Characterisation of IS901 integration sites in the Mycobacterium avium genome

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...

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Bibliographic Details
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)
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Summary: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.
ISSN:0378-1097
1574-6968
DOI:10.1016/S0378-1097(03)00136-8