Characterisation of IS901 integration sites in the Mycobacterium avium genome

• Published in: FEMS microbiology letters 2003-04, Vol.221 (1), p.39-47
• Main Authors: Inglis, N.F, Stevenson, K, Heaslip, D.G, Sharp, J.M
• Format: Article
• Language: English
• Subjects: 3' Flanking Region; 5' Flanking Region; Base Sequence; Biological and medical sciences; characterisation; Chromosome Mapping; Chromosomes, Bacterial - genetics; Computational Biology; DNA Transposable Elements; Fundamental and applied biological sciences. Psychology; genes; genetic databases; genome; Genome, Bacterial; loci; Microbiology; Molecular Sequence Data; Mycobacterium avium; Mycobacterium avium - genetics; open reading frames; paratuberculosis; Polymerase Chain Reaction; Sequence Analysis, DNA; start codon; translation (genetics)
• ISSN: 0378-1097; 1574-6968
• DOI: 10.1016/S0378-1097(03)00136-8

Data are presented on the identification and characterisation of 17 chromosomal integration loci of the insertion element IS901 in the Mycobacterium avium (cervine strain JD88/118) genome. Thirteen of these integration loci have been mapped to their corresponding positions on the M. avium strain 104 (an IS901- strain) genome (The Institute for Genome Research (TIGR) unfinished genome-sequencing project). Sequence data for both upstream and downstream sequence flanking regions were obtained for 12 insertion loci, while upstream sequence was obtained for five others. A consensus IS901 insertion target sequence compiled from all 17 integration sites was in broad agreement with earlier reports that were based on only two such loci. Analysis of IS901 integration site flanking sequences revealed that, like IS900 in M. avium subspecies paratuberculosis, IS901 inserts preferentially between a putative ribosome-binding sequence (RBS) and the translational start codon of an open reading frame (ORF). In BLAST X and BLAST P searches of the GenBank database, these ORFs were shown to share significant homologies with a number of other prokaryotic genes.