Genomic analysis of Pseudomonas aeruginosa phages LKD16 and LKA1: establishment of the phiKMV subgroup within the T7 supergroup.
Lytic Pseudomonas aeruginosa phages LKD16 and LKA1 were locally isolated and morphologically classified as Podoviridae. While LKD16 adsorbs weakly to its host, LKA1 shows efficient adsorption (ka = 3.9 x 10(-9) ml min(-1)). LKA1, however, displays a narrow host range on clinical P. aeruginosa strains compared to LKD16. Genome analysis of LKD16 (43,200 bp) and LKA1 (41,593 bp) revealed that both phages have linear double-stranded DNA genomes with direct terminal repeats of 428 and 298 bp and encode 54 and 56 genes, respectively. The majority of the predicted structural proteins were experimentally confirmed as part of the phage particle using mass spectrometry. Phage LKD16 is closely related to bacteriophage phiKMV (83% overall DNA homology), allowing a more thoughtful gene annotation of both genomes. In contrast, LKA1 is more distantly related, lacking significant DNA homology and showing protein similarity to phiKMV in 48% of its gene products. The early region of the LKA1 genome has diverged strongly from phiKMV and LKD16, and intriguing differences in tail fiber genes of LKD16 and LKA1 likely reflect the observed discrepancy in infection-related properties. Nonetheless, general genome organization is clearly conserved among phiKMV, LKD16, and LKA1. The three phages carry a single-subunit RNA polymerase gene adjacent to the structural genome region, a feature which distinguishes them from other members of the T7 supergroup. Therefore, we propose that phiKMV represents an independent and widespread group of lytic P. aeruginosa phages within the T7 supergroup.
Ceyssens
Pieter-Jan
PJ
Division of Gene Technology, Katholieke Universiteit Leuven, Kasteelpark Arenberg 21, Leuven B-3001, Belgium.
Lavigne
Rob
R
Mattheus
Wesley
W
Chibeu
Andrew
A
Hertveldt
Kirsten
K
Mast
Jan
J
Robben
Johan
J
Volckaert
Guido
G
D004279:DNA, Viral / Q000737:chemistry / Q000235:genetics; D023061:Gene Order; D005814:Genes, Viral; D016679:Genome, Viral; D013058:Mass Spectrometry; D046529:Microscopy, Electron, Transmission; D008969:Molecular Sequence Data; D017902:Podoviridae / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D017105:Pseudomonas Phages / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification / Q000648:ultrastructure; D011550:Pseudomonas aeruginosa / Q000821:virology*; D012091:Repetitive Sequences, Nucleic Acid / Q000235:genetics; D017422:Sequence Analysis, DNA; D012689:Sequence Homology, Nucleic Acid; D020079:Terminal Repeat Sequences / Q000235:genetics; D014764:Viral Proteins / Q000737:chemistry
D004279:DNA, Viral; D014764:Viral Proteins