Alternative ORFs and small ORFs: shedding light on the dark proteome
Traditional annotation of protein-encoding genes relied on assumptions, such as one open
reading frame (ORF) encodes one protein and minimal lengths for translated proteins. With …
reading frame (ORF) encodes one protein and minimal lengths for translated proteins. With …
Target protection as a key antibiotic resistance mechanism
Antibiotic resistance is mediated through several distinct mechanisms, most of which are
relatively well understood and the clinical importance of which has long been recognized …
relatively well understood and the clinical importance of which has long been recognized …
Identifying small proteins by ribosome profiling with stalled initiation complexes
Small proteins consisting of 50 or fewer amino acids have been identified as regulators of
larger proteins in bacteria and eukaryotes. Despite the importance of these molecules, the …
larger proteins in bacteria and eukaryotes. Despite the importance of these molecules, the …
Retapamulin-assisted ribosome profiling reveals the alternative bacterial proteome
The use of alternative translation initiation sites enables production of more than one protein
from a single gene, thereby expanding the cellular proteome. Although several such …
from a single gene, thereby expanding the cellular proteome. Although several such …
Context-specific inhibition of translation by ribosomal antibiotics targeting the peptidyl transferase center
The first broad-spectrum antibiotic chloramphenicol and one of the newest clinically
important antibacterials, linezolid, inhibit protein synthesis by targeting the peptidyl …
important antibacterials, linezolid, inhibit protein synthesis by targeting the peptidyl …
Comprehensive quantitative modeling of translation efficiency in a genome‐reduced bacterium
Translation efficiency has been mainly studied by ribosome profiling, which only provides an
incomplete picture of translation kinetics. Here, we integrated the absolute quantifications of …
incomplete picture of translation kinetics. Here, we integrated the absolute quantifications of …
The growing toolbox for protein synthesis studies
S Iwasaki, NT Ingolia - Trends in biochemical sciences, 2017 - cell.com
Protein synthesis stands at the last stage of the central dogma of molecular biology,
providing a final regulatory layer for gene expression. Reacting to environmental cues and …
providing a final regulatory layer for gene expression. Reacting to environmental cues and …
Identifying small open reading frames in prokaryotes with ribosome profiling
Small proteins encoded by open reading frames (ORFs) shorter than 50 codons (small
ORFs [sORFs]) are often overlooked by annotation engines and are difficult to characterize …
ORFs [sORFs]) are often overlooked by annotation engines and are difficult to characterize …
Escherichia coli Small Proteome
Escherichia coli was one of the first species to have its genome sequenced and remains one
of the best-characterized model organisms. Thus, it is perhaps surprising that recent studies …
of the best-characterized model organisms. Thus, it is perhaps surprising that recent studies …