PUBLICATION
Nucleotide distance influences co-methylation between nearby CpG sites
- Authors
- Affinito, O., Palumbo, D., Fierro, A., Cuomo, M., De Riso, G., Monticelli, A., Miele, G., Chiariotti, L., Cocozza, S.
- ID
- ZDB-PUB-190513-4
- Date
- 2019
- Source
- Genomics 112(1): 144-150 (Journal)
- Registered Authors
- Keywords
- Co-methylation, DNA methylation, Intrinsic methylation susceptibility, Nearby CpG sites, Nucleotide distance effect
- MeSH Terms
-
- DNA Methylation*
- Animals
- Zebrafish/genetics
- Mice, Inbred C57BL
- Humans
- CpG Islands*
- DNA/chemistry
- Nucleotides/analysis
- PubMed
- 31078719 Full text @ Genomics
Citation
Affinito, O., Palumbo, D., Fierro, A., Cuomo, M., De Riso, G., Monticelli, A., Miele, G., Chiariotti, L., Cocozza, S. (2019) Nucleotide distance influences co-methylation between nearby CpG sites. Genomics. 112(1):144-150.
Abstract
The tendency of individual CpG sites to be methylated is distinctive, non-random and well-regulated throughout the genome. We investigated the structural and spatial factors influencing CpGs methylation by performing an ultra-deep targeted methylation analysis on human, mouse and zebrafish genes. We found that methylation is not a random process and that closer neighboring CpG sites are more likely to share the same methylation status. Moreover, if the distance between CpGs increases, the degree of co-methylation decreases. We set up a simulation model to analyze the contribution of both the intrinsic susceptibility and the distance effect on the probability of a CpG to be methylated. Our finding suggests that the establishment of a specific methylation pattern follows a universal rule that must take into account of the synergistic and dynamic interplay of these two main factors: the intrinsic methylation susceptibility of specific CpG and the nucleotide distance between two CpG sites.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping