Table 2.
Description of the clustered M. tuberculosis complex spoligotypes observed in Cross River State, Nigeria and their worldwide distribution in the SITVIT2 database, with additional information on the subclustering of spoligotyping based clusters by 12-loci MIRUs.
| SIT (Clade) a Spoligotype Description Octal Code |
Strains, n (%) in study |
% in study vs. SITVIT2 |
Distribution in Regions with ≥5% of a given SITs b |
Distribution in countries with ≥5% of a given SIT c |
MIRU-based subclustering (MIT designation and number of strains) |
|---|---|---|---|---|---|
 |
32 (39.51) | 4.75 | AFRI-W 28.78, AFRI-M 26.11, AMER-N 11.87, EURO-W 10.39, ASIA-W 6.53 | NGA 26.11, CMR 25.07, USA 11.87, SAU 6.53, FXX 5.93 | MIT12 (n=9), MIT263 (n=9), MIT266 (n=7), Orphan (n=3), MIT264 (n=2), MIT265 (n=1), MIT784 (n=1) |
 |
2 (2.47) | 22.22 | AFRI-W 44.44, AFRI-M 22.22, AMER-N 22.22, EURO-S 11.11 | NGA 44.44, CMR 22.22, USA 22.22, ESP 11.11 | MIT 348 (n=2) |
 |
10 (12.35) | 23.81 | AFRI-W 64.29, AMER-N 23.81, AFRI-M 7.14 | NGA 54.76, USA 23.81, CMR 7.14, CIV 7.14 | MIT1228 (n=3), MIT934 (n=2), MIT1266 (n=2), Orphan (n=2), Unknown (n=1) |
 |
2 (2.47) | 5.71 | AMER-S 65.71, AMER-N 20, AFRI-W 5.71 | COL 62.86, USA 20, NGA 5.71 | MIT43 (n=1), Orphan (n=1) |
 |
5 (6.17) | 38.46 | AFRI-W 46.15, AFRI-M 30.77, EURO-W 7.69, AFRI-N 7.69, ASIA-W 7.69 | NGA 46.15, CMR 30.77, SDN 7.69, SAU 7.69, BEL 7.69 | MIT266 (n=5) |
 |
2 (2.47) | 33.33 | AFRI-W 33.33, AMER-N 33.33, AFRI-N 16.67, ASIA-W 16.67 | NGA 33.33, USA 33.33, LBY 16.67, SAU 16.67 | MIT1225 (n=2) |
 |
2 (2.47) | 100.00 | AFRI-W 100 | NGA 100 | MIT956 (n=2) |
 |
3 (3.70) | 100.00 | AFRI-W 100 | NGA 100 | MIT934 (n=3) |
 |
2 (2.47) | 100.00 | AFRI-W 100 | NGA 100 | MIT1138 (n=2) |
 |
4 (4.94) | 80.00 | AFRI-W 80, EURO-S 20 | NGA 80.00, ITA 20 | MIT348 (n=4) |
SIT followed by an asterisk indicates “newly created shared-type”.
Worldwide distribution is reported for regions with ≥5% of a given SITs as compared to their total number in the SITVIT2 database. The definition of macro-geographical regions and sub-regions is according to the United Nations (http://unstats.un.org/unsd/methods/m49/m49regin.htm); Regions: AFRI (Africa), AMER (Americas), ASIA (Asia), EURO (Europe), and OCE (Oceania), subdivided in: E (Eastern), M (Middle), C (Central), N (Northern), S (Southern), SE (South-Eastern), and W (Western). Furthermore, CARIB (Caribbean) belongs to Americas, while Oceania is subdivided in 4 sub-regions, AUST (Australasia), MEL (Melanesia), MIC (Micronesia), and POLY (Polynesia). Note that in our classification scheme, Russia has been attributed a new sub-region by itself (Northern Asia) instead of including it among rest of the Eastern Europe. It reflects its geographical localization as well as due to the similarity of specific TB genotypes circulating in Russia (a majority of Beijing genotypes) with those prevalent in Central, Eastern and South-Eastern Asia.
The 3 letter country codes are according to http://en.wikipedia.org/wiki/ISO_3166-1_alpha-3; countrywide distribution is only shown for SITs with ≥5% of a given SITs as compared to their total number in the SITVIT2 database.