It is believed that genomic polymorphisms, especially long sequence polymorphisms (LSPs), probably contribute to the mycobacterial pathological phenotypic outcomes. Recently, the genome-wide detection of regions of difference (RDs) between virulent strains (e.g. Mtb or Mycobacterium bovis) and avirulent ones (e.g. Mycobacterium bovis BCG) (Behr et al., Science, 1999) and subsequent studies of their functional roles have elucidated that RD1 clusters encode virulence factors (Behr et al., Nat. Med., 2007).
MyBASE collected and curated LSP data both from literatures and experiments in our own lab. We have used NimbleGene tiling microarray for whole-genome comparison of 13 Mycobacterium bovis BCG strains, subsequently confirmed by PCR and DNA sequencing. A total of 42 deletions were identified, four of which were novel.
Here, we offer the tools to search and analyze these LSPs/RDs.