Evolution of the large nucleocytoplasmic DNA viruses of eukaryotes and convergent origins of viral gigantism

EV Koonin, N Yutin - Advances in Virus Research, 2019 - Elsevier
Abstract The Nucleocytoplasmic Large DNA Viruses (NCLDV) of eukaryotes (proposed
order “Megavirales”) comprise an expansive group of eukaryotic viruses that consists of the …

Dark matter of the biosphere: the amazing world of bacteriophage diversity

GF Hatfull - Journal of virology, 2015 - Am Soc Microbiol
Bacteriophages are the most abundant biological entities in the biosphere, and this dynamic
and old population is, not surprisingly, highly diverse genetically. Relative to bacterial …

Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity

WH Pope, CA Bowman, DA Russell, D Jacobs-Sera… - elife, 2015 - elifesciences.org
The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited
genomic information shows that phage genomes are mosaic, and the genetic architecture of …

Prophage-mediated defence against viral attack and viral counter-defence

RM Dedrick, D Jacobs-Sera, CAG Bustamante… - Nature …, 2017 - nature.com
Temperate phages are common, and prophages are abundant residents of sequenced
bacterial genomes. Mycobacteriophages are viruses that infect mycobacterial hosts …

[HTML][HTML] Multiple evolutionary origins of giant viruses

EV Koonin, N Yutin - F1000Research, 2018 - ncbi.nlm.nih.gov
The nucleocytoplasmic large DNA viruses (NCLDVs) are a monophyletic group of diverse
eukaryotic viruses that reproduce primarily in the cytoplasm of the infected cells and include …

The prophage and plasmid mobilome as a likely driver of Mycobacterium abscessus diversity

RM Dedrick, HG Aull, D Jacobs-Sera, RA Garlena… - MBio, 2021 - Am Soc Microbiol
Mycobacterium abscessus is an emerging pathogen that is often refractory to antibiotic
control. Treatment is further complicated by considerable variation among clinical isolates in …

Bacteriophage tRNA-dependent lysogeny: requirement of phage-encoded tRNA genes for establishment of lysogeny

CA Guerrero-Bustamante, GF Hatfull - Mbio, 2024 - Am Soc Microbiol
Bacteriophages are large and diverse components of the biosphere, and many phages are
temperate. Upon infection, temperate phages can establish lysogeny in which a prophage is …

MenT nucleotidyltransferase toxins extend tRNA acceptor stems and can be inhibited by asymmetrical antitoxin binding

X Xu, B Usher, C Gutierrez, R Barriot… - Nature …, 2023 - nature.com
Mycobacterium tuberculosis, the bacterium responsible for human tuberculosis, has a
genome encoding a remarkably high number of toxin-antitoxin systems of largely unknown …

Testing hypotheses for the presence of tRNA genes in mycobacteriophage genomes

VA Delesalle, NT Tanke, AC Vill, GP Krukonis - Bacteriophage, 2016 - Taylor & Francis
The presence of tRNA genes in bacteriophages has been explained on the basis of codon
usage (tRNA genes are retained in the phage genome if they correspond to codons more …

DEPhT: a novel approach for efficient prophage discovery and precise extraction

CH Gauthier, L Abad, AK Venbakkam… - Nucleic Acids …, 2022 - academic.oup.com
Advances in genome sequencing have produced hundreds of thousands of bacterial
genome sequences, many of which have integrated prophages derived from temperate …