Large-scale genomic analysis of jumbo phages: coevolution, genome architecture, and host interaction mechanisms
Chao Wei, Zhe Chen, Yaxiang Wang, Lusheng Huang, Congying Chen
TL;DR
This study explores jumbo phages, large viruses with diverse genomes, and their interactions with hosts and environments using a large genomic dataset.
Contribution
The study expands the known diversity of jumbo phages and reveals coevolution patterns and host interactions through large-scale genomic analysis.
Findings
10,754 jumbo phage genomes were identified, with 34.69% representing potentially novel species.
Jumbo phages coevolve with their habitats and use alternative genetic codes with suppressor tRNAs.
CRISPR analysis identified potential hosts and competitive interactions among jumbo phages.
Abstract
Jumbo phages are phages with comparatively large genome sizes. Jumbo phages have been identified in various microbial communities. However, their diversity, genome structure, potential function, and their interactions with hosts and other phages are largely unknown due to insufficient genomic data. We collected 59,652,008 putative viral genomes from seven habitats by using 38 public metagenome datasets, an integrated public viral genome database (IGN), and pig gut viral genome databases. We obtained 10,754 jumbo phage genomes with sizes ranging from 200 to 831 kb. Most (94.64%) of these jumbo phage genomes were classified into Caudoviricetes, and the results have expanded the known diversity of Caudoviricetes. We found 2,389 species-like operational genome clusters that contained 3,727 (34.69%) genomes without any known viral genomes in the IGN, suggesting potential novel species-like…
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Taxonomy
TopicsBacteriophages and microbial interactions · Genomics and Phylogenetic Studies · Monoclonal and Polyclonal Antibodies Research