Journal
BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS
Volume 1862, Issue 3, Pages 280-290Publisher
ELSEVIER
DOI: 10.1016/j.bbagrm.2018.10.012
Keywords
Post-transcriptional modifications; LC-MS; Positional isomers; Nucleoside analysis; RNA modification mapping
Categories
Funding
- National Institutes of Health [NIGMS R01 058843, OD OD018485]
- National Science Foundation (REU fellowship) [NSF-REU 1659648]
- University of Cincinnati
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A small set of ribonucleoside modifications have been found in different regions of mRNA including the open reading frame. Accurate detection of these specific modifications is critical to understanding their modulatory roles in facilitating mRNA maturation, translation and degradation. While transcriptome-wide next-generation sequencing (NGS) techniques could provide exhaustive information about the sites of one specific or class of modifications at a time, recent investigations strongly indicate cautionary interpretation due to the appearance of false positives. Therefore, it is suggested that NGS-based modification data can only be treated as predicted sites and their existence need to be validated by orthogonal methods. Liquid chromatography-tandem mass spectrometry (LC-MS/MS) is an analytical technique that can yield accurate and reproducible information about the qualitative and quantitative characteristics of ribonucleoside modifications. Here, we review the recent advancements in LC-MS/MS technology that could help in securing accurate, gold-standard quality information about the resident post-transcriptional modifications of mRNA.
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