TABLE 2

Evolutionary rates (10−3 codon substitutions/site/year) in the V1-C3 env regions determined using a strict clock hierarchical phylogenetic modela

Genetic
region
All
individualsc
CD4% stratification
CD4% decline rateCD4% level and the combined coefficientb
Fast
progressorsc
Slow
progressorsc
Bayes factordFast
progressorsc
Slow
progressorsc
Bayes factord
V1-C323.5 (20.3-26.6)24.7 (20.1-29.6)21.9 (19.1-24.9)0.328.6 (24.2-33.5)14.9 (12.2-17.6)20.3
V1V229.5 (25.1-34.2)a30.1 (24.6-36.0)28.8 (23.7-34.0)0.335.4 (28.9-42.2)19.6 (14.8-24.7)11.8
C218.0 (15.2-20.7)a18.6 (15.3-21.9)16.7 (13.9-19.5)0.321.5 (17.6-25.7)12.0 (9.2-15.2)28.4
V321.2 (17.0-25.7)a21.6 (16.5-26.8)20.8 (15.7-25.9)0.324.1 (18.0-30.6)16.5 (11.0-22.2)2.4
C326.6 (22.6-31.1)a27.0 (22.0-32.4)26.0 (21.6-30.6)0.230.4 (24.3-27.0)20.2 (15.2-25.8)6.1
  • a P values for Wilcoxon signed rank tests for comparisons of rates between regions were as follows: for V1V2 versus C2, <0.001; for V1V2 versus V3, 0.002; for V1V2 versus C3, 1; for C2 versus V3, 0.005; for C2 versus C3, <0.001; for V3 versus C3, <0.001.

  • b The combined coefficient values represent a combination of CD4% decline rate and CD4% level.

  • c Data correspond to 10−3 codon substitutions per site per year (95% highest posterior density interval).

  • d Bayes factor (BF) support for association between codon substitution rate and disease progression (faster versus slower progressors). BF >3 was considered evidence of a significant association.