scholarly journals Global DNA methylation patterns through an array-based approach in small intestinal neuroendocrine tumors

2013 ◽  
Vol 21 (1) ◽  
pp. L5-L7 ◽  
Author(s):  
Alberto Delgado Verdugo ◽  
Joakim Crona ◽  
Lee Starker ◽  
Peter Stålberg ◽  
Göran Åkerström ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Neuroendocrine Tumors ◽  
Global Dna Methylation ◽  
Small Intestinal ◽  
Methylation Patterns

scholarly journals DNA methylation patterns identify subgroups of pancreatic neuroendocrine tumors with clinical association

2021 ◽  
Vol 4 (1) ◽  
Author(s):  
Vanessa Lakis ◽  
◽  
Rita T. Lawlor ◽  
Felicity Newell ◽  
Ann-Marie Patch ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Neuroendocrine Tumors ◽  
Methylation Profile ◽  
Pancreatic Neuroendocrine Tumors ◽  
Wild Type ◽  
Genomic Information ◽  
Chromosome 11 ◽  
Dna Methylation Profile ◽  
Methylation Patterns ◽  
Recurrent Patterns

AbstractHere we report the DNA methylation profile of 84 sporadic pancreatic neuroendocrine tumors (PanNETs) with associated clinical and genomic information. We identified three subgroups of PanNETs, termed T1, T2 and T3, with distinct patterns of methylation. The T1 subgroup was enriched for functional tumors and ATRX, DAXX and MEN1 wild-type genotypes. The T2 subgroup contained tumors with mutations in ATRX, DAXX and MEN1 and recurrent patterns of chromosomal losses in half of the genome with no association between regions with recurrent loss and methylation levels. T2 tumors were larger and had lower methylation in the MGMT gene body, which showed positive correlation with gene expression. The T3 subgroup harboured mutations in MEN1 with recurrent loss of chromosome 11, was enriched for grade G1 tumors and showed histological parameters associated with better prognosis. Our results suggest a role for methylation in both driving tumorigenesis and potentially stratifying prognosis in PanNETs.

scholarly journals A maternal effect regulates global DNA methylation patterns

2020 ◽  
Author(s):  
Remco Loos ◽  
Valeria Carola ◽  
Enrica Audero ◽  
Elena Brini ◽  
Luisa Lo Iacono ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Maternal Effect ◽  
Cpg Island ◽  
Inbred Mouse ◽  
Mouse Strains ◽  
Global Dna Methylation ◽  
Global Methylation ◽  
Genome Methylation ◽  
Genetic And Environmental Factors ◽  
Methylation Patterns

AbstractVariation in DNA methylation between individuals has been shown to be influenced by both genetic and environmental factors. However, the relative impact of genetic and non-genetic factors on DNA methylation patterns across the mammalian genome has not been systematically studied. We performed whole-genome methylation analysis in two inbred mouse strains, revealing striking differences in the global distribution of DNA methylation. Although global methylation patterns were indistinguishable for most genomic features, a significant increase in the number of unmethylated CpG-island promoters and first exons was observed between strains. Experiments using F1 reciprocal hybrid strains demonstrated that the genotype of the mother dictated global DNA methylation patterns. Cross-fostering experiments ruled out a postnatal maternal effect on these differences and suggested that they were driven by a prenatal maternal effect, possibly via differential deposition of maternal gene products into the oocyte or uterine environment. These data demonstrate that maternal effects have a major impact on global DNA methylation patterns.

scholarly journals Influence of tobacco cigarette heavy smoking on DNA methylation patterns and transcription levels of MAPK8IP3, GAA, ANXA2, PRRC2A, and PDE11A genes in human spermatozoa

2021 ◽  
Vol 26 (1) ◽  
Author(s):  
Mohammed M. Laqqan ◽  
Maged M. Yassin
Keyword(s):  
Dna Methylation ◽  
Semen Parameters ◽  
Global Dna Methylation ◽  
Transcription Level ◽  
Heavy Smoking ◽  
Tobacco Cigarette ◽  
Sperm Dna ◽  
Methylation Patterns ◽  
Heavy Smokers ◽  
Sperm Dna Methylation

Abstract Background Tobacco smoking is considered as one of the lifestyles factors that influence the sperm DNA methylation and global sperm DNA methylation and that may affect the sperm phenotype. This study was performed to investigate whether tobacco cigarette heavy smoking influences sperm DNA methylation patterns and semen parameters and to determine whether there is an alteration in the transcription level of MAPK8IP3, GAA, ANXA2, PRRC2A, and PDE11A genes in heavy smokers compared to non-smokers. Thirty samples were subjected to 450K arrays as a screening study to assess the variation in sperm DNA methylation levels between heavy smokers and non-smokers. Five CpG sites have the highest difference in methylation levels (cg07869343, cg05813498, cg09785377, cg06833981, and cg02745784), which are located in the MAPK8IP3, GAA, ANXA2, PRRC2A, and PDE11A genes, respectively, and were selected for further analysis using deep bisulfite sequencing in 280 independent samples (120 proven non-smokers and 160 heavy smokers) with a mean age of 33.8 ± 8.4 years. The global sperm DNA methylation, sperm DNA fragmentation, and chromatin non-condensation were evaluated also. Results A significant increase was found in the methylation level at seven, three, and seventeen CpGs within the GAA, ANXA2, and MAPK8IP3 genes amplicon, respectively (P< 0.01) in heavy smokers compared to non-smokers. Additionally, a significant increase was found in the methylation levels at all CpGs within PRRC2A and PDE11A gene amplicon (P< 0.01). A significant increase was found in the level of sperm chromatin non-condensation, DNA fragmentation, and global DNA methylation (P < 0.001) in heavy smokers compared to non-smokers. Conclusion These results indicate that tobacco cigarette smoking can alter the DNA methylation level at several CpGs, the status of global DNA methylation, and transcription level of the following genes “MAPK8IP3, GAA, ANXA2, PRRC2A, and PDE11A” in human spermatozoa. These findings may affect negatively semen parameters and men’s fertility.

scholarly journals Global DNA Methylation Patterns Can Play a Role in Defining Terroir in Grapevine (Vitis vinifera cv. Shiraz)

2017 ◽  
Vol 8 ◽  
Author(s):  
Huahan Xie ◽  
Moumouni Konate ◽  
Na Sai ◽  
Kiflu G. Tesfamicael ◽  
Timothy Cavagnaro ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Vitis Vinifera ◽  
Global Dna Methylation ◽  
Methylation Patterns

Global DNA Methylation Patterns in Placenta and Its Association with Maternal Hypertension in Pre-Eclampsia

2011 ◽  
Vol 30 (2) ◽  
pp. 79-84 ◽  
Author(s):  
Asmita Kulkarni ◽  
Preeti Chavan-Gautam ◽  
Savita Mehendale ◽  
Hemlata Yadav ◽  
Sadhana Joshi
Keyword(s):  
Dna Methylation ◽  
Global Dna Methylation ◽  
Maternal Hypertension ◽  
Methylation Patterns

Fine-grained investigation of the relationship between human nutrition and global DNA methylation patterns

2021 ◽  
Author(s):  
Fabrizia Noro ◽  
Annalisa Marotta ◽  
Marialaura Bonaccio ◽  
Simona Costanzo ◽  
Federica Santonastaso ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Human Nutrition ◽  
Global Dna Methylation ◽  
Fine Grained ◽  
Methylation Patterns ◽  
The Relationship
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