Ribosomal frameshifting and transcriptional slippage: From genetic steganography and cryptography to adventitious use
Genetic decoding is not 'frozen'as was earlier thought, but dynamic. One facet of this is
frameshifting that often results in synthesis of a C-terminal region encoded by a new frame …
frameshifting that often results in synthesis of a C-terminal region encoded by a new frame …
Changed in translation: mRNA recoding by− 1 programmed ribosomal frameshifting
N Caliskan, F Peske, MV Rodnina - Trends in biochemical sciences, 2015 - cell.com
Programmed− 1 ribosomal frameshifting (− 1PRF) is an mRNA recoding event commonly
utilized by viruses and bacteria to increase the information content of their genomes. Recent …
utilized by viruses and bacteria to increase the information content of their genomes. Recent …
Thousands of previously unknown phages discovered in whole-community human gut metagenomes
Background Double-stranded DNA bacteriophages (dsDNA phages) play pivotal roles in
structuring human gut microbiomes; yet, the gut virome is far from being fully characterized …
structuring human gut microbiomes; yet, the gut virome is far from being fully characterized …
Galaxy and Apollo as a biologist-friendly interface for high-quality cooperative phage genome annotation
In the modern genomic era, scientists without extensive bioinformatic training need to apply
high-power computational analyses to critical tasks like phage genome annotation. At the …
high-power computational analyses to critical tasks like phage genome annotation. At the …
Insertion sequence diversity in archaea
Insertion sequences (ISs) can constitute an important component of prokaryotic (bacterial
and archaeal) genomes. Over 1,500 individual ISs are included at present in the ISfinder …
and archaeal) genomes. Over 1,500 individual ISs are included at present in the ISfinder …
Comparative Genome Analysis of Listeria Bacteriophages Reveals Extensive Mosaicism, Programmed Translational Frameshifting, and a Novel Prophage Insertion …
J Dorscht, J Klumpp, R Bielmann… - Journal of …, 2009 - Am Soc Microbiol
The genomes of six Listeria bacteriophages were sequenced and analyzed. Phages A006,
A500, B025, P35, and P40 are members of the Siphoviridae and contain double-stranded …
A500, B025, P35, and P40 are members of the Siphoviridae and contain double-stranded …
Augmented genetic decoding: global, local and temporal alterations of decoding processes and codon meaning
The non-universality of the genetic code is now widely appreciated. Codes differ between
organisms, and certain genes are known to alter the decoding rules in a site-specific …
organisms, and certain genes are known to alter the decoding rules in a site-specific …
The genome of Bacillus subtilis bacteriophage SPO1
CR Stewart, SR Casjens, SG Cresawn… - Journal of molecular …, 2009 - Elsevier
We report the genome sequence of Bacillus subtilis phage SPO1. The unique genome
sequence is 132,562 bp long, and DNA packaged in the virion (the chromosome) has a …
sequence is 132,562 bp long, and DNA packaged in the virion (the chromosome) has a …
“Pseudo-pseudogenes” in bacterial genomes: Proteogenomics reveals a wide but low protein expression of pseudogenes in Salmonella enterica
Y Feng, Z Wang, KY Chien, HL Chen… - Nucleic Acids …, 2022 - academic.oup.com
Pseudogenes (genes disrupted by frameshift or in-frame stop codons) are ubiquitously
present in the bacterial genome and considered as nonfunctional fossil. Here, we used RNA …
present in the bacterial genome and considered as nonfunctional fossil. Here, we used RNA …
Anaerobically Grown Escherichia coli Has an Enhanced Mutation Rate and Distinct Mutational Spectra
Oxidative stress is a major cause of mutation but little is known about how growth in the
absence of oxygen impacts the rate and spectrum of mutations. We employed long-term …
absence of oxygen impacts the rate and spectrum of mutations. We employed long-term …