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Epigenomics

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https://www.readbyqxmd.com/read/27919171/cpg-methylation-participates-in-regulation-of-hepatitis-b-virus-gene-expression-in-host-sperm-and-sperm-derived-embryos
#1
ChengYao Zhong, Hui Lu, TingTing Han, XiaoFang Tan, PengHao Li, JiHua Huang, QingDong Xie, ZhiWei Hou, Ting Qu, Yang Jiang, Sheng Wang, Lan Xu, Ying Zhong, TianHua Huang
AIM: This study was undertaken to investigate relationship between hepatitis B virus (HBV) CpG methylation and HBV gene transcription in sperm and sperm-derived embryos. METHODS: HBV-infected patient sperm and HBV plasmid-transfected donor sperm were subjected to interspecific in vitro fertilization, methylation-specific PCR, bisulfite sequencing PCR, reverse transcription PCR and real-time quantitative PCR. RESULTS: Positive methylation bands for CpG islands II and III in the HBV genome were observed in patient sperm but not in controls, and methylation percentages of CpG sites varied among different patient sperm samples...
December 6, 2016: Epigenomics
https://www.readbyqxmd.com/read/27911095/epigenetic-alterations-in-blood-mirror-age-associated-dna-methylation-and-gene-expression-changes-in-human-liver
#2
Madhusudhan Bysani, Alexander Perfilyev, Vanessa D de Mello, Tina Rönn, Emma Nilsson, Jussi Pihlajamäki, Charlotte Ling
AIM: To study the impact of aging on DNA methylation and mRNA expression in human liver. EXPERIMENTAL PROCEDURES: We analysed genome-wide DNA methylation and gene expression in human liver samples using Illumina 450K and HumanHT12 expression BeadChip arrays. RESULTS: DNA methylation analysis of ∼455,000 CpG sites in human liver revealed that age was significantly associated with altered DNA methylation of 20,396 CpG sites. Comparison of liver methylation data with published methylation data in other tissues showed that vast majority of the age-associated significant CpG sites overlapped between liver and blood, whereas a smaller overlap was found between liver and pancreatic islets or adipose tissue, respectively...
December 2, 2016: Epigenomics
https://www.readbyqxmd.com/read/27911079/trans-acting-epigenetic-effects-of-chromosomal-aneuploidies-lessons-from-down-syndrome-and-mouse-models
#3
Catherine Do, Zhuo Xing, Y Eugene Yu, Benjamin Tycko
An important line of postgenomic research seeks to understand how genetic factors can influence epigenetic patterning. Here we review epigenetic effects of chromosomal aneuploidies, focusing on findings in Down syndrome (DS, trisomy 21). Recent work in human DS and mouse models has shown that the extra chromosome 21 acts in trans to produce epigenetic changes, including differential CpG methylation (DS-DM), in specific sets of downstream target genes, mostly on other chromosomes. Mechanistic hypotheses emerging from these data include roles of chromosome 21-linked methylation pathway genes (DNMT3L and others) and transcription factor genes (RUNX1, OLIG2, GABPA, ERG and ETS2) in shaping the patterns of DS-DM...
December 2, 2016: Epigenomics
https://www.readbyqxmd.com/read/27908198/tet-proteins-master-regulators-of-vertebrate-body-plan-formation
#4
Ozren Bogdanović
No abstract text is available yet for this article.
December 2, 2016: Epigenomics
https://www.readbyqxmd.com/read/27894195/accelerated-placental-aging-in-early-onset-preeclampsia-pregnancies-identified-by-dna-methylation
#5
Benjamin T Mayne, Shalem Y Leemaqz, Alicia K Smith, James Breen, Claire T Roberts, Tina Bianco-Miotto
AIM: To determine whether dynamic DNA methylation changes in the human placenta can be used to predict gestational age. MATERIALS & METHODS: Publicly available placental DNA methylation data from 12 studies, together with our own dataset, using Illumina Infinium Human Methylation BeadChip arrays. RESULTS & CONCLUSION: We developed an accurate tool for predicting gestational age of placentas using 62 CpG sites. There was a higher predicted gestational age for placentas from early onset preeclampsia cases, but not term preeclampsia, compared with their chronological age...
November 29, 2016: Epigenomics
https://www.readbyqxmd.com/read/27885849/dna-methylation-at-diagnosis-is-associated-with-response-to-disease-modifying-drugs-in-early-rheumatoid-arthritis
#6
John R Glossop, Nicola B Nixon, Richard D Emes, Julius Sim, Jon C Packham, Derek L Mattey, William E Farrell, Anthony A Fryer
AIM: A proof-of-concept study to explore whether DNA methylation at first diagnosis is associated with response to disease-modifying antirheumatic drugs (DMARDs) in patients with early rheumatoid arthritis (RA). PATIENTS & METHODS: DNA methylation was quantified in T-lymphocytes from 46 treatment-naive patients using HumanMethylation450 BeadChips. Treatment response was determined in 6 months using the European League Against Rheumatism (EULAR) response criteria...
November 25, 2016: Epigenomics
https://www.readbyqxmd.com/read/27885845/dna-methylation-in-systemic-lupus-erythematosus
#7
Christian M Hedrich, Katrin Mäbert, Thomas Rauen, George C Tsokos
Systemic lupus erythematosus (SLE) is a systemic autoimmune disease facilitated by aberrant immune responses directed against cells and tissues, resulting in inflammation and organ damage. In the majority of patients, genetic predisposition is accompanied by additional factors conferring disease expression. While the exact molecular mechanisms remain elusive, epigenetic alterations in immune cells have been demonstrated to play a key role in disease pathogenesis through the dysregulation of gene expression...
November 25, 2016: Epigenomics
https://www.readbyqxmd.com/read/27885842/crucial-role-of-noncoding-rna-in-driving-prostate-cancer-development-and-progression
#8
Haiyang Guo, Musaddeque Ahmed, Junjie Hua, Fraser Soares, Housheng Hansen He
No abstract text is available yet for this article.
November 25, 2016: Epigenomics
https://www.readbyqxmd.com/read/27884066/training-a-model-for-estimating-leukocyte-composition-using-whole-blood-dna-methylation-and-cell-counts-as-reference
#9
Jonathan A Heiss, Lutz P Breitling, Benjamin Lehne, Jaspal S Kooner, John C Chambers, Hermann Brenner
AIM: Whole-blood DNA methylation depends on the underlying leukocyte composition and confounding hereby is a major concern in epigenome-wide association studies. Cell counts are often missing or may not be feasible. Computational approaches estimate leukocyte composition from DNA methylation based on reference datasets of purified leukocytes. We explored the possibility to train such a model on whole-blood DNA methylation and cell counts without the need for purification. MATERIALS & METHODS: Using whole-blood DNA methylation and corresponding five-part cell counts from 2445 participants from the London Life Sciences Prospective Population Study, a model was trained on a subset of 175 subjects and evaluated on the remaining...
November 25, 2016: Epigenomics
https://www.readbyqxmd.com/read/27882781/age-related-epigenetic-drift-and-phenotypic-plasticity-loss-implications-in-prevention-of-age-related-human-diseases
#10
Yuanyuan Li, Trygve O Tollefsbol
Aging is considered as one of the most important developmental processes in organisms and is closely associated with global deteriorations of epigenetic markers such as aberrant methylomic patterns. This altered epigenomic state, referred to 'epigenetic drift', reflects deficient maintenance of epigenetic marks and contributes to impaired cellular and molecular functions in aged cells. Epigenetic drift-induced abnormal changes during aging are scantily repaired by epigenetic modulators. This inflexibility in the aged epigenome may lead to an age-related decline in phenotypic plasticity at the cellular and molecular levels due to epigenetic drift...
November 24, 2016: Epigenomics
https://www.readbyqxmd.com/read/27882772/mirnas-differentially-expressed-by-next-generation-sequencing-in-cord-blood-buffy-coat-samples-of-boys-and-girls
#11
Daneida Lizarraga, Karen Huen, Mary Combs, Maria Escudero-Fung, Brenda Eskenazi, Nina Holland
AIM: Differences in children's development and susceptibility to diseases and exposures have been observed by sex, yet human studies of sex differences in miRNAs are limited. MATERIALS & METHODS: The genome-wide miRNA expression was characterized by sequencing-based EdgeSeq assay in cord blood buffy coats from 89 newborns, and 564 miRNAs were further analyzed. RESULTS: Differential expression of most miRNAs was higher in boys. Neurodevelopment, RNA metabolism and metabolic ontology terms were enriched among miRNA targets...
November 24, 2016: Epigenomics
https://www.readbyqxmd.com/read/27869483/the-epigenetic-impacts-of-social-stress-how-does-social-adversity-become-biologically-embedded
#12
Vincent T Cunliffe
Epigenetic mechanisms are implicated in the processes through which social stressors erode health in humans and other animals. Here I review progress in elucidating the biological pathways underlying the social gradient in health, with particular emphasis on how behavioral stresses influence epigenomic variation linked to health. The evidence that epigenetic changes are involved in embedding of social status-linked chronic stress is reviewed in the context of current knowledge about behavior within animal dominance hierarchies and the impacts of social position on behaviors that affect health...
November 21, 2016: Epigenomics
https://www.readbyqxmd.com/read/27855496/prenatal-diet-and-childhood-adhd-exploring-the-potential-role-of-igf2-methylation
#13
Charlotte Am Cecil, Esther Walton, Edward D Barker
No abstract text is available yet for this article.
November 18, 2016: Epigenomics
https://www.readbyqxmd.com/read/27855491/tick-tock-dna-methylation-the-epigenetic-clock-and-exceptional-longevity
#14
Karen A Mather, Nicola J Armstrong, Anbupalam Thalamuthu, John Bj Kwok
No abstract text is available yet for this article.
November 18, 2016: Epigenomics
https://www.readbyqxmd.com/read/27855486/yin-yang-actions-of-histone-methylation-regulatory-complexes-in-the-brain
#15
Patricia Marie Garay, Margarete Aryanka Wallner, Shigeki Iwase
Dysregulation of histone methylation has emerged as a major driver of neurodevelopmental disorders including intellectual disabilities and autism spectrum disorders. Histone methyl writer and eraser enzymes generally act within multisubunit complexes rather than in isolation. However, it remains largely elusive how such complexes cooperate to achieve the precise spatiotemporal gene expression in the developing brain. Histone H3K4 methylation (H3K4me) is a chromatin signature associated with active gene-regulatory elements...
November 18, 2016: Epigenomics
https://www.readbyqxmd.com/read/27854126/human-adipogenesis-is-associated-with-genome-wide-dna-methylation-and-gene-expression-changes
#16
Christa Broholm, Anders Henrik Olsson, Alexander Perfilyev, Linn Gillberg, Ninna Schiøler Hansen, Ashfaq Ali, Brynjulf Mortensen, Charlotte Ling, Allan Vaag
AIM: To define the genomic distribution and function of DNA methylation changes during human adipogenesis. METHODS: We isolated adipocyte-derived stem cells from 13 individuals and analyzed genome-wide DNA methylation and gene expression in cultured adipocyte-derived stem cells and mature adipocytes. RESULTS: We observed altered DNA methylation of 11,947 CpG sites and altered expression of 11,830 transcripts after differentiation. De novo methylation was observed across all genomic elements...
November 17, 2016: Epigenomics
https://www.readbyqxmd.com/read/27779424/putting-a-brake-on-stress-signaling-mir-625-3p-as-a-biomarker-for-choice-of-therapy-in-colorectal-cancer
#17
Iben Lyskjær, Mads H Rasmussen, Claus L Andersen
No abstract text is available yet for this article.
October 25, 2016: Epigenomics
https://www.readbyqxmd.com/read/27762633/developmental-epigenetic-programming-of-adult-germ-cell-death-disease-polycomb-protein-ezh2-mir-101-pathway
#18
Bénazir Siddeek, Nadjem Lakhdari, Lilia Inoubli, Rachel Paul-Bellon, Véronique Isnard, Emmanuelle Thibault, André Bongain, Daniel Chevalier, Emanuela Repetto, Michele Trabucchi, Jean-François Michiels, Catherine Yzydorczyk, Umberto Simeoni, Michel Urtizberea, Claire Mauduit, Mohamed Benahmed
AIM: The Developmental Origin of Health and Disease refers to the concept that early exposure to toxicants or nutritional imbalances during perinatal life induces changes that enhance the risk of developing noncommunicable diseases in adulthood. Patients/materials & methods: An experimental model with an adult chronic germ cell phenotype resulting from exposure to a xenoestrogen was used. RESULTS: A reciprocal negative feedback loop involving decreased EZH2 protein level and increased miR-101 expression was identified...
October 20, 2016: Epigenomics
https://www.readbyqxmd.com/read/27762626/genome-wide-dna-methylation-in-saliva-and-body-size-of-adolescent-girls
#19
Trine B Rounge, Christian M Page, Maija Lepistö, Pekka Ellonen, Bettina K Andreassen, Elisabete Weiderpass
AIM: We performed an epigenome-wide association study within the Finnish Health in Teens cohort to identify differential DNA methylation and its association with BMI in adolescents. MATERIALS & METHODS: Differential DNA methylation analyses of 3.1 million CpG sites were performed in saliva samples from 50 lean and 50 heavy adolescent girls by genome-wide targeted bisulfite-sequencing. RESULTS: We identified 100 CpG sites with p-values < 0...
October 20, 2016: Epigenomics
https://www.readbyqxmd.com/read/27734715/corrigendum
#20
(no author information available yet)
No abstract text is available yet for this article.
October 13, 2016: Epigenomics
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