Root of the tree: the significance, evolution, and origins of the ribosome

JC Bowman, AS Petrov, M Frenkel-Pinter… - Chemical …, 2020 - ACS Publications
The ribosome is an ancient molecular fossil that provides a telescope to the origins of life.
Made from RNA and protein, the ribosome translates mRNA to coded protein in all living …

The world of subinhibitory antibiotic concentrations

J Davies, GB Spiegelman, G Yim - Current opinion in microbiology, 2006 - Elsevier
Although antibiotics have long been known to have multiple effects on bacterial cells at low
concentrations, it is only with the advent of genome transcription analyses that these …

Structure and variation of the mitochondrial genome of fishes

TP Satoh, M Miya, K Mabuchi, M Nishida - BMC genomics, 2016 - Springer
Background The mitochondrial (mt) genome has been used as an effective tool for
phylogenetic and population genetic analyses in vertebrates. However, the structure and …

DOCK 6: Combining techniques to model RNA–small molecule complexes

PT Lang, SR Brozell, S Mukherjee, EF Pettersen… - Rna, 2009 - rnajournal.cshlp.org
With an increasing interest in RNA therapeutics and for targeting RNA to treat disease, there
is a need for the tools used in protein-based drug design, particularly DOCKing algorithms …

Structures of the Escherichia coli ribosome with antibiotics bound near the peptidyl transferase center explain spectra of drug action

JA Dunkle, L Xiong, AS Mankin… - Proceedings of the …, 2010 - National Acad Sciences
Differences between the structures of bacterial, archaeal, and eukaryotic ribosomes account
for the selective action of antibiotics. Even minor variations in the structure of ribosomes of …

The A–Z of bacterial translation inhibitors

DN Wilson - Critical reviews in biochemistry and molecular biology, 2009 - Taylor & Francis
Protein synthesis is one of the major targets in the cell for antibiotics. This review endeavors
to provide a comprehensive “post-ribosome structure” A–Z of the huge diversity of antibiotics …

Expanding the chemistry of DNA for in vitro selection

JD Vaught, C Bock, J Carter, T Fitzwater… - Journal of the …, 2010 - ACS Publications
Six new 5-position modified dUTP derivatives connected by a unique amide linkage were
synthesized and tested for compatibility with the enzymatic steps of in vitro selection. Six …

A guide to naming human non‐coding RNA genes

RL Seal, LL Chen, S Griffiths‐Jones, TM Lowe… - The EMBO …, 2020 - embopress.org
Research on non‐coding RNA (nc RNA) is a rapidly expanding field. Providing an official
gene symbol and name to nc RNA genes brings order to otherwise potential chaos as it …

RAPP-containing arrest peptides induce translational stalling by short circuiting the ribosomal peptidyltransferase activity

M Morici, S Gabrielli, K Fujiwara, H Paternoga… - Nature …, 2024 - nature.com
Arrest peptides containing RAPP (ArgAlaProPro) motifs have been discovered in both Gram-
positive and Gram-negative bacteria, where they are thought to regulate expression of …

Oxidative stress damages rRNA inside the ribosome and differentially affects the catalytic center

J Willi, P Küpfer, D Evéquoz, G Fernandez… - Nucleic acids …, 2018 - academic.oup.com
Intracellular levels of reactive oxygen species (ROS) increase as a consequence of
oxidative stress and represent a major source of damage to biomolecules. Due to its high …