Table 6 Phenotypic drug susceptibility of viral strains to integrase strand transfer inhibitors (INSTIs) harvested at the designated week of selection with cabotegravir (CAB) or elvitegravir (EVG)

pNL4.3

WT

0.71

0.49

0.39

0.13

–

pNL4.3-R263K

R263K

1.56 (2.2 ×)

1.60 (3.3 ×)

0.91 (2.4 ×)

0.79 (6.1 ×)

–

pNL4.3-S153Y

S153Y

3.34 (4.7 ×)

3.40 (7.0 ×)

1.01 (2.6 ×)

<0.3 (2 ×)

–

pNL4.3-S153F

S153F

0.45 (0.63 ×)

0.63 (1.3 ×)

0.56 (1.4 ×)

<0.3

–

E78004 No drug

WT

0.49

1.26

0.27

0.65

1.18

E78004 Wk18 CAB (0.0025 μM)

Q95KQ, Q148R

1.28 (2.6 ×)

1.17 (0.9 ×)

0.67 (2.5 ×)

0.90 (32 ×)

1.64 (1.4 ×)

E78004 Wk26 CAB (0.005 μM)

Q95KQ, Q148R, E138EK

1.60 (3.3 ×)

1.77 (1.4 ×)

3.04 (11.3 ×)

93.57 (144 ×)

20.76 (18 ×)

E78004 Wk36 CAB (0.25 μM)

Q148R, E138K, L74I, G140GS

12.34 (25 ×)

6.08 (5.3 ×)

23.6 (87 ×)

36.16 (57 ×)

3182 (> 100 ×)

E78004 No drug

WT

0.66

0.66

0.43

0.79

1.69

E78004 Wk18 EVG (0.25 μM)

T66I, Q95K, E157EQ

0.59 (0.9 ×)

0.56 (0.9 ×)

0.24 (0.5 ×)

29.10 (37 ×)

14.57 (8.6 ×)

E78004 Wk26 EVG (0.25 μM)

T66I, Q95K, E157Q

0.53 (0.8 ×)

0.38 (0.6 ×)

0.39 (0.9 ×)

69.76 (89 ×)

7.98 (4.7 ×)

E78004 Wk36 EVG (2.5 μM)

T66I, Q95K, E157Q, S230R

0.06 (0.1 ×)

0.01 (0.01 ×)

0.03 (0.1 ×)

123.10 (156 ×)

5.47 (3.2 ×)

E78060 No drug

WT

0.52

0.92

0.45

0.46

2.43

E78060 Wk36 RAL (0.5 μM)

T97A, A128AT, E157Q, V151I

0.31 (0.6 ×)

0.30 (0.3 ×)

0.22 (0.5 ×)

23.79 (52 ×)

49.83 (21 ×)

E102952 No drug

WT (E157 Q)

0.09

0.25

0.13

0.33

0.44

E102952 Wk18 RAL (0.025 μM)

Q148R (E157Q)

0.17 (1.8 ×)

0.10 (0.4 ×)

0.14 (1 ×)

0.41 (1.3 ×)

0.75 (1.7 ×)

E102952 Wk38 RAL (20 μM)

Q148R, E138K, G140A, V151IV (E157Q)

5.46 (58 ×)

2.63 (10.6 ×)

2.13 (16.3 ×)

1255 (> 100 ×)

1519 (> 100 ×)