Quantitative control for stoichiometric protein synthesis

JC Taggart, JB Lalanne, GW Li - Annual review of microbiology, 2021 - annualreviews.org
Bacterial protein synthesis rates have evolved to maintain preferred stoichiometries at
striking precision, from the components of protein complexes to constituents of entire …

The diversity of Shine-Dalgarno sequences sheds light on the evolution of translation initiation

JD Wen, ST Kuo, HHD Chou - RNA biology, 2021 - Taylor & Francis
ABSTRACT Shine-Dalgarno (SD) sequences, the core element of prokaryotic ribosome-
binding sites, facilitate mRNA translation by base-pair interaction with the anti-SD (aSD) …

Quality control of protein synthesis in the early elongation stage

A Nagao, Y Nakanishi, Y Yamaguchi, Y Mishina… - Nature …, 2023 - nature.com
In the early stage of bacterial translation, peptidyl-tRNAs frequently dissociate from the
ribosome (pep-tRNA drop-off) and are recycled by peptidyl-tRNA hydrolase. Here, we …

[HTML][HTML] Mechanistic dissection of premature translation termination induced by acidic residues-enriched nascent peptide

Y Chadani, T Kanamori, T Niwa, K Ichihara… - Cell Reports, 2023 - cell.com
Ribosomes polymerize nascent peptides through repeated inter-subunit rearrangements
between the classic and hybrid states. The peptidyl-tRNA, the intermediate species during …

Ubiquitous mRNA decay fragments in E. coli redefine the functional transcriptome

L Herzel, JA Stanley, CC Yao, GW Li - Nucleic Acids Research, 2022 - academic.oup.com
Bacterial mRNAs have short life cycles, in which transcription is rapidly followed by
translation and degradation within seconds to minutes. The resulting diversity of mRNA …

The landscape of translational stall sites in bacteria revealed by monosome and disome profiling

T Fujita, T Yokoyama, M Shirouzu, H Taguchi, T Ito… - RNA, 2022 - rnajournal.cshlp.org
Ribosome pauses are associated with various cotranslational events and determine the fate
of mRNAs and proteins. Thus, the identification of precise pause sites across the …

Boric acid intercepts 80S ribosome migration from AUG-stop by stabilizing eRF1

M Tanaka, T Yokoyama, H Saito, M Nishimoto… - Nature Chemical …, 2024 - nature.com
In response to environmental changes, cells flexibly and rapidly alter gene expression
through translational controls. In plants, the translation of NIP5; 1, a boric acid diffusion …

Translation complex stabilization on messenger RNA and footprint profiling to study the RNA responses and dynamics of protein biosynthesis in the cells

NE Shirokikh - Critical reviews in biochemistry and molecular …, 2022 - Taylor & Francis
During protein biosynthesis, ribosomes bind to messenger (m) RNA, locate its protein-
coding information, and translate the nucleotide triplets sequentially as codons into the …

The context of the ribosome binding site in mRNAs defines specificity of action of kasugamycin, an inhibitor of translation initiation

Y Zhang, NA Aleksashin, D Klepacki… - Proceedings of the …, 2022 - National Acad Sciences
Kasugamycin (KSG) is an aminoglycoside antibiotic widely used in agriculture and exhibits
considerable medical potential. Previous studies suggested that KSG interferes with …

Preventing toxicity in toxin-antitoxin systems: An overview of regulatory mechanisms

S Bonabal, F Darfeuille - Biochimie, 2024 - Elsevier
Toxin-antitoxin systems (TAs) are generally two-component genetic modules present in
almost every prokaryotic genome. The production of the free and active toxin is able to …