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High Sensitivity 5-hydroxymethylcytosine Detection in Balb/C Brain Tissue

High Sensitivity 5-hydroxymethylcytosine Detection in Balb/C Brain Tissue

Published on: February 1, 2011

A method for identifying allele-specific hydroxymethylation.

Yoichi Yamada¹, Sho Sasaki²

¹Faculty of Electrical and Computer Engineering, Institute of Science and Engineering, Kanazawa University, Kanazawa, Japan.

|September 20, 2019

Summary

Researchers developed a new method to study DNA hydroxymethylation, uncovering novel sequence- and parent-of-origin-dependent allele-specific hydroxymethylation sites. This work sheds light on genetic variations and genomic imprinting mechanisms.

Keywords:

DNA methylation allele-specific methylation hydroxymethylation imprinting restriction enzyme

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Last Updated: Jan 19, 2026

High Sensitivity 5-hydroxymethylcytosine Detection in Balb/C Brain Tissue

High Sensitivity 5-hydroxymethylcytosine Detection in Balb/C Brain Tissue

Published on: February 1, 2011

DNA Methylation: Bisulphite Modification and Analysis

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Published on: October 21, 2011

LINE-1 Methylation Analysis in Mesenchymal Stem Cells Treated with Osteosarcoma-Derived Extracellular Vesicles

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Published on: February 1, 2020

Area of Science:

Epigenetics
Genomics
Molecular Biology

Background:

Allele-specific methylation (ASM) is prevalent in mammals, influencing gene expression.
Sequence-dependent ASM (sd-ASM) and parent-of-origin-dependent ASM (pd-ASM) are known epigenetic mechanisms.
Technical limitations hinder the comprehensive understanding of methylation and hydroxymethylation at ASM sites.

Purpose of the Study:

To develop a novel method for examining allelic hydroxymethylation status.
To identify novel sequence- and parent-of-origin-dependent allele-specific hydroxymethylation sites.
To elucidate mechanisms of disease susceptibility and genomic imprinting.

Main Methods:

Development of a simple method to determine allelic hydroxymethylation status.
Analysis of sequence- and parent-of-origin-dependent allele-specific hydroxymethylation.
Correlation analysis of TF binding sequences with methylation/hydroxymethylation across three mouse strains.

Main Results:

Identification of novel sequence- and parent-of-origin-dependent allele-specific hydroxymethylation sites.
Demonstration of the method's ability to overcome limitations of conventional techniques.
Revealed the involvement of Pax5 in strain-specific methylation and hydroxymethylation of Pdgfrb exon 7.

Conclusions:

The developed method enables precise analysis of allelic hydroxymethylation.
New insights into the epigenetic regulation of gene expression and imprinting.
Identified Pax5 as a key factor in strain-specific epigenetic modifications of Pdgfrb.