The LUCA and its complex virome
The last universal cellular ancestor (LUCA) is the most recent population of organisms from
which all cellular life on Earth descends. The reconstruction of the genome and phenotype …
which all cellular life on Earth descends. The reconstruction of the genome and phenotype …
Jumbo bacteriophages: an overview
Y Yuan, M Gao - Frontiers in microbiology, 2017 - frontiersin.org
Tailed bacteriophages with genomes larger than 200 kbp are classified as Jumbo phages,
and are rarely isolated by conventional methods. These phages are designated “jumbo” …
and are rarely isolated by conventional methods. These phages are designated “jumbo” …
Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes
HB Nielsen, M Almeida, AS Juncker… - Nature …, 2014 - nature.com
Most current approaches for analyzing metagenomic data rely on comparisons to reference
genomes, but the microbial diversity of many environments extends far beyond what is …
genomes, but the microbial diversity of many environments extends far beyond what is …
Prokaryotic Virus Orthologous Groups (pVOGs): a resource for comparative genomics and protein family annotation
AL Grazziotin, EV Koonin… - Nucleic acids research, 2016 - academic.oup.com
Viruses are the most abundant and diverse biological entities on earth, and while most of
this diversity remains completely unexplored, advances in genome sequencing have …
this diversity remains completely unexplored, advances in genome sequencing have …
Bacteriophages and biofilms
DR Harper, HMRT Parracho, J Walker, R Sharp… - Antibiotics, 2014 - mdpi.com
Biofilms are an extremely common adaptation, allowing bacteria to colonize hostile
environments. They present unique problems for antibiotics and biocides, both due to the …
environments. They present unique problems for antibiotics and biocides, both due to the …
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 …
order “Megavirales”) comprise an expansive group of eukaryotic viruses that consists of the …
Expanding the marine virosphere using metagenomics
Viruses infecting prokaryotic cells (phages) are the most abundant entities of the biosphere
and contain a largely uncharted wealth of genomic diversity. They play a critical role in the …
and contain a largely uncharted wealth of genomic diversity. They play a critical role in the …
Computational methods for Gene Orthology inference
DM Kristensen, YI Wolf, AR Mushegian… - Briefings in …, 2011 - academic.oup.com
Accurate inference of orthologous genes is a pre-requisite for most comparative genomics
studies, and is also important for functional annotation of new genomes. Identification of …
studies, and is also important for functional annotation of new genomes. Identification of …
The double-stranded DNA virosphere as a modular hierarchical network of gene sharing
Virus genomes are prone to extensive gene loss, gain, and exchange and share no
universal genes. Therefore, in a broad-scale study of virus evolution, gene and genome …
universal genes. Therefore, in a broad-scale study of virus evolution, gene and genome …
Phage therapy in the twenty-first century: facing the decline of the antibiotic era; is it finally time for the age of the phage?
S Hesse, S Adhya - Annual review of microbiology, 2019 - annualreviews.org
Burgeoning problems of antimicrobial resistance dictate that new solutions be developed to
combat old foes. Use of lytic bacteriophages (phages) for the treatment of drug-resistant …
combat old foes. Use of lytic bacteriophages (phages) for the treatment of drug-resistant …