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Review

Chemical and Enzymatic Probing of Viral RNAs: From Infancy to Maturity and Beyond

Université de Strasbourg, CNRS, Architecture et Réactivité de l’ARN, UPR9002, F-67000 Strasbourg, France
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Authors to whom correspondence should be addressed.
These authors contributed equally to this review.
Academic Editors: Anne Simon and Stuart F.J. Le Grice
Viruses 2021, 13(10), 1894; https://doi.org/10.3390/v13101894
Received: 27 August 2021 / Revised: 13 September 2021 / Accepted: 16 September 2021 / Published: 22 September 2021
(This article belongs to the Special Issue Viral RNA Structural Biology)
RNA molecules are key players in a variety of biological events, and this is particularly true for viral RNAs. To better understand the replication of those pathogens and try to block them, special attention has been paid to the structure of their RNAs. Methods to probe RNA structures have been developed since the 1960s; even if they have evolved over the years, they are still in use today and provide useful information on the folding of RNA molecules, including viral RNAs. The aim of this review is to offer a historical perspective on the structural probing methods used to decipher RNA structures before the development of the selective 2′-hydroxyl acylation analyzed by primer extension (SHAPE) methodology and to show how they have influenced the current probing techniques. Actually, these technological breakthroughs, which involved advanced detection methods, were made possible thanks to the development of next-generation sequencing (NGS) but also to the previous works accumulated in the field of structural RNA biology. Finally, we will also discuss how high-throughput SHAPE (hSHAPE) paved the way for the development of sophisticated RNA structural techniques. View Full-Text
Keywords: RNA; structure; enzymatic probe; chemical probe; SHAPE; capillary electrophoresis; high-throughput sequencing; mutational profiling RNA; structure; enzymatic probe; chemical probe; SHAPE; capillary electrophoresis; high-throughput sequencing; mutational profiling
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MDPI and ACS Style

Gilmer, O.; Quignon, E.; Jousset, A.-C.; Paillart, J.-C.; Marquet, R.; Vivet-Boudou, V. Chemical and Enzymatic Probing of Viral RNAs: From Infancy to Maturity and Beyond. Viruses 2021, 13, 1894. https://doi.org/10.3390/v13101894

AMA Style

Gilmer O, Quignon E, Jousset A-C, Paillart J-C, Marquet R, Vivet-Boudou V. Chemical and Enzymatic Probing of Viral RNAs: From Infancy to Maturity and Beyond. Viruses. 2021; 13(10):1894. https://doi.org/10.3390/v13101894

Chicago/Turabian Style

Gilmer, Orian, Erwan Quignon, Anne-Caroline Jousset, Jean-Christophe Paillart, Roland Marquet, and Valérie Vivet-Boudou. 2021. "Chemical and Enzymatic Probing of Viral RNAs: From Infancy to Maturity and Beyond" Viruses 13, no. 10: 1894. https://doi.org/10.3390/v13101894

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