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Updated: Sep 22, 2025

Quantitative Fluorescence In Situ Hybridization FISH and Immunofluorescence IF of Specific Gene Products in KSHV-Infected Cells
Published on: August 27, 2019
Investigating the structural changes due to adenosine methylation of the Kaposi's sarcoma-associated herpes virus
Konstantin Röder1, Amy M Barker2, Adrian Whitehouse2
1Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, United Kingdom.
Abstract:
Kaposi's sarcoma-associated herpes virus (KSHV) is a human oncovirus. KSHV relies on manipulating the host cell N6-methyl adenosine (m6A) RNA modification pathway to enhance virus replication. Methylation within a RNA stem loop of the open reading frame 50 (ORF50) increases transcript stability via the recruitment of the m6A reader, SND1. In this contribution we explore the energy landscapes of the unmethylated and methylated RNA stem loops of ORF50 to investigate the effect of methylation on the structure of the stem loop. We observe a significant shift upon methylation between an open and closed configuration of the top of the stem loop. In the unmethylated stem loop the closed configuration is much lower in energy, and, as a result, exhibits higher occupancy.
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