Wide distribution of alternatively coded Lak megaphages in animal microbiomes
Crisci, M. A.; Chen, L.-X.; Devoto, A. E.; Borges, A. L.; Bordin, N.; Sachdeva, R.; Tett, A.; Sharrar, A. M.; Segata, N.; Debenedetti, F.; Bailey, M.; Burt, R.; Wood, R. M.; Rowden, L. J.; Corsini, P. M.; Holmes, M. A.; Lei, S.; Banfield, J. F.; Santini, J. M.
Show abstract
Lak phages with alternatively coded ~540 kbp genomes were recently reported to replicate in Prevotella in the gut microbiomes of humans that consume a non-western diet, baboons and some pigs. Here, we investigate the diversity and broader distribution of Lak phages in human and animal microbiomes using diagnostic PCR and genome-resolved metagenomics. Lak phages were detected in 13 different animal types and are particularly prevalent in pigs, with significant enrichment in the hindgut compared to foregut. We reconstructed 34 new Lak genomes, including six curated complete genomes, all of which are alternatively coded. The most deeply branched Lak is from a horse faecal sample and is the largest phage genome from an animal microbiome (~660 kbp). From the Lak genomes, we identified families of hypothetical proteins associated with specific animal types. Overall, we substantially expanded Lak phage diversity and demonstrate their occurrence in a variety of human and animal microbiomes.
Matching journals
The top 6 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Large scale capsid-mediated mobilisation of bacterial genomic DNA in the gut microbiome 97%
- Mother-Infant Gut Viruses and their Bacterial Hosts: Transmission Patterns and Dynamics during Pregnancy and Early Life 96%
- Members of a highly widespread bacteriophage family are hallmarks of metabolic syndrome gut microbiomes 96%
Similar papers in this journal
- The influence of early life exposures on the infant gut virome 95%
- MRGM: An enhanced catalog of mouse gut microbial genomes substantially broadening taxonomic and functional landscapes 94%
- Bacteriophage-driven DNA inversions shape bacterial functionality and long-term co-existence in Bacteroides fragilis 94%
Similar papers in this journal
- Insights into rumen microbial biosynthetic gene cluster diversity through genome-resolved metagenomics 96%
- Metagenomic analysis of antimicrobial resistance, virulence, and mobile genetic elements in the gut microbiota of Caprinae species 96%
- Genome Sequence of Segmented Filamentous Bacteria Present in the Human Intestine 95%
Similar papers in this journal
- Bacteriophage populations mirror those of bacterial pathogens at sites of infection 94%
- Weaning age and its effect on the development of the swine gut microbiome and resistome 94%
- Longitudinal, Multi-platform Metagenomics Yields a High-quality Genomic Catalog and Guides an In Vitro Model for Cheese Communities 94%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.