Epigenetics最新文献

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Correction. 更正。
IF 2.9 3区 生物学
Epigenetics Pub Date : 2024-12-01 Epub Date: 2024-08-04 DOI: 10.1080/15592294.2024.2388387
{"title":"Correction.","authors":"","doi":"10.1080/15592294.2024.2388387","DOIUrl":"10.1080/15592294.2024.2388387","url":null,"abstract":"","PeriodicalId":11767,"journal":{"name":"Epigenetics","volume":"19 1","pages":"2388387"},"PeriodicalIF":2.9,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11299621/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141888819","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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
DNA methylation variation and growth in the clonal Duchesnea indica is regulated by both past and present lead environments. Duchesnea indica克隆植物的DNA甲基化变异和生长受过去和现在铅环境的调节。
IF 2.9 3区 生物学
Epigenetics Pub Date : 2024-12-01 Epub Date: 2024-01-21 DOI: 10.1080/15592294.2024.2305078
Jiaxin Quan, Shanshan Song, Linya Xing, Xiao Liu, Ming Yue
{"title":"DNA methylation variation and growth in the clonal <i>Duchesnea indica</i> is regulated by both past and present lead environments.","authors":"Jiaxin Quan, Shanshan Song, Linya Xing, Xiao Liu, Ming Yue","doi":"10.1080/15592294.2024.2305078","DOIUrl":"10.1080/15592294.2024.2305078","url":null,"abstract":"<p><p>Studies suggest that clonal plants' ability to select habitats and forage in a heterogeneous environment is influenced by their past environment, with stress legacy potentially playing a crucial role. In this study, we examined parental ramets of <i>Duchesnea indica</i> Focke that were subject to either a control or lead-contaminated environment (past environment), and their newborn offspring were then transplanted into control, homogeneous lead or heterogeneous lead environment (present environment). We analysed how past and present environments affect plant growth and DNA methylation in offspring. The result shown that the DNA methylation loci composition of offspring was affected by the interaction of parental environment and offspring environment, and DNA methylation levels were higher in heterogeneous environments. Moreover, our findings indicate that offspring would thrive in the heterogeneous lead environment if they did not experience lead pollution in the past, their progeny will avoid lead toxicity by reducing underground biomass allocation. However, when the parents experienced lead stress environment, their biomass allocation strategies disappeared, and they prefer to grow in favourable patches to avoid lead-contaminated patches. We concluded that the integration of historical parental exposure to lead-contaminated and current information about their offspring's environment are impacting plant phenotypes. It is possible that the stress legacy from the parents has been transmitted to their offspring ramets, and the stress legacy is at least partly based on heritable epigenetic variation. The phenotypic variation regulated by the stress legacy affects the growth performance, biomass allocation strategy, and even the behaviour of <i>D. indica</i>.</p>","PeriodicalId":11767,"journal":{"name":"Epigenetics","volume":"19 1","pages":"2305078"},"PeriodicalIF":2.9,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10802196/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139512188","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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
Using methylation data to improve transcription factor binding prediction. 利用甲基化数据改进转录因子结合预测。
IF 3.7 3区 生物学
Epigenetics Pub Date : 2024-12-01 Epub Date: 2024-02-01 DOI: 10.1080/15592294.2024.2309826
Daniel Morgan, Dawn L DeMeo, Kimberly Glass
{"title":"Using methylation data to improve transcription factor binding prediction.","authors":"Daniel Morgan, Dawn L DeMeo, Kimberly Glass","doi":"10.1080/15592294.2024.2309826","DOIUrl":"10.1080/15592294.2024.2309826","url":null,"abstract":"<p><p>Modelling the regulatory mechanisms that determine cell fate, response to external perturbation, and disease state depends on measuring many factors, a task made more difficult by the plasticity of the epigenome. Scanning the genome for the sequence patterns defined by Position Weight Matrices (PWM) can be used to estimate transcription factor (TF) binding locations. However, this approach does not incorporate information regarding the epigenetic context necessary for TF binding. CpG methylation is an epigenetic mark influenced by environmental factors that is commonly assayed in human cohort studies. We developed a framework to score inferred TF binding locations using methylation data. We intersected motif locations identified using PWMs with methylation information captured in both whole-genome bisulfite sequencing and Illumina EPIC array data for six cell lines, scored motif locations based on these data, and compared with experimental data characterizing TF binding (ChIP-seq). We found that for most TFs, binding prediction improves using methylation-based scoring compared to standard PWM-scores. We also illustrate that our approach can be generalized to infer TF binding when methylation information is only proximally available, <i>i.e</i>. measured for nearby CpGs that do not directly overlap with a motif location. Overall, our approach provides a framework for inferring context-specific TF binding using methylation data. Importantly, the availability of DNA methylation data in existing patient populations provides an opportunity to use our approach to understand the impact of methylation on gene regulatory processes in the context of human disease.</p>","PeriodicalId":11767,"journal":{"name":"Epigenetics","volume":"19 1","pages":"2309826"},"PeriodicalIF":3.7,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10841018/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139671537","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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
Association of changes in expression of HDAC and SIRT genes after drug treatment with cancer cell line sensitivity to kinase inhibitors. 药物治疗后 HDAC 和 SIRT 基因表达的变化与癌细胞系对激酶抑制剂敏感性的关系。
IF 3.7 3区 生物学
Epigenetics Pub Date : 2024-12-01 Epub Date: 2024-02-18 DOI: 10.1080/15592294.2024.2309824
Julia Krushkal, Yingdong Zhao, Kyle Roney, Weimin Zhu, Alan Brooks, Deborah Wilsker, Ralph E Parchment, Lisa M McShane, James H Doroshow
{"title":"Association of changes in expression of <i>HDAC</i> and <i>SIRT</i> genes after drug treatment with cancer cell line sensitivity to kinase inhibitors.","authors":"Julia Krushkal, Yingdong Zhao, Kyle Roney, Weimin Zhu, Alan Brooks, Deborah Wilsker, Ralph E Parchment, Lisa M McShane, James H Doroshow","doi":"10.1080/15592294.2024.2309824","DOIUrl":"10.1080/15592294.2024.2309824","url":null,"abstract":"<p><p>Histone deacetylases (HDACs) and sirtuins (SIRTs) are important epigenetic regulators of cancer pathways. There is a limited understanding of how transcriptional regulation of their genes is affected by chemotherapeutic agents, and how such transcriptional changes affect tumour sensitivity to drug treatment. We investigated the concerted transcriptional response of <i>HDAC</i> and <i>SIRT</i> genes to 15 approved antitumor agents in the NCI-60 cancer cell line panel. Antitumor agents with diverse mechanisms of action induced upregulation or downregulation of multiple <i>HDAC</i> and <i>SIRT</i> genes. <i>HDAC5</i> was upregulated by dasatinib and erlotinib in the majority of the cell lines. Tumour cell line sensitivity to kinase inhibitors was associated with upregulation of <i>HDAC5, HDAC1</i>, and several <i>SIRT</i> genes. We confirmed changes in <i>HDAC</i> and <i>SIRT</i> expression in independent datasets. We also experimentally validated the upregulation of HDAC5 mRNA and protein expression by dasatinib in the highly sensitive IGROV1 cell line. HDAC5 was not upregulated in the UACC-257 cell line resistant to dasatinib. The effects of cancer drug treatment on expression of <i>HDAC</i> and <i>SIRT</i> genes may influence chemosensitivity and may need to be considered during chemotherapy.</p>","PeriodicalId":11767,"journal":{"name":"Epigenetics","volume":"19 1","pages":"2309824"},"PeriodicalIF":3.7,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10878021/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139899587","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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
Plasma methylated GNB4 and Riplet as a novel dual-marker panel for the detection of hepatocellular carcinoma. 血浆甲基化 GNB4 和 Riplet 作为检测肝细胞癌的新型双标记物面板。
IF 2.9 3区 生物学
Epigenetics Pub Date : 2024-12-01 Epub Date: 2023-12-28 DOI: 10.1080/15592294.2023.2299044
Yanteng Zhao, Lei Zhao, Huifang Jin, Ying Xie, Liyinghui Chen, Wei Zhang, Lanlan Dong, Lianglu Zhang, Yue Huang, Kangkang Wan, Qiankun Yang, Shaochi Wang
{"title":"Plasma methylated GNB4 and Riplet as a novel dual-marker panel for the detection of hepatocellular carcinoma.","authors":"Yanteng Zhao, Lei Zhao, Huifang Jin, Ying Xie, Liyinghui Chen, Wei Zhang, Lanlan Dong, Lianglu Zhang, Yue Huang, Kangkang Wan, Qiankun Yang, Shaochi Wang","doi":"10.1080/15592294.2023.2299044","DOIUrl":"10.1080/15592294.2023.2299044","url":null,"abstract":"<p><p>Early detection of hepatocellular carcinoma (HCC) can greatly improve the survival rate of patients. We aimed to develop a novel marker panel based on cell-free DNA (cfDNA) methylation for the detection of HCC. The differentially methylated CpG sites (DMCs) specific for HCC blood diagnosis were selected from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) databases, then validated by the whole genome bisulphite sequencing (WGBS) of 12 paired HCC and paracancerous tissues. The clinical performance of the panel was evaluated using tissue samples [32 HCC, chronic liver disease (CLD), and healthy individuals] and plasma cohorts (173 HCC, 199 CLD, and 98 healthy individuals). The combination of G protein subunit beta 4 (GNB4) and Riplet had the optimal area under the curve (AUC) in seven candidates through TCGA, GEO, and WGBS analyses. In tissue validation, the GNB4 and Riplet showed an AUC of 100% with a sensitivity and specificity of 100% for detecting any-stage HCC. In plasma, it demonstrated a high sensitivity of 84.39% at 91.92% specificity, with an AUC of 92.51% for detecting any-stage HCC. The dual-marker panel had a higher sensitivity of 78.26% for stage I HCC than alpha-fetoprotein (AFP) of 47.83%, and a high sensitivity of 70.27% for detecting a single tumour (size ≤3 cm). In conclusion, we developed a novel dual-marker panel that demonstrates high accuracy in detecting HCC, surpassing the performance of AFP testing.</p>","PeriodicalId":11767,"journal":{"name":"Epigenetics","volume":"19 1","pages":"2299044"},"PeriodicalIF":2.9,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10761049/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139058237","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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
Homocysteine affects macrophage polarization by altering m6A methylation of scavenger receptors CD209 and CD163L1. 同型半胱氨酸通过改变清除率受体CD209和CD163L1的m6A甲基化影响巨噬细胞极化。
IF 2.9 3区 生物学
Epigenetics Pub Date : 2024-12-01 Epub Date: 2024-12-03 DOI: 10.1080/15592294.2024.2437272
Yu Liang, Yongbo Wang, Jia Tan, Jingxuan Shu, Ya Xu, Mingyuan Wang, Shengjun Yang, Linna Ma
{"title":"Homocysteine affects macrophage polarization by altering m6A methylation of scavenger receptors CD209 and CD163L1.","authors":"Yu Liang, Yongbo Wang, Jia Tan, Jingxuan Shu, Ya Xu, Mingyuan Wang, Shengjun Yang, Linna Ma","doi":"10.1080/15592294.2024.2437272","DOIUrl":"10.1080/15592294.2024.2437272","url":null,"abstract":"<p><p>Atherosclerosis is a chronic inflammatory disease characterized by fatty plaque deposits on artery walls. Elevated plasma homocysteine (Hcy) levels are an independent risk factor for atherosclerosis. Research on the mechanism by which Hcy promotes atherosclerosis has gradually turned to epigenetic inheritance, but the correlation between Hcy and m6A (N6-methyladenosine) modification has not been reported. In this study, MeRIP-seq was performed on macrophages and Hcy-treated macrophages. GO and KEGG analyses were used to perform functional analysis of differentially methylated genes. qRT-PCR and western blot were taken to determine the expression of CD209, CD163L1, proinflammatory, and anti-inflammatory factors. Flow cytometry was used to detect the proportion of M2 macrophages. The results showed that after Hcy treatment, the overall m6A methylation of macrophages was down-regulated, and 856 differential methylation peaks were annotated to 781 genes. These included CD209 and CD163L1, whose m6A methylation was inhibited after treatment with Hcy. In addition, mRNA and protein expressions of CD209 and CD163L1 were also inhibited after Hcy treatment. Overexpression of CD209 or CD163L1 prevents the Hcy-induced decrease in the proportion of M2 macrophages. This article identified changes in the modification level of m6A in macrophages by Hcy and revealed the possible mechanism by which Hcy induces macrophage polarization.</p>","PeriodicalId":11767,"journal":{"name":"Epigenetics","volume":"19 1","pages":"2437272"},"PeriodicalIF":2.9,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11622620/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142767390","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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
Global DNA methylation is not elevated in blood samples from Machado-Joseph disease mutation carriers. 在马查多-约瑟夫病突变携带者的血液样本中,全局 DNA 甲基化没有升高。
IF 2.9 3区 生物学
Epigenetics Pub Date : 2024-12-01 Epub Date: 2024-06-20 DOI: 10.1080/15592294.2024.2368995
Luís Teves, Ana Rosa Vieira Melo, Ana F Ferreira, Mafalda Raposo, Carolina Lemos, Conceição Bettencourt, Manuela Lima
{"title":"Global DNA methylation is not elevated in blood samples from Machado-Joseph disease mutation carriers.","authors":"Luís Teves, Ana Rosa Vieira Melo, Ana F Ferreira, Mafalda Raposo, Carolina Lemos, Conceição Bettencourt, Manuela Lima","doi":"10.1080/15592294.2024.2368995","DOIUrl":"10.1080/15592294.2024.2368995","url":null,"abstract":"<p><p>Machado-Joseph disease (MJD) is an autosomal dominant spinocerebellar ataxia (SCA) caused by a polyglutamine expansion in the ataxin-3 protein, which initiates a cascade of pathogenic events, including transcriptional dysregulation. Genotype-phenotype correlations in MJD are incomplete, suggesting an influence of additional factors, such as epigenetic modifications, underlying the MJD pathogenesis. DNA methylation is known to impact the pathophysiology of neurodegenerative disorders through gene expression regulation and increased methylation has been reported for other SCAs. In this work we aimed to analyse global methylation in MJD carriers. Global 5-mC levels were quantified in blood samples of 33 MJD mutation carriers (patients and preclinical subjects) and 33 healthy controls, matched by age, sex, and smoking status. For a subset of 16 MJD subjects, a pilot follow-up analysis with two time points was also conducted. No differences were found in median global 5-mC levels between MJD mutation carriers and controls and no correlations between methylation levels and clinical or genetic variables were detected. Also, no alterations in global 5-mC levels were observed over time. Our findings do not support an increase in global blood methylation levels associated with MJD.</p>","PeriodicalId":11767,"journal":{"name":"Epigenetics","volume":"19 1","pages":"2368995"},"PeriodicalIF":2.9,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11195492/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141426551","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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
Sex and tissue-specificity of piRNA regulation in adult mice following perinatal lead (Pb) exposure. 围产期铅(Pb)暴露后成年小鼠 piRNA 调节的性别和组织特异性。
IF 2.9 3区 生物学
Epigenetics Pub Date : 2024-12-01 Epub Date: 2024-11-13 DOI: 10.1080/15592294.2024.2426952
Bambarendage P U Perera, Kai Wang, Dongyue Wang, Kathleen Chen, Alisa Dewald, Swati Sriram, Jaclyn M Goodrich, Laurie K Svoboda, Maureen A Sartor, Dana C Dolinoy
{"title":"Sex and tissue-specificity of piRNA regulation in adult mice following perinatal lead (Pb) exposure.","authors":"Bambarendage P U Perera, Kai Wang, Dongyue Wang, Kathleen Chen, Alisa Dewald, Swati Sriram, Jaclyn M Goodrich, Laurie K Svoboda, Maureen A Sartor, Dana C Dolinoy","doi":"10.1080/15592294.2024.2426952","DOIUrl":"10.1080/15592294.2024.2426952","url":null,"abstract":"<p><p>Lead (Pb) is a neurotoxicant with early life exposure linked to long-term health effects. Piwi-interacting RNAs (piRNAs) are small non-coding RNAs that associate with PIWIL proteins to induce DNA methylation. It remains unknown whether Pb exposure influences piRNA expression. This study evaluated how perinatal Pb exposure (32 ppm in drinking water) impacts piRNA expression in adult mice and assessed piRNA dysregulation as a potential mechanism for Pb-induced toxicity. Pb exposure effects on piRNA expression and associated gene repression in the germline (testis/ovary) and soma (liver and brain) were evaluated. Small RNA sequencing was used to determine differentially expressed piRNAs, RT-qPCR to examine piRNA target expression, and whole genome bisulfite sequencing to evaluate target DNA methylation status. Three piRNAs (mmpiR-1500602, mmpiR-0201406, and mmpiR-0200026) were significant after multiple testing correction (all downregulated in the male Pb-exposed brain in comparison to control; FDR < 0.05). Within piOxiDB, TAO Kinase 3 was identified as a downstream mRNA target for one of the three Pb-sensitive piRNA. The Pb-exposed male brain exhibited increased <i>Taok3</i> expression (<i>p</i> < 0.05) and decreased DNA methylation (FDR < 0.01). The results demonstrate that perinatal Pb exposure stably influences longitudinal piRNA expression in a tissue- and sex-specific manner, potentially via DNA methylation-directed mechanisms.</p>","PeriodicalId":11767,"journal":{"name":"Epigenetics","volume":"19 1","pages":"2426952"},"PeriodicalIF":2.9,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11562917/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142617066","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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
Letter to the editor: critical evaluation of the reliability of DNA methylation probes on the illumina MethylationEPIC v1.0 BeadChip microarrays. 致编辑的信:对illumina MethylationEPIC v1.0 BeadChip芯片上DNA甲基化探针可靠性的批判性评估。
IF 2.9 3区 生物学
Epigenetics Pub Date : 2024-12-01 Epub Date: 2024-10-04 DOI: 10.1080/15592294.2024.2411470
Julian Hecker, Scott T Weiss, Jessica A Lasky-Su, Dawn L DeMeo, Christoph Lange
{"title":"Letter to the editor: critical evaluation of the reliability of DNA methylation probes on the illumina MethylationEPIC v1.0 BeadChip microarrays.","authors":"Julian Hecker, Scott T Weiss, Jessica A Lasky-Su, Dawn L DeMeo, Christoph Lange","doi":"10.1080/15592294.2024.2411470","DOIUrl":"10.1080/15592294.2024.2411470","url":null,"abstract":"","PeriodicalId":11767,"journal":{"name":"Epigenetics","volume":"19 1","pages":"2411470"},"PeriodicalIF":2.9,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11457593/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142375193","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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
Epigenome-wide association study of loneliness in a sample of U.S. middle-aged twins. 美国中年双胞胎孤独感的全表观基因组关联研究。
IF 2.9 3区 生物学
Epigenetics Pub Date : 2024-12-01 Epub Date: 2024-12-08 DOI: 10.1080/15592294.2024.2427999
Christopher R Beam, Kelly M Bakulski, Ebrahim Zandi, Eric Turkheimer, Morgan Lynch, Alaina I Gold, Thalida Em Arpawong, Sophie A Bell, Alyssa C Kam, Jonathan Becker, Deborah Winders Davis
{"title":"Epigenome-wide association study of loneliness in a sample of U.S. middle-aged twins.","authors":"Christopher R Beam, Kelly M Bakulski, Ebrahim Zandi, Eric Turkheimer, Morgan Lynch, Alaina I Gold, Thalida Em Arpawong, Sophie A Bell, Alyssa C Kam, Jonathan Becker, Deborah Winders Davis","doi":"10.1080/15592294.2024.2427999","DOIUrl":"10.1080/15592294.2024.2427999","url":null,"abstract":"<p><p>Loneliness is a complex human trait that is highly polygenic and found to affect gene expression related to inflammatory and immunological functioning. To date, no epigenome-wide association studies of loneliness have tested whether differentially methylated sites are annotated to genes associated with inflammatory and immunological processes. Using 281 individual adult twins' DNA methylation data from the Louisville Twin Study, we performed an epigenome-wide analysis of loneliness to address this gap in the literature. In the discovery analysis, 169 twins were used to prioritize probes and test associations with DNA methylation age acceleration, and 56 independent monozygotic (MZ) twin pairs (112 individuals) were used in a within-family replication analysis. Among the 837,274 sites analyzed, no probe sites were statistically significant at the genome-wide level (<i>p</i> < 5.97 × 10<sup>-8</sup>), but 25 suggestive sites (<i>p</i> < 5 × 10<sup>-5</sup>) were annotated to genes related to various biological processes, including inflammatory response and protein-binding functions that extend prior findings. The nominal associations at these suggestive probe sites were highly correlated (<i>r</i> = .72) between the discovery sample and the MZ pair replication sample. Finally, loneliness significantly correlated with the DunedinPACE DNA methylation measure, suggesting that higher levels of loneliness were associated with accelerated epigenetic age as quantified by a measure that indexes longitudinal changes across multiple organ systems.</p>","PeriodicalId":11767,"journal":{"name":"Epigenetics","volume":"19 1","pages":"2427999"},"PeriodicalIF":2.9,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11633227/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142793911","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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
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