Gag substitutions* | Subtype | Prevalence# | P-value | Adjusted p-value |
---|
PI-resistant dataset | PI-susceptible dataset |
---|
V128I | B | 5.8% (7/121&) | 0.9% (6/638) | 0.002 | 0.024 |
Y132F | B | 10.7% (13/122) | 3.4% (22/639) | 0.004 | 0.035 |
K415R | C | 2.5% (3/119) | 0.0% (0/1727) | <0.0001 | 0.012 |
Q430R | C | 2.5% (3/119) | 0.1% (1/1727) | 0.003 | 0.046 |
A431V | B | 13.5% (23/170) | 0.1% (1/787) | <0.0001 | <0.0001 |
01_AE | 18.2% (4/22) | 0.7% (8/1111) | <0.0001 | 0.007 |
I437V | B | 8.9% (15/168) | 1.7% (13/784) | <0.0001 | <0.0001 |
L449F | B | 5.6% (21/377) | 0.5% (7/1352) | <0.0001 | <0.0001 |
L449V | B | 4.8% (18/377) | 0.9% (12/1352) | <0.0001 | <0.0001 |
S451G | B | 3.4% (13/378) | 1.3% (17/1348) | 0.008 | 0.041 |
S451T | B | 2.1% (8/378) | 0.0% (0/1348) | <0.0001 | <0.0001 |
R452S | B | 3.4% (13/384) | 0.3% (4/1374) | <0.0001 | <0.0001 |
P453T | C | 21.8% (26/119) | 3.1% (53/1722) | <0.0001 | <0.0001 |
P453L | B | 18.5% (71/384) | 7.1% (99/1399) | <0.0001 | <0.0001 |
- *A list of Gag substitutions whose prevalence differs significantly between sequences estimated to be (fully or partially) PI-resistant and sequences estimated to be PI-susceptible (see full reports in Additional file 1: Table S4). The substitutions are indicated relative to the consensus amino acids from individual subtypes [15]. One-tailed Fisher's exact tests were performed, and p-values were adjusted using multiple testing correction via the false discovery rate (FDR) approach [18].
- #Statistical analyses were only performed on individual subtype (B, C, G, 01_AE) datasets, which contained more than 10 (partially or fully) PI-resistant sequences. Additional file 1: Table S3 summarizes the subtype distribution of PI-resistant and PI-susceptible sequence datasets.
- &: The numerator indicates the number of sequences for which the corresponding Gag position is covered; the denominator indicates the number of sequences displaying the respective amino acid substitutions.