Transfer RNA genes and their significance to codon usage in thePseudomonas aeruginosalamboid bacteriophage D3
- 1 September 1999
- journal article
- Published by Canadian Science Publishing in Canadian Journal of Microbiology
- Vol. 45 (9), 791-796
- https://doi.org/10.1139/w99-078
Abstract
Using tRNAscan-SE and FAStRNA we have identified four tRNA genes in the delayed early region of the bacteriophage D3 genome (GenBank accession No. AF077308). These are specific for methionine (AUG), glycine (GGA), asparagine (AAC), and threonine (ACA). The D3 Thr- and Gly-tRNAs recognize codons, which are rarely used in Pseudomonas aeruginosa and presumably, influence the rate of translation of phage proteins. BLASTN searches revealed that the D3 tRNA genes have homology to tRNA genes from Gram-positive bacteria. Analysis of codon usage in the 91 ORFs discovered in D3 indicates patterns of codon usage reminiscent of Escherichia coli or P. aeruginosa.Key words: bacteriophage, Pseudomonas, D3, tRNA, codon usage.Keywords
This publication has 31 references indexed in Scilit:
- Genome structure of mycobacteriophage D29: implications for phage evolution 1 1Edited by J. KarnJournal of Molecular Biology, 1998
- A tRNAArg2 gene of Corynebacterium diphtheriae is the chromosomal integration site for toxinogenic bacteriophagesMolecular Microbiology, 1997
- tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic SequenceNucleic Acids Research, 1997
- Overexpression, purification, and analysis of thec1repressor protein ofPseudomonas aeruginosabacteriophage D3Canadian Journal of Microbiology, 1997
- Genetic and sequence analysis of the cos region of the temperate Pseudomonas aeruginosa bacteriophage, D3Gene, 1996
- Maturation Pathways for E. coli tRNA Precursors: A Random Multienzyme Process In VivoCell, 1996
- Synonymous codon preferences in bacteriophage T4: A distinctive use of transfer RNAs from T4 and from its host Escherichia coliJournal of Theoretical Biology, 1992
- Basic local alignment search toolJournal of Molecular Biology, 1990
- Integration of satellite bacteriophage P4 in Escherichia coli: DNA sequences of the phage and host regions involved in site-specific recombinationJournal of Molecular Biology, 1987
- Synthesis of phage-specific transfer RNA molecules by vibriophage ø 149FEBS Letters, 1983