Diversity of pili-specific bacteriophages: genome sequence of IncM plasmid-dependent RNA phage M

Background Bacteriophages of the Leviviridae family are small RNA viruses with linear, positive-sense, single-stranded RNA genomes that encode only four proteins. All phages of this family require bacterial pili to attach to and infect cells. Leviviridae phages utilizing F-pili for this purpose have...

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Vydáno v:	BMC microbiology Ročník 12; číslo 1; s. 277
Hlavní autoři:	Rumnieks, Janis, Tars, Kaspars
Médium:	Journal Article
Jazyk:	angličtina
Vydáno:	London BioMed Central 24.11.2012 BioMed Central Ltd Springer Nature B.V BMC
Témata:	Analysis Bacteria Bacteriology Biological Microscopy Biomedical and Life Sciences Coat protein Conjugative plasmid Gene Order Genes Genetic aspects Genetic Variation Genome, Viral Genomes Genomics genomics and proteomics IncM Leviviridae Life Sciences Lysis Microbial genetics Microbiology Molecular Sequence Data Mycology Parasitology Phylogeny Pili-specific phage Plasmids Proteins Research Article RNA RNA phage RNA Phages - genetics RNA Phages - isolation & purification RNA, Viral - genetics Sequence Analysis, DNA Sequence Homology, Amino Acid Viral Proteins - genetics Virology Pili-specific phage IncM RNA phage Conjugative plasmid Lysis
ISSN:	1471-2180, 1471-2180
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Popis
Shrnutí:	Background Bacteriophages of the Leviviridae family are small RNA viruses with linear, positive-sense, single-stranded RNA genomes that encode only four proteins. All phages of this family require bacterial pili to attach to and infect cells. Leviviridae phages utilizing F-pili for this purpose have been extensively studied. RNA phages specific for conjugative plasmid-encoded pili other than that of plasmid F have been isolated, but are much less understood and their relation to the F-pili-specific phages in many cases is not known. Results Phage M has the smallest known Leviviridae genome to date and has the typical genome organization with maturation, coat and replicase genes in the 5′ to 3′ direction. The lysis gene is located in a different position than in other known Leviviridae phages and completely overlaps with the replicase gene in a different reading frame. It encodes a 37 residue long polypeptide that contains a transmembrane helix like the other known lysis proteins of leviviruses. Sequence identities of M proteins to those of other phages do not exceed 25% for maturation protein, 51% for coat protein and 41% for replicase. Similarities in protein sequences and RNA secondary structures at the 3′ untranslated region place phage M together with phages specific for IncP, IncC and IncH, but not IncF plasmid-encoded pili. Phylogenetic analysis using the complete genome sequences and replicase proteins suggests that phage M represents a lineage that branched off early in the course of RNA phage specialization on different conjugative plasmids. Conclusions The genome sequence of phage M shows that it is clearly related to other conjugative pili-specific leviviruses but has an atypical location of the lysis gene. It provides a better view on the remarkable diversification of the plasmid-specific RNA phages.
Bibliografie:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 14 content type line 23 ObjectType-Article-2 ObjectType-Feature-1
ISSN:	1471-2180 1471-2180
DOI:	10.1186/1471-2180-12-277