name:   Actinobacteriophage_1060
version:    4
date:   2018-02-07
owner:
    name:   Graham Hatfull
    email:  gfh@pitt.edu
    url:    https://www.biology.pitt.edu/person/graham-hatfull
description: >
    This database contains the 1060 manually annotated Actinobacteriophages analyzed
    in Mavrich et al. 2018.
publications:
    1:
        doi:    10.1038/s41598-018-31181-3
        pmid:   30143740
        title:  >
            Characterization and induction of prophages in human gut-associated
            Bifidobacterium hosts
        authors:    >
            Travis N Mavrich, Eoghan Casey, Joana Oliveira, Francesca Bottacini, Kieran
            James, Charles M A P Franz, Gabriele Andrea Lugli, Horst Neve, Marco Ventura,
            Graham F Hatfull, Jennifer Mahony, Douwe van Sinderen
        abstract:   >
            In the current report, we describe the identification of three genetically distinct
            groups of prophages integrated into three different chromosomal sites of human
            gut-associated Bifidobacterium breve and Bifidobacterium longum strains. These
            bifidobacterial prophages are distantly related to temperate actinobacteriophages of
            several hosts. Some prophages, integrated within the dnaJ2 gene, are competent for
            induction, excision, replication, assembly and lysis, suggesting that they are fully
            functional and can generate infectious particles, even though permissive hosts have not
            yet been identified. Interestingly, several of these phages harbor a putative phase
            variation shufflon (the Rin system) that generates variation of the tail-associated
            receptor binding protein (RBP). Unlike the analogous coliphage-associated shufflon Min,
            or simpler Cin and Gin inversion systems, Rin is predicted to use a tyrosine
            recombinase to promote inversion, the first reported phage-encoded tyrosine-family DNA
            invertase. The identification of bifidobacterial prophages with RBP diversification
            systems that are competent for assembly and lysis, yet fail to propagate lytically
            under laboratory conditions, suggests dynamic evolution of bifidobacteria and their
            phages in the human gut.
resources: ~