Table 3.
Comparative prevalence of the main SITs found, herein defined as SITs with a prevalence equal or >5.0% in at least one dataset, associated clade and distribution per dataset.
| SIT/Clade | Spoligotyping profile | No. of isolates (%) |
Distribution in countries with ≥ 2% of a given SITa | ||||
|---|---|---|---|---|---|---|---|
| Angola | Brazil | Guinea-Bissau | Mozambique | Portugal | |||
| 1/Beijing |  |
0 (0) | 0 (0) | 8 (61.5) | 0 (0) | 25 (6.9) | CN = 19.12, US = 18.89, JP = 10.86, ZA = 7.81, RU = 6.6, VN = 3.67, IN = 3.56, PE = 2.96, MY = 2.79 |
| 20/LAM1 |  |
17 (19.1) | 43 (5.7) | 0 (0) | 0 (0) | 97 (26.7) | BR = 17.62, US = 17.08, HT = 7.3, NA = 6.66, PT = 5.26, FR = 5.26, VE = 4.51, ZA = 2.9, ES = 2.69, AR = 2.36, PE = 2.26, CO = 2.15, BE = 2.04 |
| 34/S |  |
0 (0) | 0 (0) | 0 (0) | 2 (14.3) | 3 (0.8) | ZA = 17.11, US = 14.89, IT = 11.78, CA = 8.22, BR = 8.00, FR = 4.00, BG = 3.44, HT = 2.78, BE = 2.33 |
| 42/LAM9 |  |
15 (16.9) | 46 (6.1) | 2 (15.4) | 0 (0) | 31 (8.5) | BR = 14.45, US = 10.6, CO = 7.64, MA = 6.3, IT = 5.85, FR = 4.54, AR = 3.53, PE = 3.31, ES = 2.99, VE = 2.96, ZA = 2.83, HT = 2.16, RU = 2.06 |
| 45/H1 |  |
0 (0) | 57 (7.5) | 0 (0) | 0 (0) | 1 (0.3) | AT = 16.51, MQ = 11.01, US = 9.17, CO = 8.26, IT = 8.26, BR = 8.26, GP = 7.34, DE = 3.67, NL = 2.75, LC = 2.75, SE = 2.75 |
| 50/H3 |  |
0 (0) | 56 (7.4) | 0 (0) | 0 (0) | 3 (0.8) | US = 14.2, PE = 12.6, BR = 7.85, FR = 5.56, AT = 4.92, ES = 4.39, IT = 4.39, ZA = 3.27, AR = 3.08, CM = 3.01, CZ = 2.96, HT = 2.77, TR = 2.58, SE = 2.29 |
| 53/T1 |  |
12 (13.5) | 59 (7.8) | 0 (0) | 2 (14.3) | 19 (5.2) | US = 11.96, FR = 7.14, BR = 5.87, IT = 4.82, TR = 4.51, ZA = 4.39, PE = 4.29, AT = 3.09, CN = 2.82, FI = 2.65, MX = 2.58, ET = 2.35, SA = 2.26, AR = 2.19, ES = 2.09 |
| 65/T1 |  |
0 (0) | 60 (7.9) | 0 (0) | 0 (0) | 0 (0) | BR = 39.29, HT = 21.43, US = 9.29, FR = 6.43, ES = 3.57, AT = 2.86, CM = 2.14 |
| 129/EAI6-BGD |  |
0 (0) | 0 (0) | 0 (0) | 1 (7.1) | 1 (0.3) | MZ = 26.15, BR = 26.15, GF = 12.31, US = 7.69, MW = 6.15, ZA = 4.62, TN = 3.08 |
| 144/Unknown |  |
5 (5.6) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | GM = 29.51, BE = 26.23, FR = 13.11, BG = 9.84, US = 6.56, IT = 3.28 |
| 181/AFRI_1 |  |
0 (0) | 0 (0) | 1 (7.7) | 0 (0) | 1 (0.3) | GW = 34.03, GM = 34.03, US = 7.29, FR = 5.56, IT = 4.51, NL = 3.82, GB = 2.78, SN = 2.43 |
| 187/AFRI_1 |  |
0 (0) | 0 (0) | 1 (7.7) | 0 (0) | 0 (0) | GW = 47.47, GM = 18.18, FR = 11.11, US = 11.11, TN = 5.05, BE = 2.02 |
| 244/T1 |  |
6 (6.7) | 2 (0.3) | 1 (7.7) | 0 (0) | 6 (1.7) | BR = 23.4, ZA = 13.48, PT = 11.35, BD = 9.93, FR = 9.22, ZM = 5.67, GW = 4.96, TZ = 4.26, US = 3.55, MZ = 2.13 |
| 806/EAI1-SOM |  |
0 (0) | 0 (0) | 0 (0) | 1 (7.1) | 1 (0.3) | ZA = 44.44, MZ = 31.48, US = 14.81, ZW = 3.70, NO = 3.70 |
| 811/LAM11-ZWE |  |
0 (0) | 0 (0) | 0 (0) | 1 (7.1) | 1 (0.3) | ZA = 40.35, MZ = 26.32, ZW = 14.04, US = 8.77, ZM = 3.51, BE = 3.51, TZ = 3.51 |
| 1106/LAM4 |  |
0 (0) | 0 (0) | 0 (0) | 0 (0) | 38 (10.5) | PT = 40.91, BR = 31.82, ES = 18.18, IT = 4.55, PE = 4.55 |
| 2375/H1 |  |
0 (0) | 0 (0) | 0 (0) | 3 (21.4) | 0 (0) | ZA = 50.00, PE = 21.43, BE = 14.29, MZ = 7.14, DE = 7.14 |
| 4140/Unknown |  |
0 (0) | 0 (0) | 0 (0) | 2 (14.3) | 0 (0) | New SIT |
Countrywide distribution is only shown for SITs with ≥2% of a given SIT as compared to their total number in the SITVIT database; the 2 letter country codes are according to http://en.wikipedia.org/wiki/ISO_3166-1_alpha-2:; AD Andorra; AE United Arab Emirates; AF Afghanistan; AG Antigua and Barbuda; AI Anguilla; AL Albania; AM Armenia; AO Angola; AQ Antarctica; AR Argentina; AS American Samoa; AT Austria; AU Australia; AW Aruba; AX Åland Islands; AZ Azerbaijan; BA Bosnia and Herzegovina; BB Barbados; BD Bangladesh; BE Belgium; BF Burkina Faso; BG Bulgaria; BH Bahrain; BI Burundi; BJ Benin; BL Saint Barthelemy; BM Bermuda; BN Brunei; BO Bolivia; BQ Bonaire; Sint Eustatius and Saba; BR Brazil; BS Bahamas; BT Bhutan; BV Bouvet Island; BW Botswana; BY Belarus; BZ Belize; CA Canada; CC Cocos (Keeling) Islands; CD Congo, the Democratic Republic of the; CF Central African Republic; CG Congo; CH Switzerland; CI Ivory Coast; CK Cook Islands; CL Chile; CM Cameroon; CN China; CO Colombia; CR Costa Rica; CU Cuba; CV Cabo Verde; CW Curaçao; CX Christmas Island; CY Cyprus; CZ Czech Republic; DE Germany; DJ Djibouti; DK Denmark; DM Dominica; DO Dominican Republic; DZ Algeria; EC Ecuador; EE Estonia; EG Egypt; EH Western Sahara; ER Eritrea; ES Spain; ET Ethiopia; FI Finland; FJ Fiji; FK Falkland Islands (Malvinas); FM Micronesia, Federated States of; FO Faroe Islands; FR France; GA Gabon; GB United Kingdom of Great Britain and Northern Ireland; GD Grenada; GE Georgia; GF French Guiana; GG Guernsey; GH Ghana; GI Gibraltar; GL Greenland; GM Gambia; GN Guinea; GP Guadeloupe; GQ Equatorial Guinea; GR Greece; GS South Georgia and the South Sandwich Islands; GT Guatemala; GU Guam; GW Guinea-Bissau; GY Guyana; HK Hong Kong; HM Heard Island and McDonald Islands; HN Honduras; HR Croatia; HT Haiti; HU Hungary; ID Indonesia; IE Ireland; IL Israel; IM Isle of Man; IN India; IO British Indian Ocean Territory; IQ Iraq; IR Iran; IS Iceland; IT Italy; JE Jersey; JM Jamaica; JO Jordan; JP Japan; KE Kenya; KG Kyrgyzstan; KH Cambodia; KI Kiribati; KM Comoros; KN Saint Kitts and Nevis; KP Korea, Democratic People's Republic of (North Korea); KR Korea, Republic of (South Korea); KW Kuwait; KY Cayman Islands; KZ Kazakhstan; LA Laos; LB Lebanon; LC Saint Lucia; LI Liechtenstein; LK Sri Lanka; LR Liberia; LS Lesotho; LT Lithuania; LU Luxembourg; LV Latvia; LY Libya; MA Morocco; MC Monaco; MD Moldova, Republic of; ME Montenegro; MF Saint Martin (French part); MG Madagascar; MH Marshall Islands; MK Macedonia; ML Mali; MM Myanmar; MN Mongolia; MO Macao; MP Northern Mariana Islands; MQ Martinique; MR Mauritania; MS Montserrat; MT Malta; MU Mauritius; MV Maldives; MW Malawi; MX Mexico; MY Malaysia; MZ Mozambique; NA Namibia; NC New Caledonia; NE Niger; NF Norfolk Island; NG Nigeria; NI Nicaragua; NL Netherlands; NO Norway; NP Nepal; NR Nauru; NU Niue; NZ New Zealand; OM Oman; PA Panama; PE Peru; PF French Polynesia; PG Papua New Guinea; PH Philippines; PK Pakistan; PL Poland; PM Saint Pierre and Miquelon; PN Pitcairn; PR Puerto Rico; PS Palestine (Palestinian Territory, Occupied - Consists of the West Bank and the Gaza Strip); PT Portugal; PW Palau; PY Paraguay; QA Qatar; RE Réunion; RO Romania; RS Serbia; RU Russian Federation (Russia); RW Rwanda; SA Saudi Arabia; SB Solomon Islands; SC Seychelles; SD Sudan; SE Sweden; SG Singapore; SH Saint Helena, Ascension and Tristan da Cunha (Saint Helena); SI Slovenia; SJ Svalbard and Jan Mayen; SK Slovakia; SL Sierra Leone; SM San Marino; SN Senegal; SO Somalia; SR Suriname; SS South Sudan; ST Sao Tome and Principe; SV El Salvador; SX Sint Maarten (Dutch part); SY Syrian Arab Republic; SZ Swaziland; TC Turks and Caicos Islands; TD Chad; TF French Southern Territories (Terres australes françaises); TG Togo; TH Thailand; TJ Tajikistan; TK Tokelau; TL Timor-Leste (East Timor); TM Turkmenistan; TN Tunisia; TO Tonga; TR Turkey; TT Trinidad and Tobago; TV Tuvalu; TW Taiwan; TZ Tanzania; UA Ukraine; UG Uganda; UM United States Minor Outlying Islands; US United States of America; UY Uruguay; UZ Uzbekistan; VA Holy See; VC Saint Vincent and the Grenadines; VE Venezuela; VG Virgin Islands (British); VI Virgin Islands (US); VN Vietnam; VU Vanuatu; WF Wallis and Futuna; WS Samoa; YE Yemen; YT Mayotte; ZA South Africa; ZM Zambia; ZW Zimbabwe.