title: Genomic and proteomic analyses of the terminally redundant genome of the Pseudomonas aeruginosa phage PaP1: establishment of genus PaP1-like phages.
abstract: We isolated and characterized a new Pseudomonas aeruginosa myovirus named PaP1. The morphology of this phage was visualized by electron microscopy and its genome sequence and ends were determined. Finally, genomic and proteomic analyses were performed. PaP1 has an icosahedral head with an apex diameter of 68-70 nm and a contractile tail with a length of 138-140 nm. The PaP1 genome is a linear dsDNA molecule containing 91,715 base pairs (bp) with a G+C content of 49.36% and 12 tRNA genes. A strategy to identify the genome ends of PaP1 was designed. The genome has a 1190 bp terminal redundancy. PaP1 has 157 open reading frames (ORFs). Of these, 143 proteins are homologs of known proteins, but only 38 could be functionally identified. Sodium dodecyl sulfate-polyacrylamide gel electrophoresis and high-performance liquid chromatography-mass spectrometry allowed identification of 12 ORFs as structural protein coding genes within the PaP1 genome. Comparative genomic analysis indicated that the Pseudomonas aeruginosa phage PaP1, JG004, PAK_P1 and vB_PaeM_C2-10_Ab1 share great similarity. Besides their similar biological characteristics, the phages contain 123 core genes and have very close phylogenetic relationships, which distinguish them from other known phage genera. We therefore propose that these four phages be classified as PaP1-like phages, a new phage genus of Myoviridae that infects Pseudomonas aeruginosa.
authors.affiliation: Department of Microbiology, College of Basic Medical Science, Third Military Medical University, Chongqing, China.
authors.forename: Shuguang
authors.initials: S
authors.lastname: Lu
authors.forename: Shuai
authors.initials: S
authors.lastname: Le
authors.forename: Yinling
authors.initials: Y
authors.lastname: Tan
authors.forename: Junmin
authors.initials: J
authors.lastname: Zhu
authors.forename: Ming
authors.initials: M
authors.lastname: Li
authors.forename: Xiancai
authors.initials: X
authors.lastname: Rao
authors.forename: Lingyun
authors.initials: L
authors.lastname: Zou
authors.forename: Shu
authors.initials: S
authors.lastname: Li
authors.forename: Jing
authors.initials: J
authors.lastname: Wang
authors.forename: Xiaolin
authors.initials: X
authors.lastname: Jin
authors.forename: Guangtao
authors.initials: G
authors.lastname: Huang
authors.forename: Lin
authors.initials: L
authors.lastname: Zhang
authors.forename: Xia
authors.initials: X
authors.lastname: Zhao
authors.forename: Fuquan
authors.initials: F
authors.lastname: Hu
mesh_terms: D000595:Amino Acid Sequence; D001482:Base Composition; D001483:Base Sequence; D004279:DNA, Viral; D016679:Genome, Viral; D046529:Microscopy, Electron, Transmission; D017900:Myoviridae / Q000145:classification / Q000235:genetics* / Q000648:ultrastructure; D016366:Open Reading Frames; D000073718:Pancreatitis-Associated Proteins; D010802:Phylogeny; D040901:Proteomics; D017105:Pseudomonas Phages / Q000145:classification / Q000235:genetics* / Q000648:ultrastructure; D011550:Pseudomonas aeruginosa / Q000821:virology; D017422:Sequence Analysis, DNA; D017386:Sequence Homology, Amino Acid; D014764:Viral Proteins / Q000145:classification / Q000235:genetics*; D014771:Virion / Q000145:classification / Q000235:genetics* / Q000648:ultrastructure
chemical_list: D004279:DNA, Viral; D000073718:Pancreatitis-Associated Proteins; C000612141:REG3A protein, human; D014764:Viral Proteins