TABLE 2.
VP37 mutation and tecovirimat resistance data for human monkeypox virus specimensa
| Patient | Specimen (source) | VP37 mutations detected (allele frequencyb) | GISAIDc ID | GenBank ID | SRAd ID | ECe50 (μM) | Fold changef |
|---|---|---|---|---|---|---|---|
| A | A.1 (Unknown) | A290V (0.97) | EPI_ISL_15597062 | OP748968 | SRR22116985 | 0.2032 | 12 |
| A.2 (Unknown) | N267D (0.24), A288P (0.76) | EPI_ISL_15896341 | OP890565 | SRR22398844 | Pending | ||
| A.3 (Penis) | N267D (0.38), A288P (0.37), A295E (0.31), I372N (0.22) | EPI_ISL_15896342 | OP890566 | SRR22398843 | Culture contaminated | ||
| A.4 (Scrotum) | A288P (0.95) | EPI_ISL_15896343 | OP890567 | SRR22398842 | Culture contaminated | ||
| A.5 (Ltg Thigh) | A288P (1.0) | EPI_ISL_15896344 | OP890568 | SRR22398841 | Pending | ||
| A.6 (Rth Sole) | A295E (0.82) | EPI_ISL_15896345 | OP890569 | SRR22398840 | Culture contaminated | ||
| A.7 (Rt Heel) | I372N (0.84) | EPI_ISL_15896346 | OP890570 | SRR22398839 | Culture negative | ||
| A.8 (Lt Back Knee) | N267D (0.55), A288P (0.18), D294V (0.29) | EPI_ISL_15896347 | OP890571 | SRR22398838 | Pending | ||
| A.9 (Unknown) | N267D (0.91) | EPI_ISL_15896348 | OP890572 | SRR22398837 | Culture contaminated | ||
| A.10 (Unknown) | T220A (0.44)i, A265D (0.50)i, A295E (0.51) | EPI_ISL_15896349 | OP890573 | SRR22398836 | Culture contaminated | ||
| A.11 (Lt 2nd Finger) | A288P (0.62), I372N (0.10) | EPI_ISL_15896350 | OP890574 | SRR22398835 | Culture negative | ||
| A.12 (Lt Medial Thigh) | N267D (0.37), A288P (0.63) | EPI_ISL_15896351 | OP890575 | SRR22398833 | Culture contaminated | ||
| A.13 (Rt Eyelid) | A288P (1.0) | EPI_ISL_15896352 | OP890576 | SRR22398832 | Pending | ||
| A.14 (Tongue) | A288P (1.0) | EPI_ISL_15896353 | OP890577 | SRR22398831 | Pending | ||
| A.15 (Rt Forehead) | I372N (0.96) | EPI_ISL_15896329 | OP890553 | SRR22398858 | Pending | ||
| A.16 (Lt Forehead) | N267D (0.88), D294V (0.11) | EPI_ISL_15896330 | OP890554 | SRR22398857 | Culture contaminated | ||
| A.17 (Between Eyes) | A288P (0.88) | EPI_ISL_15896331 | OP890555 | SRR22398855 | 10.28 | 590 | |
| A.18 (Lt Ear) | I372N (0.94) | EPI_ISL_15896332 | OP890556 | SRR22398854 | Pending | ||
| A.19 (Lt Nose) | A288P (0.19), A290V (0.25), I372N (0.35) | EPI_ISL_15896333 | OP890557 | SRR22398853 | Pending | ||
| A.20 (Rt Cheek) | A288P (0.12), I372N (0.87) | EPI_ISL_15896334 | OP890558 | SRR22398852 | Culture negative | ||
| A.21 (Lower Lip) | N267D (0.70), A288P (0.22) | EPI_ISL_15896335 | OP890559 | SRR22398851 | Pending | ||
| A.22 (Lt Neck) | A288P (0.85) | EPI_ISL_15896336 | OP890560 | SRR22398850 | Culture negative | ||
| A.23 (Lt Chest) | T220I (0.49)i, P243S (0.50), A295E (0.51) | EPI_ISL_15896337 | OP890561 | SRR22398849 | Culture negative | ||
| A.24 (Rt Hand) | A290V (0.88) | EPI_ISL_15896338 | OP890562 | SRR22398848 | Culture negative | ||
| A.25 (Lt Elbow) | D294V (1.0) | EPI_ISL_15896339 | OP890563 | SRR22398847 | Pending | ||
| A.26 (Lt Shoulder) | H238Q (0.99) | EPI_ISL_15896340 | OP890564 | SRR22398846 | 0.5803 | 33 | |
| B | B.1 (Unknown) | T245I (0.12)i, D294V (0.91) | EPI_ISL_15325434 | OP615280 | SRR21864633 | 0.3820 | 22 |
| B.2 (Rt Ear) | H238Q (0.27), A288P (0.21), D294V (0.15), I372N (0.33) | EPI_ISL_15417996 | OP680496 | SRR21966131 | ~5.150 | ~290 | |
| C | C.1 (Unknown) | A290V (1.0) | EPI_ISL_15896305 | OP890529 | SRR22398845 | Culture negative | |
| C.2 (Unknown) | A290V (1.0) | EPI_ISL_15955339 | OP920682 | SRR22459664 | Culture negative | ||
| D | D.1 (Penis) | N267D (0.68), A288P (0.29) | EPI_ISL_17582852 | OQ888843 | SRR24326324 | 15.89 | 910 |
| E | E.1 (Lt Foot Between Toes) | I372N (1.0) | EPI_ISL_15418000 | OP680500 | SRR21966127 | 0.07286 | 3.5 |
| E.2 (Rt Cheek) | D294V (1.0) | EPI_ISL_15418001 | OP680501 | SRR21966126 | 0.3364 | 19 | |
| E.3 (Lt Hand by Thumb) | A290V (1.0) | EPI_ISL_15418002 | OP680502 | SRR21966125 | 0.1670 | 7.9 | |
| E.4 (Lt Foot) | A290V (0.30), I372N (0.86) | EPI_ISL_15418003 | OP680503 | SRR21966124 | 0.05551 | 2.6 | |
| E.5 (Lt Ring Finger) | H238Q (1.0) | EPI_ISL_15418004 | OP680504 | SRR21966123 | 0.5390 | 28 | |
| E.6 (Rt Foot) | N267D (0.97) | EPI_ISL_15418005 | OP680505 | SRR21966122 | 11.05 | 480 | |
| E.7 (Lt Foot, Scab) | A290V (0.56), I372N (0.77) | EPI_ISL_15418007 | OP680507 | SRR21966119 | 77.37 | 4400 | |
| E.8 (Lt Chin, Scab) | D294V (1.0) | EPI_ISL_15418008 | OP680508 | SRR21966118 | 0.2344 | 13 | |
| E.9 (Lt Great Toe) | I372N (1.0) | EPI_ISL_16997407 | OQ503839 | SRR23580660 | Pending | ||
| E.10 (Lt 4th Finger) | H238Q (1.0) | EPI_ISL_16997408 | OQ503840 | SRR23580659 | Pending | ||
| E.11 (Rt Medial Foot) | N267D (1.0) | EPI_ISL_16997409 | OQ503841 | SRR23580658 | Pending | ||
| E.12 (Lt Great Toe, Tissue) | I372N (1.0) | EPI_ISL_16997410 | OQ503842 | SRR23580657 | Pending | ||
| E.13 (Rt Medial Foot, Tissue) | N267D (0.45), I372N (0.56) | EPI_ISL_16997411 | OQ503843 | SRR23580656 | Pending | ||
| E.14 (Lt 4th Finger, Tissue) | H238Q (1.0) | EPI_ISL_16997412 | OQ503844 | SRR23580655 | Pending | ||
| F | F.1 (Unknown)# | none | EPI_ISL_16679205 | OQ330972 | SRR23238068 | 0.007144 | 0.41 |
| F.2 (Face) | A290V (0.68) | EPI_ISL_16997464 | OQ503820 | SRR23580586 | Culture contaminated | ||
| F.3 (Lt Ear) | T289A (0.41)i, I372N (0.81) | EPI_ISL_16679238 | OQ331005 | SRR23238051 | Pending | ||
| F.4 (Lt Buttock) | A290V (1.0) | EPI_ISL_16679239 | OQ331006 | SRR23238050 | 0.2257 | 13 | |
| F.5 (Rt Foot) | A290V (0.52) | EPI_ISL_16679240 | OQ331007 | SRR23238049 | Culture negative |
a
All specimens are from lesion swabs unless noted otherwise. Consensus mutations with an allele frequency of 0.6 or greater are in bold text. Specimens with a 2- to 9-fold increase in resistance are considered partially resistant, while a 10-fold or greater increase is considered resistant.
b
Alelle frequency = proportion of mapped reads containing the corresponding mutation at each site.
c
GISAID = Global Initiative on Sharing Avian Influenza Data.
d
SRA = Sequence Read Archive.
e
EC50 = Half-maximal effective concentration.
f
Fold change = observed EC50 compared to EC50 for MPXV Clade IIa (US, 2003 strain).
g
Lt = Left.
h
Rt = Right.
i
Previously unassociated with tecovirimat resistance; #Tecovirimat-naïve specimen.