Open AccessPhysical and Functional Analysis of Viral RNA Genomes by SHAPE
Author(s) -
Mark A. Boerneke,
Jeffrey E Ehrhardt,
Kevin M. Weeks
Publication year - 2019
Publication title -
annual review of virology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 5.605
H-Index - 42
eISSN - 2327-0578
pISSN - 2327-056X
DOI - 10.1146/annurev-virology-092917-043315
Subject(s) - biology , rna , genome , computational biology , genetics , encode , viral replication , gene , viral evolution , virus
RNA viruses encode the information required to usurp cellular metabolism and gene regulation and to enable their own replication in two ways: in the linear sequence of their RNA genomes and in higher-order structures that form when the genomic RNA strand folds back on itself. Application of high-resolution SHAPE (selective 2′-hydroxyl acylation analyzed by primer extension) structure probing to viral RNA genomes has identified numerous new regulatory elements, defined new principles by which viral RNAs interact with the cellular host and evade host immune responses, and revealed relationships between virus evolution and RNA structure. This review summarizes our current understanding of genome structure-function interrelationships for RNA viruses, as informed by SHAPE structure probing, and outlines opportunities for future studies.