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Table 3 Prevalence of PI-associated Gag substitutions in individual HIV-1 subtypes

From: HIV-1 Gag C-terminal amino acid substitutions emerging under selective pressure of protease inhibitors in patient populations infected with different HIV-1 subtypes

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

  1. *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].
  2. #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.
  3. &: 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.