Genotyping applied to strains of Mycobacterium avium subsp. paratuberculosis (MAP) becomes an indispensable tool for epidemiological surveillance of this significant veterinary pathogen. For MAP, multi-locus variable number tandem repeat analysis (MLVA) targeting mycobacterial interspersed repetitive units (MIRUs) and other variable-number tandem repeats (VNTRs) was established using 8 markers. This standard, portable, reproducible and discriminatory typing method has the potential to be a versatile tool for the strain identification of MAP and also member of Mycobacterium avium complex MAC. Within the past 5 years a number of genotypes (termed INVM) of strains of diverse origins have been identified in our laboratory and by other, however, no web tools was available for knowing the already existing INMV profiles and storing newly defined genotypes.
To meet this need a web application called âMac INMV databaseâ monkly was developed. This freely accessible service allows users to compare the genotyping data of their strains analysed by MLVA with those of existing reference strains.
A freely accessible database was created with genotyping data of strains of MAP and of other MAC members. This database gathers all INMV profiles obtained in the laboratory and those published in the literature.
â¢ The database information include incrementing species and subspecies status, INMV profiles with corresponding alleles/repeat numbers at each locus, and combined numerical genotypes.
â¢ The user can consult and query all the existing INMV profiles in order to see if profiles identified in his lab already exist. If profiles are not known, the user can request new attribution numbers online.
â¢ All information can be exported under EXCEL or PDF format. An extensive documentation regarding the genotyping method, protocols, primer sequences, marker information, is available to the users.
Users are invited to provide any comments, always welcome, to improve this database
References used to establish this database
Inter- and intra-subtype genotypic differences that differentiate Mycobacterium avium subspecies paratuberculosis strains. BMC Microbiol 12:264. [Pubmed]
â¢ Radomski N, Thibault VC, Karoui C, de Cruz K, Cochard T, Gutierrez C, Supply P, Biet F, Boschiroli ML. 2010.
Determination of genotypic diversity of Mycobacterium avium subspecies from human and animal origins by mycobacterial interspersed repetitive-unit-variable-number tandem-repeat and IS1311 restriction fragment length polymorphism typing methods. J Clin Microbiol 48:1026-1034.229-555-9842
â¢ Thibault VC, Grayon M, Boschiroli ML, Willery E, Allix-Beguec C, Stevenson K, Biet F, Supply P. 2008.
Combined Multilocus Short-Sequence-Repeat and Mycobacterial Interspersed Repetitive Unit-Variable-Number Tandem-Repeat Typing of Mycobacterium avium subsp. paratuberculosis Isolates. J Clin Microbiol 46:4091-4094.[Pubmed]
â¢ Thibault VC, Grayon M, Boschiroli ML, Hubbans C, Overduin P, Stevenson K, Gutierrez MC, Supply P, Biet F. 2007.
New variable number tandem repeat markers for typing M. avium subsp. paratuberculosis and M. avium strains: comparison with IS900 RFLP and IS1245 RFLP typing. J Clin Microbiol 45:2404-2410. 819-677-6662