Table 4. Description of clusters containing 3 or more isolates in this study, and their worldwide distribution in the SITVIT2 database.
| SIT/Lineage | Number in study | % in study | % in study vs. database | Distribution in Regions with > = 3% of a given SITs * | Distribution in countries with > = 3% of a given SITs ** |
|---|---|---|---|---|---|
| 21/CAS1-Kili | 76 | 25.94 | 15.97 | AFRI-E 65.97, EURO-N 10.08, EURO-W 6.3, ASIA-W 5.25, AMER-N 5.25, AFRI-S 4.83 | TZA 34.66, ETH 9.87, MDG 9.66, USA 5.25, ZAF 4.83, ZMB 4.62, SWE 3.99, KEN 3.57 |
| 59/LAM11-ZWE | 22 | 7.51 | 4.54 | AFRI-E 58.35, AFRI-S 15.26, EURO-W 14.64, AMER-N 3.3 | ZMB 21.86, ZWE 15.88, ZAF 15.26, BEL 13.4, TZA 11.13, USA 3.3, MWI 3.3 |
| 126/EAI5 | 18 | 6.14 | 12.08 | ASIA-S 37.58, ASIA-W 16.78, AFRI-E 15.44, EURO-N 13.42, EURO-W 5.37, ASIA-SE 4.03, AMER-N 4.03 | IND 30.2, TZA 14.77, OMN 11.41, GBR 10.07, SAU 5.37, NLD 4.7, LKA 4.7, USA 4.03 |
| 53/T1 | 15 | 5.12 | 0.23 | AMER-S 14.97, EURO-W 14.82, AMER-N 12.77, EURO-S 8.91, EURO-N 7.09, ASIA-W 6.92, AFRI-S 4.7, AFRI-E 4.63, ASIA-E 4.04, AFRI-N 3.33, EURO-E 3.09, CARI 3.06, AMER-C 3.06 | USA 12.5, FXX 7.46, BRA 5.55, ITA 5.05, ZAF 4.6, PER 3.69, TUR 3.29, AUT 3.24 |
| 26/CAS1-Delhi | 14 | 4.78 | 0.8 | ASIA-S 55.97, AMER-N 12.46, ASIA-W 12.12, AFRI-E 5.06, EURO-W 4.84, EURO-N 3.75 | IND 38.91, USA 12.46, PAK 8.19, OMN 6.2, BGD 4.72, SAU 4.44, IRN 3.53 |
| 1/Beijing | 12 | 4.1 | 0.11 | ASIA-E 32.35, AMER-N 19.02, ASIA-SE 10.11, AFRI-S 7.85, ASIA-N 6.59, ASIA-S 5.64, EURO-N 3.46, AMER-S 3.44 | CHN 19.22, USA 18.78, JPN 10.91, ZAF 7.85, RUS 6.59, VNM 3.69, IND 3.26, PER 3.0 |
| 8/EAI5 | 12 | 4.1 | 6 | AFRI-E 21.5, ASIA-W 18.5, AMER-C 17.0, EURO-N 15.0, AMER-N 14.5, ASIA-S 4.0, AFRI-S 3.0 | MEX 17.0, USA 14.5, OMN 14.5, TZA 11.5, DNK 8.0, MOZ 6.0, GBR 5.0, ZMB 4.0, IND 4.0, ZAF 3.0, SAU 3.0 |
| 345/T3-ETH | 7 | 2.39 | 33.33 | AFRI-E 57.14, EURO-N 33.33, AMER-N 9.52 | TZA 33.33, GBR 19.05, ETH 14.29, USA 9.52, KEN 9.52, FIN 9.52, NOR 4.76 |
| 42/LAM9 | 6 | 2.05 | 0.17 | AMER-S 31.94, AMER-N 11.17, EURO-S 10.66, EURO-W 8.92, AFRI-N 8.07, EURO-N 4.62, CARI 4.0, AFRI-E 3.52, AMER-C 3.35 | BRA 12.89, USA 11.17, COL 7.18, MAR 6.64, ITA 6.16, FXX 4.76, PER 3.49, ESP 3.15, VEN 3.12 |
| 420/T2-uganda | 6 | 2.05 | 24 | AFRI-E 40.0, AMER-N 32.0, EURO-W 24.0, EURO-N 4.0 | USA 32.0, TZA 32.0, BEL 20.0, ZMB 4.0, UGA 4.0, SWE 4.0, DEU 4.0 |
| 2196/LAM11-ZWE | 6 | 2.05 | 30 | AFRI-E 70.0, AFRI-S 20.0, EURO-W 5.0, EURO-N 5.0 | TZA 35.0, MOZ 25.0, ZAF 20.0, ZMB 10.0, FIN 5.0, BEL 5.0 |
| 244/T1 | 5 | 1.71 | 4.03 | AFRI-E 16.13, AFRI-S 15.32, EURO-S 14.52, AMER-S 14.52, ASIA-S 12.9, EURO-W 12.1, AFRI-W 6.45, AMER-N 4.03 | ZAF 15.32, PRT 12.9, BRA 12.9, BGD 11.29, FXX 10.48, ZMB 6.45, GNB 5.65, TZA 4.84, USA 4.03 |
| 37/T3 | 4 | 1.37 | 0.73 | AFRI-E 18.98, AMER-S 12.96, EURO-N 11.31, EURO-W 10.95, ASIA-W 10.04, AMER-N 8.21, ASIA-E 5.84, EURO-S 5.47, EURO-E 4.2, ASIA-S 3.47, AFRI-S 3.1 | ETH 15.88, USA 7.3, CHL 5.47, SWE 4.93, SAU 4.75, CHN 4.75, FXX 4.01, ITA 3.83, BRA 3.47, ZAF 3.1, DNK 3.1 |
| 135/T2-uganda | 4 | 1.37 | 11.43 | EURO-W 34.29, AMER-N 17.14, AFRI-S 17.14, AFRI-E 17.14, ASIA-W 5.71 | ZAF 17.14, USA 17.14, TZA 11.43, DEU 11.43, NLD 8.57, AUT 8.57, SAU 5.71, FXX 5.71 |
| 149/T3-ETH | 4 | 1.37 | 0.82 | AFRI-E 58.4, EURO-N 21.52, ASIA-W 6.97, EURO-W 6.35, AMER-N 4.71 | ETH 57.58, DNK 11.68, SAU 6.56, USA 4.71, SWE 4.51, NLD 3.48 |
| 25/CAS1-Delhi | 3 | 1.02 | 0.45 | ASIA-W 25.26, AFRI-E 23.76, ASIA-S 17.59, AFRI-N 12.63, AMER-N 7.82, EURO-N 5.41, EURO-W 4.06 | ETH 22.26, SAU 14.14, IND 13.38, SDN 10.38, USA 7.82, OMN 6.32, IRQ 4.36 |
| 50/H3 | 3 | 1.02 | 0.07 | AMER-S 26.56, EURO-W 14.86, AMER-N 14.86, EURO-S 9.77, CARI 4.92, EURO-E 4.67, EURO-N 4.62, AFRI-N 3.6, AFRI-S 3.42, AFRI-M 3.2 | USA 14.84, PER 13.54, BRA 7.1, FXX 5.82, AUT 5.15, ITA 4.6, ESP 4.6, ZAF 3.42, CMR 3.15, CZE 3.1 |
| 128/T2-uganda | 3 | 1.02 | 8.57 | EURO-W 40.0, AFRI-S 25.71, AFRI-E 25.71 | ZAF 25.71, TZA 17.14, FXX 14.29, DEU 11.43, ZMB 8.57, NLD 8.57, BEL 5.71 |
* Worldwide distribution is reported for regions with more than 3% of a given SITs as compared to their total number in the SITVIT2 database. The definition of macro-geographical regions and sub-regions (http://unstats.un.org/unsd/methods/m49/m49regin.htm) is according to the United Nations; 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 ≥3% of a given SITs as compared to their total number in the SITVIT2 database.