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SPOLIGODB4 LOOKUP TOOLS

Description of Genotyping Methods: Spoligotyping


Spacer oligonucleotide typing is a hybridization assay that detects variability in the direct repeat (DR) region in the DNA of M. tuberculosis. The DR region consists of multiple copies of a conserved 36-base-pair sequence (the direct repeats) separated by multiple unique spacer sequences (the standard spoligotyping assay uses 43). Different M. tuberculosis strains have various complements of the 43 spacers, and these different complements form the basis of the assay (Kamerbeek 1997).

The standard spoligotyping assay is performed by using a membrane. In this format, each of the 43 spacers produces either a dark band (indicating the presence of the spacer) or no band (indicating the absence of spacer). As Figure 1. shows, for each M. tuberculosis isolate, the spoligotyping assay produces a series of bands, much like a bar code.


Figure 1. Two examples of spoligotype results showing the original banding patterns as well as the steps involved in converting the banding pattern results to the final octal code designation. The octal designation is the form of the result that is reported by the genotyping laboratories to TB programs.
Our SpoligoDB Lookup Tools

- Base on SpoligoDB version 4 with 1939 genotypes.
- Fast and acurate to indentify the genotype of your M. tuberculosis.
- Full data with BIN-sorted, SIT-sorted...
- You can find more useful things with these tools below.


More information, please contact via email: nhbach@hueuni.edu.vn

SORTED BY INCREASING SPOLIGO-INTERNATIONAL-TYPE NUMBER

- Sorted by SIT number with 50 SIT per page.
- Sorted by SIT number with full list

SORTED BY INCREASING BINARY SPOLIGOTYPE DESCRIPTION

- Sorted by BIN description with 50 SIT per page.
- Sorted by BIN description with full list

LOOK UP YOUR M. TUBERCULOSIS' GENOTYPE

- Search and indentify the genotype of your strain with SIT No., Binary description, Octan description, Label.
- Auto-suggestion to quickly check the SIT No.

 

SPOLIGODB4 ORIGINAL
Sorted by Spoligo-International-Type (SIT) number with Geographical Distribution
Sorted by Binary description of spoligotype with Geographical Distribution
Bioinformatical (62 lineages/sub lineages prototype patterns) and statistical (50 most frequent) classification analysis of SpolDB4

Contact Info
MSc. Nguyen Hoang Bach
Carlo Urbani Center, Hue College of Medicine and Pharmacy
Email: jtbach2010@gmail.com nhbach@hueuni.edu.vn


Refencences
Brudey et al. Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification, population genetics and epidemiology.BMC Microbiol 2006 Mar 6;6 (1) : 23.
SpoligoDb4 Look-up Tools

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 Sorted by SIT No.
Show full list (sorted by SIT No.)
Sorted by BIN
Show full list (sorted by BIN)

  Sorted by SIT No. (Barcode)
  Sorted by BINARY DESCRIPTION (Barcode)
  Sorted by LABEL (Barcode)

 Look up SIT No.
     


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