Viral RNA structure-based strategies to manipulate translation

ZA Jaafar, JS Kieft - Nature Reviews Microbiology, 2019 - nature.com
Viruses must co-opt the cellular translation machinery to produce progeny virions.
Eukaryotic viruses have evolved a variety of ways to manipulate the cellular translation …

SHAPE-directed RNA secondary structure prediction

JT Low, KM Weeks - Methods, 2010 - Elsevier
The diverse functional roles of RNA are determined by its underlying structure. Accurate and
comprehensive knowledge of RNA structure would inform a broader understanding of RNA …

The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data

M Parisien, F Major - Nature, 2008 - nature.com
The classical RNA secondary structure model considers A· U and G· C Watson–Crick as well
as G· U wobble base pairs. Here we substitute it for a new one, in which sets of nucleotide …

Frameshifting RNA pseudoknots: structure and mechanism

DP Giedroc, PV Cornish - Virus research, 2009 - Elsevier
Programmed ribosomal frameshifting (PRF) is one of the multiple translational recoding
processes that fundamentally alters triplet decoding of the messenger RNA by the …

Programmed ribosomal frameshifting in HIV-1 and the SARS–CoV

I Brierley, FJ Dos Ramos - Virus research, 2006 - Elsevier
Ribosomal frameshifting is a mechanism of gene expression used by several RNA viruses to
express replicase enzymes. This article focuses on frameshifting in two human pathogens …

Mechanisms employed by retroviruses to exploit host factors for translational control of a complicated proteome

C Bolinger, K Boris-Lawrie - Retrovirology, 2009 - Springer
Retroviruses have evolved multiple strategies to direct the synthesis of a complex proteome
from a single primary transcript. Their mechanisms are modulated by a breadth of virus-host …

Structural and functional Insights into viral programmed ribosomal frameshifting

CH Hill, I Brierley - Annual review of virology, 2023 - annualreviews.org
Protein synthesis by the ribosome is the final stage of biological information transfer and
represents an irreversible commitment to gene expression. Accurate translation of …

HIV-1 frameshift efficiency is primarily determined by the stability of base pairs positioned at the mRNA entrance channel of the ribosome

KD Mouzakis, AL Lang, KA Vander Meulen… - Nucleic Acids …, 2013 - academic.oup.com
The human immunodeficiency virus (HIV) requires a programmed− 1 ribosomal frameshift
for Pol gene expression. The HIV frameshift site consists of a heptanucleotide slippery …

[HTML][HTML] Decreasing the frameshift efficiency translates into an equivalent reduction of the replication of the human immunodeficiency virus type 1

D Dulude, YA Berchiche, K Gendron, L Brakier-Gingras… - Virology, 2006 - Elsevier
The Gag–Pol polyprotein of the human immunodeficiency virus type 1 (HIV-1) is the
precursor of the virus enzymatic activities and is produced via a programmed− 1 …

Coarse grained models reveal essential contributions of topological constraints to the conformational free energy of RNA bulges

AM Mustoe, HM Al-Hashimi… - The Journal of Physical …, 2014 - ACS Publications
Recent studies have shown that simple stereochemical constraints encoded at the RNA
secondary structure level significantly restrict the orientation of RNA helices across two-way …