title: The genome and proteome of a Campylobacter coli bacteriophage vB_CcoM-IBB_35 reveal unusual features.
abstract: BACKGROUND
  Campylobacter is the leading cause of foodborne diseases worldwide. Bacteriophages (phages) are naturally occurring predators of bacteria, ubiquitous in the environment, with high host specificity and thus considered an appealing option to control bacterial pathogens. Nevertheless for an effective use of phages as antimicrobial agents, it is important to understand phage biology which renders crucial the analysis of phage genomes and proteomes. The lack of sequence data from Campylobacter phages adds further importance to these studies.
  
  
  METHODS
  vB_CcoM-IBB_35 is a broad lytic spectrum Myoviridae Campylobacter phage with high potential for therapeutic use. The genome of this phage was obtained by pyrosequencing and the sequence data was further analyzed. The proteomic analysis was performed by SDS-PAGE and Mass spectrometry.
  
  
  CONCLUSIONS
  The DNA sequence data of vB_CcoM-IBB_35 consists of five contigs for a total of 172,065 bp with an average GC content of 27%. Attempts to close the gaps between contigs were unsuccessful since the DNA preparations appear to contain substances that inhibited Taq and ϕ29 polymerases. From the 210 identified ORFs, around 60% represent proteins that were not functionally assigned. Homology exists with members of the Teequatrovirinae namely for T4 proteins involved in morphogenesis, nucleotide metabolism, transcription, DNA replication and recombination. Tandem mass spectrometric analysis revealed 38 structural proteins as part of the mature phage particle.
  
  
  CONCLUSIONS
  Genes encoding proteins involved in the carbohydrate metabolism along with several incidences of gene duplications, split genes with inteins and introns have been rarely found in other phage genomes yet are found in this phage. We identified the genes encoding for tail fibres and for the lytic cassette, this later, expressing enzymes for bacterial capsular polysaccharides (CPS) degradation, which has not been reported before for Campylobacter phages.
authors.affiliation: IBB--Institute for Biotechnology and Bioengineering, Centre of Biological Engineering, Universidade do Minho, Campus de Gualtar, 4700-057 Braga, Portugal.
authors.forename: Carla M
authors.initials: CM
authors.lastname: Carvalho
authors.forename: Andrew M
authors.initials: AM
authors.lastname: Kropinski
authors.forename: Erika J
authors.initials: EJ
authors.lastname: Lingohr
authors.forename: Sílvio B
authors.initials: SB
authors.lastname: Santos
authors.forename: Jonathan
authors.initials: J
authors.lastname: King
authors.forename: Joana
authors.initials: J
authors.lastname: Azeredo
mesh_terms: D001435:Bacteriophages / Q000737:chemistry* / Q000235:genetics*; D017000:Campylobacter coli / Q000821:virology*; D004279:DNA, Viral / Q000737:chemistry / Q000235:genetics; D004591:Electrophoresis, Polyacrylamide Gel; D023061:Gene Order; D005814:Genes, Viral; D016679:Genome, Viral; D008969:Molecular Sequence Data; D017900:Myoviridae / Q000737:chemistry / Q000235:genetics; D020543:Proteome; D017422:Sequence Analysis, DNA; D053719:Tandem Mass Spectrometry; D014764:Viral Proteins / Q000737:chemistry / Q000302:isolation & purification
chemical_list: D004279:DNA, Viral; D020543:Proteome; D014764:Viral Proteins