Table 3 Characteristics of 15 selected transmission clusters comprising of ≥5 Croatian sequences subtype B with aLRT >0.90 and their estimated times of the most recent common ancestor.
From: Analysis of HIV-1 diversity, primary drug resistance and transmission networks in Croatia
Cluster, total no. of sequences, (n) | Croatian sequences, n (%) | aLRT | Geographic origin of non-Croatian sequnces in TC | SDRMs in TC, (n) | Type of cluster | Full dataset analysis | Individual cluster analysis | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|
tMRCA, mean | tMRCA, median | tMRCA, 95% HPD | tMRCA, mean | tMRCA, median | tMRCA, 95% HPD | ||||||
1 (80) | 77 (96) | 0.99 | Poland, Slovenia | / | Expanding | 1998.3 | 1998.5 | 1994.1–2002.2 | 1998.5 | 1998.6 | 1994.7–2001.8 |
2 (53) | 52 (98) | 0.97 | UK | T215S (38), T215S + L210W (9) | Expanding | 1992.1 | 1992.3 | 1988.7–1997.1 | 1993.01 | 1992.9 | 1988.4–1997.9 |
3 (51) | 40 (76) | 0.91 | Poland, Slovenia, Czech Republic, US | / | Newly formed | 2003.3 | 2003.4 | 2006.6–2011.8 | 2003.8 | 2003.9 | 2006.6–2011.8 |
4 (46) | 32 (70) | 0.95 | Germany | K219Q (1), G190E (1) | Expanding | 1990.4 | 1990.9 | 1985.4–1995.1 | 1995.5 | 1995.6 | 1993.8–1996.9 |
5 (33) | 28 (85) | 0.94 | Slovenia, Germany, Peru | K219R + M41L (1); T69D (1) | Expanding | 1993.2 | 1993.3 | 1987.2–1999.7 | 1993.01 | 1992.9 | 1988.4–1997.9 |
6 (21) | 20 (95) | 0.9 | Slovenia | / | Newly formed | 2005.3 | 2005.5 | 2001.9–2008.3 | 2004.7 | 2004.8 | 2001–9–2007.5 |
7 (17) | 13 (76) | 0.96 | Serbia | / | Newly formed | 2005.1 | 2005.4 | 2001.7–2008.1 | 2004.5 | 2004.7 | 2001.4–2007.1 |
8 (14) | 14 (100) | 0.94 | / | K101E (14) | Newly formed | 2008.7 | 2008.8 | 2005.8–2011.6 | 2009.1 | 2009.2 | 2006.7–2011.3 |
9 (14) | 12 (86) | 0.97 | Slovenia, UK | Expanding | 1996.2 | 1996.4 | 2002.7–1989.6 | 1998.3 | 1998.6 | 1992.8–2003.1 | |
10 (9) | 8 (89) | 0.93 | UK | V32I + I47V + T215D + K103N + L100I (8) | Newly formed | 2008.2 | 2008.1 | 2005.9–2010.6 | 2006.9 | 2007.1 | 2004.1–2009.7 |
11 (30) | 14 (47) | 0.99 | Slovenia | / | Expanding | 1992.3 | 1992.4 | 1986.7–1995.5 | ND | ND | ND |
12 (11) | 11 (100) | 0.96 | / | T215S (2), T215S + L210W (9) | Expanding | 2009.1 | 2009.2 | 2006.6–2011.5 | ND | ND | ND |
13 (8) | 8 (100) | 0.99 | / | / | Newly formed | 2007.2 | 2007.4 | 2002.3–2011.6 | ND | ND | ND |
14 (24) | 10 (42) | 0.98 | Czech Republic, Slovakia, Germany | / | Expanding | 1992.5 | 1992.2 | 1987.5–1998.1 | ND | ND | ND |
15 (21) | 5 (24) | 0.99 | Slovenia | / | Newly formed | 1995.7 | 1995.9 | 1992.1–1999.6 | ND | ND | ND |
