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Helicobacter pylori is a human pathogenic bacterium with a high genomic plasticity. Although the functional CRISPR-Cas system has not been found in its genome, CRISPR-like loci have been recently identified. In this work, 53 genomes from different geographical areas are analyzed for the search and analysis of variability of this type of structure. We confirm the presence of a locus that was previously described in the VlpC gene in al lgenomes, and we characterize new CRISPR-like loci in other genomic locations. By studying the variability and gene location of these loci, the evolution and the possible roles of these sequences are discussed. Additionally, the usefulness of this type of sequences as a phylogenetic marker has been demonstrated, associating the different strains by geographical area.
Pubmed ID: 30648020
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Operon DB is a method to detect and analyze conserved gene pairs - pairs of genes that are located close on the same DNA strand in two or more bacterial genomes. For each conserved gene pair, we calculate an estimate of probability that the genes belong to the same operon. The algorithm takes into account several alternative possibilities. One is that functionally unrelated genes may have the same order due simply because they were adjacent in a common ancestor. Other possibilities are that genes may be adjacent in two genomes by chance alone, or due to horizontal transfer of the gene pair.
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