Evaluating the global CpG methylation status of native DNA utilizing a bipartite split-luciferase sensor

Ahmed H. Badran, Jennifer L. Furman, Andrew S. Ma, Troy J. Comi, Jason R. Porter, Indraneel Ghosh

Research output: Contribution to journalArticle

22 Citations (Scopus)

Abstract

Epigenetic modifications play an essential role in the regulation of gene expression and ultimately cell fate. Methylation of cytosine at CpG dinucleotides (mCpG) is an important epigenetic mark that has been correlated with cancer when present at promoter sites of tumor suppressor genes. To develop a rapid methodology for the direct assessment of global levels of DNA methylation, we first interrogated the methyl-CpG binding domains (MBDs), the Kaiso family of Cys 2-His 2 zinc fingers, and an SET- and RING-associated domain using a split-luciferase reassembly methodology. We identified MBD1 as the most selective domain for the discrimination between mCpG and CpG sites with over 90-fold selectivity. Utilizing a bipartite strategy, we constructed a purely methylation-dependent bipartite sensor for the direct detection of global levels of DNA methylation by attaching MBD1 domains to each of the split-luciferase halves. This new sensor was validated for the direct determination of genomic DNA methylation levels in in vitro studies without any intervening chemical or enzymatic processing of DNA. Finally, we demonstrated that this bipartite sensor can be utilized for monitoring dose-dependent changes in global levels of methylation in DNA from HeLa cells challenged with 5-aza-2′-deoxycytidine, a DNA methyltransferase inhibitor.

Original languageEnglish (US)
Pages (from-to)7151-7157
Number of pages7
JournalAnalytical Chemistry
Volume83
Issue number18
DOIs
StatePublished - Sep 15 2011

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Methylation
Luciferases
decitabine
DNA
Sensors
Cytosine
Methyltransferases
Gene expression
Zinc
Tumors
Genes
Monitoring
Processing
DNA Methylation

ASJC Scopus subject areas

  • Analytical Chemistry

Cite this

Evaluating the global CpG methylation status of native DNA utilizing a bipartite split-luciferase sensor. / Badran, Ahmed H.; Furman, Jennifer L.; Ma, Andrew S.; Comi, Troy J.; Porter, Jason R.; Ghosh, Indraneel.

In: Analytical Chemistry, Vol. 83, No. 18, 15.09.2011, p. 7151-7157.

Research output: Contribution to journalArticle

Badran, Ahmed H. ; Furman, Jennifer L. ; Ma, Andrew S. ; Comi, Troy J. ; Porter, Jason R. ; Ghosh, Indraneel. / Evaluating the global CpG methylation status of native DNA utilizing a bipartite split-luciferase sensor. In: Analytical Chemistry. 2011 ; Vol. 83, No. 18. pp. 7151-7157.
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