A Refined, Rapid and Reproducible High Resolution Melt (HRM)-based Method Suitable for Quantification of Global LINE-1 Repetitive Element Methylation
Overview
General Medicine
Affiliations
Background: The methylation of DNA is recognized as a key mechanism in the regulation of genomic stability and evidence for its role in the development of cancer is accumulating. LINE-1 methylation status represents a surrogate measure of genome-wide methylation.
Findings: Using high resolution melt (HRM) curve analysis technology, we have established an in-tube assay that is linear (r > 0.9986) with a high amplification efficiency (90-105%), capable of discriminating between partcipant samples with small differences in methylation, and suitable for quantifying a wide range of LINE-1 methylation levels (0-100%)--including the biologically relevant range of 50-90% expected in human DNA. We have optimized this procedure to perform using 2 μg of starting DNA and 2 ng of bisulfite-converted DNA for each PCR reaction. Intra- and inter-assay coefficients of variation were 1.44% and 0.49%, respectively, supporting the high reproducibility and precision of this approach.
Conclusions: In summary, this is a completely linear, quantitative HRM PCR method developed for the measurement of LINE-1 methylation. This cost-efficient, refined and reproducible assay can be performed using minimal amounts of starting DNA. These features make our assay suitable for high throughput analysis of multiple samples from large population-based studies.
Koshizaka M, Eguchi A, Takaguchi K, Yamamoto M, Takatani R, Hisada A BMJ Open. 2024; 14(12):e085682.
PMID: 39653579 PMC: 11628962. DOI: 10.1136/bmjopen-2024-085682.
Ozkan-Kotiloglu S, Kaya-Akyuzlu D, Guven E, Dogan O, Agtas-Ertan E, Ozgur-Ilhan I Mol Biol Rep. 2024; 51(1):663.
PMID: 38771494 DOI: 10.1007/s11033-024-09585-4.
Gorzkiewicz M, Los-Rycharska E, Gawryjolek J, Golebiewski M, Krogulska A, Grzybowski T Front Immunol. 2023; 14:1209190.
PMID: 37520545 PMC: 10373304. DOI: 10.3389/fimmu.2023.1209190.
Methylomic biomarkers of lithium response in bipolar disorder: a clinical utility study.
Marie-Claire C, Courtin C, Bellivier F, Gard S, Leboyer M, Scott J Int J Bipolar Disord. 2023; 11(1):16.
PMID: 37119343 PMC: 10148930. DOI: 10.1186/s40345-023-00296-6.
Methylation levels assessment with Methylation-Sensitive High-Resolution Melting (MS-HRM).
Samso Mathiasen S, Binkowski J, Kjeldsen T, Wojdacz T, Hansen L PLoS One. 2022; 17(9):e0273058.
PMID: 36067175 PMC: 9447921. DOI: 10.1371/journal.pone.0273058.