Metagenomic sequence analysis is rapidly becoming the primary source of virus discovery 1-3 . A substantial majority of the currently available virus genomes come from metagenomics, and some of these represent extremely abundant viruses, even if never grown in the laboratory. A particularly striking case of a virus discovered via metagenomics is crAssphage, which is by far the most abundant human-associated virus known, comprising up to 90% of sequences in the gut virome 4 . Over 80% of the predicted proteins encoded in the approximately 100 kilobase crAssphage genome showed no significant similarity to available protein sequences, precluding classification of this virus and hampering further study. Here we combine a comprehensive search of genomic and metagenomic databases with sensitive methods for protein sequence analysis to identify an expansive, diverse group of bacteriophages related to crAssphage and predict the functions of the majority of phage proteins, in particular those that comprise the structural, replication and expression modules. Most, if not all, of the crAss-like phages appear to be associated with diverse bacteria from the phylum Bacteroidetes, which includes some of the most abundant bacteria in the human...Continue Reading
Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail
New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0
Evolution of mosaically related tailed bacteriophage genomes seen through the lens of phage P22 virion assembly
Subdiffusive motion of bacteriophage in mucosal surfaces increases the frequency of bacterial encounters
Alignment-free $d_2^*$ oligonucleotide frequency dissimilarity measure improves prediction of hosts from metagenomically-derived viral sequences
Discovery and Complete Genome Sequence of a Bacteriophage from an Obligate Intracellular Symbiont of a Cellulolytic Protist in the Termite Gut
Novel clades of the HU/IHF superfamily point to unexpected roles in the eukaryotic centrosome, chromosome partitioning, and biologic conflicts
Abundance profiling of specific gene groups using precomputed gut metagenomes yields novel biological hypotheses
Vast diversity of prokaryotic virus genomes encoding double jelly-roll major capsid proteins uncovered by genomic and metagenomic sequence analysis
New approaches to characterizing bacteria-phage interactions in microbial communities and microbiomes
Critical Evaluation of CrAssphage as a Molecular Marker for Human-Derived Wastewater Contamination in the Aquatic Environment
Comparative genomics groups phages of Negativicutes and classical Firmicutes despite different Gram-staining properties
Biogeographic study of human gut-associated crAssphage suggests impacts from industrialization and recent expansion
Impact of phages on soil bacterial communities and nitrogen availability under different assembly scenarios
Unprecedented Diversity of ssDNA Phages from the Family Microviridae Detected within the Gut of a Protochordate Model Organism (Ciona robusta )
Genomic Characterization of Jumbo Salmonella Phages That Effectively Target United Kingdom Pig-Associated Salmonella Serotypes
ΦCrAss001 represents the most abundant bacteriophage family in the human gut and infects Bacteroides intestinalis
A simple, reproducible and cost-effective procedure to analyse gut phageome: from phage isolation to bioinformatic approach
Quyushengxin Formula Causes Differences in Bacterial and Phage Composition in Ulcerative Colitis Patients
Microbiota Composition and the Integration of Exogenous and Endogenous Signals in Reactive Nasal Inflammation
Virus Genomes from Deep Sea Sediments Expand the Ocean Megavirome and Support Independent Origins of Viral Gigantism
Long-term colonisation with donor bacteriophages following successful faecal microbial transplantation
Performance Evaluation of Human-Specific Viral Markers and Application of Pepper Mild Mottle Virus and CrAssphage to Environmental Water Samples as Fecal Pollution Markers in the Kathmandu Valley, Nepal
Does over a century of aerobic phage work provide a solid framework for the study of phages in the gut?
Analysis of metagenome-assembled viral genomes from the human gut reveals diverse putative CrAss-like phages with unique genomic features.
Bacteriophages Isolated from Stunted Children Can Regulate Gut Bacterial Communities in an Age-Specific Manner
Comparative fate of CrAssphage with culturable and molecular fecal pollution indicators during activated sludge wastewater treatment
Metagenome Data on Intestinal Phage-Bacteria Associations Aids the Development of Phage Therapy against Pathobionts.
Hybrid assembly of an agricultural slurry virome reveals a diverse and stable community with the potential to alter the metabolism and virulence of veterinary pathogens.
crAssphage genomes identified in fecal samples of an adult and infants with evidence of positive genomic selective pressure within tail protein genes.
Isolation and characterisation of ΦcrAss002, a crAss-like phage from the human gut that infects Bacteroides xylanisolvens.
The Spatial Heterogeneity of the Gut Limits Predation and Fosters Coexistence of Bacteria and Bacteriophages.
Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3.
Characterization of the gut DNA and RNA Viromes in a Cohort of Chinese Residents and Visiting Pakistanis.
CRISPR Ribonucleases Deactivation
CRISPR-Cas system enables the editing of genes to create or correct mutations. This feed focuses on mechanisms that underlie deactivation of CRISPR ribonucleases. Here is the latest research.
Bacteriophage: Phage Therapy
Phage therapy uses bacterial viruses (bacteriophages) to treat bacterial infections and is widely being recognized as an alternative to antibiotics. Here is the latest research.