.5,"publicationDate":"2023-11-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10742451/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138833185","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

Out of the Silence: Insights into How Genes Escape X-Chromosome Inactivation. 走出沉默洞察基因如何逃避 X 染色体失活。

IF 2.5

Epigenomes Pub Date : 2023-11-23 DOI: 10.3390/epigenomes7040029

Samantha B Peeters, Bronwyn J Posynick, Carolyn J Brown

引用次数: 0

IndiSPENsable for X Chromosome Inactivation and Gene Silencing 对X染色体失活和基因沉默不可或缺

Epigenomes Pub Date : 2023-11-02 DOI: 10.3390/epigenomes7040028

Corinne Kaufmann, Anton Wutz

{"title":"IndiSPENsable for X Chromosome Inactivation and Gene Silencing","authors":"Corinne Kaufmann, Anton Wutz","doi":"10.3390/epigenomes7040028","DOIUrl":"https://doi.org/10.3390/epigenomes7040028","url":null,"abstract":"For about 30 years, SPEN has been the subject of research in many different fields due to its variety of functions and its conservation throughout a wide spectrum of species, like worms, arthropods, and vertebrates. To date, 216 orthologues have been documented. SPEN had been studied for its role in gene regulation in the context of cell signaling, including the NOTCH or nuclear hormone receptor signaling pathways. More recently, SPEN has been identified as a major regulator of initiation of chromosome-wide gene silencing during X chromosome inactivation (XCI) in mammals, where its function remains to be fully understood. Dependent on the biological context, SPEN functions via mechanisms which include different domains. While some domains of SPEN are highly conserved in sequence and secondary structure, species-to-species differences exist that might lead to mechanistic differences. Initiation of XCI appears to be different between humans and mice, which raises additional questions about the extent of generalization of SPEN’s function in XCI. In this review, we dissect the mechanism of SPEN in XCI. We discuss its subregions and domains, focusing on its role as a major regulator. We further highlight species-related research, specifically of mouse and human SPEN, with the aim to reveal and clarify potential species-to-species differences in SPEN’s function.","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"3 10","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135973460","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Stress and DNA Methylation of Blood Leukocytes among Pregnant Latina Women 应激与拉丁裔孕妇血液白细胞DNA甲基化

Epigenomes Pub Date : 2023-11-01 DOI: 10.3390/epigenomes7040027

Veronica Barcelona, Sameera Abuaish, Seonjoo Lee, Sarah Harkins, Ashlie Butler, Benjamin Tycko, Andrea A. Baccarelli, Kate Walsh, Catherine E. Monk

{"title":"Stress and DNA Methylation of Blood Leukocytes among Pregnant Latina Women","authors":"Veronica Barcelona, Sameera Abuaish, Seonjoo Lee, Sarah Harkins, Ashlie Butler, Benjamin Tycko, Andrea A. Baccarelli, Kate Walsh, Catherine E. Monk","doi":"10.3390/epigenomes7040027","DOIUrl":"https://doi.org/10.3390/epigenomes7040027","url":null,"abstract":"Latinas experience physical and psychological stressors in pregnancy leading to increased morbidity and higher risk for adverse birth outcomes. Epigenetic changes, including DNA methylation (DNAm), have been proposed as markers to create more refined risk stratification, yet few of these studies have examined these changes in Latinas. We conducted a secondary analysis of stored blood leukocytes of Latina women (n = 58) enrolled in a larger National Institutes of Health funded R01 project (2011–2016). We examined DNAm on eight candidate stress genes to compare physically and psychologically stressed participants to healthy (low stress) participants. We found unique CpGs that were differentially methylated in stressed women early- and mid-pregnancy compared to the healthy group, though none remained significant after FDR correction. Both physical and psychological stress were associated with hypomethylation at two consecutive CpG sites on NR3C1 in early pregnancy and one CpG site on NR3C1 in mid-pregnancy before adjustment. Stress was also associated with hypomethylation at two CpG sites on FKBP5 in early and mid-pregnancy but were no longer significant after FDR adjustment. Though we did not find statistically significant differences in DNAm during pregnancy between stressed and healthy women in this sample, signals were consistent with previous findings. Future work in larger samples should further examine the associations between stress and DNAm in pregnancy as this mechanism may explain underlying perinatal health inequities.","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"77 3","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135373260","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Correction: Islam, R.A.; Rallis, C. Ribosomal Biogenesis and Heterogeneity in Development, Disease, and Aging. Epigenomes 2023, 7, 17 更正:伊斯兰教，R.A.;核糖体在发育、疾病和衰老中的生物发生和异质性。表观基因组学，2017,7,17

Epigenomes Pub Date : 2023-10-26 DOI: 10.3390/epigenomes7040026

Rowshan Ara Islam, Charalampos Rallis

引用次数: 0

Maternal MicroRNA Profile Changes When LH Is Added to the Ovarian Stimulation Protocol: A Pilot Study. 当LH被添加到卵巢刺激方案中时，母体微小RNA图谱的变化：一项初步研究。

IF 2.5

Epigenomes Pub Date : 2023-10-06 DOI: 10.3390/epigenomes7040025

Fani Konstantinidou, Martina Placidi, Giovanna Di Emidio, Liborio Stuppia, Carla Tatone, Valentina Gatta, Paolo Giovanni Artini

{"title":"Maternal MicroRNA Profile Changes When LH Is Added to the Ovarian Stimulation Protocol: A Pilot Study.","authors":"Fani Konstantinidou, Martina Placidi, Giovanna Di Emidio, Liborio Stuppia, Carla Tatone, Valentina Gatta, Paolo Giovanni Artini","doi":"10.3390/epigenomes7040025","DOIUrl":"10.3390/epigenomes7040025","url":null,"abstract":"While the use of follicle-stimulating hormone (FSH) in ovarian stimulation for in vitro fertilization (IVF) is an established practice, the use of luteinizing hormone (LH) remains debatable. MicroRNAs (miRNAs) are short, endogenous, non-coding transcripts that control a variety of cellular functions, such as gonadotrophin production and follicular development. The goal of this pilot study was to investigate whether the employment of recombinant LH (rLH) in ovarian stimulation protocols results in changes in the miRNA profiles in human oocytes. Patients were divided into two groups: seven received recombinant FSH (rFSH, 225 IU), and six received rFSH (150 IU) plus rLH (75 IU). MiRNA predesigned panels and real-time PCR technology were used to analyze the oocytes retrieved from the follicular ovarian retrieval. Among the miRNAs evaluated, a series of them evidenced upregulation or downregulation in their expression in the FSH plus LH group compared to the FSH group. Considering the results obtained from the functional and network analysis, the different maternal miRNA profiles in the two groups revealed a differential modulation of pathways involved in numerous biological functions. Overall, based on the pathways associated with most of these maternal miRNAs, the presence of LH may result in a different modulation of pathways regulating survival under the control of a Tp53-related mechanism. Interestingly, among the miRNAs differentially expressed in oocytes of the two groups, we have found miRNAs already investigated at ovarian, follicular, oocyte, and embryonic levels: hsa-miR-484, hsa-miR-222, hsa-miR-520d-5p, hsa-miRNA-17, hsa-miR-548, and hsa-miR-140. Thus, investigation into the role of these miRNAs in oocyte molecular pathways may help determine how LH affects oocyte competence and eventually leads to the clinical improvement of IVF.","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"7 4","pages":""},"PeriodicalIF":2.5,"publicationDate":"2023-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10594432/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49694268","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 ErbB Signaling Network and Its Potential Role in Endometrial Cancer. ErbB信号网络及其在子宫内膜癌症中的潜在作用。

IF 2.5

Epigenomes Pub Date : 2023-10-01 DOI: 10.3390/epigenomes7040024

Georgios Androutsopoulos, Ioanna Styliara, Evgenia Zarogianni, Nadia Lazurko, George Valasoulis, Georgios Michail, Georgios Adonakis

{"title":"The ErbB Signaling Network and Its Potential Role in Endometrial Cancer.","authors":"Georgios Androutsopoulos, Ioanna Styliara, Evgenia Zarogianni, Nadia Lazurko, George Valasoulis, Georgios Michail, Georgios Adonakis","doi":"10.3390/epigenomes7040024","DOIUrl":"10.3390/epigenomes7040024","url":null,"abstract":"Endometrial cancer (EC) is the second most common malignancy of the female reproductive system worldwide. The updated EC classification emphasizes the significant role of various signaling pathways such as PIK3CA-PIK3R1-PTEN and RTK/RAS/β-catenin in EC pathogenesis. Some of these pathways are part of the EGF system signaling network, which becomes hyperactivated by various mechanisms and participates in cancer pathogenesis. In EC, the expression of ErbB receptors is significantly different, compared with the premenopausal and postmenopausal endometrium, mainly because of the increased transcriptional activity of ErbB encoding genes in EC cells. Moreover, there are some differences in ErbB-2 receptor profile among EC subgroups that could be explained by the alterations in pathophysiology and clinical behavior of various EC histologic subtypes. The fact that ErbB-2 receptor expression is more common in aggressive EC histologic subtypes (papillary serous and clear cell) could indicate a future role of ErbB-targeted therapies in well-defined EC subgroups with overexpression of ErbB receptors.","PeriodicalId":55768,"journal":{"name":"Epigenomes","volume":"7 4","pages":""},"PeriodicalIF":2.5,"publicationDate":"2023-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10594534/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49694269","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: 2