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BMC Genet. 2013 Jun 18;14:56. doi: 10.1186/1471-2156-14-56.

High-throughput sequencing of methylated cytosine enriched by modification-dependent restriction endonuclease MspJI.

Author information

1
Science & Technology Department, BGI-Shenzhen, Building No, 11, Bei Shan Industrial Zone, Yantian District, Shenzhen 518083, China.

Abstract

BACKGROUND:

As a well-known epigenomic modification, DNA methylation is found to be common in plants and plays an important role in many biological processes. Relying on the unique feature of methylation-dependent digestion, the family of methylation-requiring restriction-like endonuclease, such as MspJI and its homologs, was suggested for a potential usage in methylation detection.

RESULTS:

In this study, we combine MspJI digestion and electrophoretic band selection with next generation high-throughput sequencing technology to detect 5-methylcytosines in Arabidopsis genome. By developing a bioinformatics workflow to attribute the CNNR sites recognized by MspJI to the reference genome, we fulfilled the systematic assessment of this method.

CONCLUSIONS:

According to the assessment, here we provide the method for generating a detailed map of plant methylome that could be feasible, reliable and economical in methylation investigation.

PMID:
23773292
PMCID:
PMC3718668
DOI:
10.1186/1471-2156-14-56
[Indexed for MEDLINE]
Free PMC Article

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