Prophages are phages that are integrated into bacterial genomes and which are key to
understanding many aspects of bacterial biology. Their extreme diversity means they are …

Identifying active prophages is critical for studying coevolution of phage and bacteria,
investigating phage physiology and biochemistry, and engineering designer phages for …

Prophages are phages in lysogeny that are integrated into, and replicated as part of, the
host bacterial genome. These mobile elements can have tremendous impact on their …

Phages and prophages are one of the principal modulators of microbial populations.
However, much of their diversity is still poorly understood. Here, we extracted 33,624 …

As an intracellular form of a bacteriophage in the bacterial host genome, a prophage usually
integrates into bacterial DNA with high specificity and contributes to horizontal gene transfer …

Advances in genome sequencing have produced hundreds of thousands of bacterial
genome sequences, many of which have integrated prophages derived from temperate …

This study developed a computational tool with a graphical interface and a web-service that
allows the identification of phage regions through homology search and gene clustering. It …

A plethora of tools exist for identifying phage sequences in bacterial genomes, single cell
amplified genomes, and host-associated and environmental metagenomes. Yet because the …

Phigaro is a standalone command-line application that is able to detect prophage regions
taking raw genome and metagenome assemblies as an input. It also produces dynamic …

Temperate phage genomes are highly variable mosaic collections of genes that infect a
bacterial host, integrate into the host's genome or replicate as low copy number plasmids …