Identification and comparative analysis of the structural proteomes of ϕKZ and EL, two giant Pseudomonas aeruginosa bacteriophages (original) (raw)
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S2.0 S0092867401006377 main Phage Genomics: Small Is Beautiful
genes. These genetic functions can be squeezed into a Nestec Ltd. 20 kb DNA genome as demonstrated by c2 Siphovirus Vers-chez-les-Blanc and φ29 Podovirus. As the genome size increases, the CH-1000 Lausanne 26 virion morphology gets more complicated, and the Switzerland phage interferes more with cellular activities. However, 2 Pittsburgh Bacteriophage Institute and we are far from understanding this in detail. Despite Department of Biological Sciences decades of research, only about 130 from the estimated University of Pittsburgh 230 genes of Myovirus T4 have assigned functions. Pittsburgh, Pennsylvania 15260 Tailed phages have been described in many phylogenetic divisions of Eubacteria. Curiously, viruses from All the world's a phage. one branch of Archaea (Euryarchaeota) resemble tailed -W. Shakespeare phages in morphology and genome organization (Pfister et al., 1998). There is also evidence for shared protein There are
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2007
1 Division of Gene Technology, Katholieke Universiteit Leuven, 15 Kasteelpark Arenberg 21, Leuven, B-3001, Belgium 16 17 2 Shemyakin-Ovchinnikov, Institute of Bioorganic Chemistry, Miklukho-Maklaya, Street 18 6/10, Moscow 117997, Russia 19 20 3 Biomedical Research Institute, Limburgs Universitair Centrum and School of Life 21 Sciences, University Hasselt, Diepenbeek, B-3590, Belgium 22 23 24 25 *Corresponding author. Division of Gene Technology, Katholieke Universiteit Leuven, 26 Kasteelpark Arenberg 21, Leuven, B-3001, Belgium 27 Fax: +32 (0)16 32 19 65; E-mail: kirsten.hertveldt@biw.kuleuven.be 28 AC CE PT ED Copyright © 2007, American Society for Microbiology and/or the Listed Authors/Institutions. All Rights Reserved. J. Bacteriol. doi:10.1128/JB.01441-07 JB Accepts, published online ahead of print on 7 December 2007
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Pseudomonas aeruginosa phage EL is a dsDNA phage related to the giant fKZ-like Myoviridae. The EL genome sequence comprises 211,215 bp and has 201 predicted open reading frames (ORFs). The EL genome does not share DNA sequence homology with other viruses and micro-organisms sequenced to date. However, one-third of the predicted EL gene products (gps) shares similarity (Blast alignments of 17-55% amino acid identity) with fKZ proteins. Comparative EL and fKZ genomics reveals that these giant phages are an example of substantially diverged genetic mosaics. Based on the position of similar EL and fKZ predicted gene products, five genome regions can be delineated in EL, four of which are relatively conserved between EL and fKZ. Region IV, a 17.7 kb genome region with 28 predicted ORFs, is unique to EL. Fourteen EL ORFs have been assigned a putative function based on protein similarity. Assigned proteins are involved in DNA replication and nucleotide metabolism (NAD Cdependent DNA ligase, ribonuclease HI, helicase, thymidylate kinase), host lysis and particle structure. EL-gp146 is the first chaperonin GroEL sequence identified in a viral genome. Besides a putative transposase, EL harbours predicted mobile endonucleases related to H-N-H and LAGLIDADG homing endonucleases associated with group I intron and intein intervening sequences.
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