Supplementary Table 1. Identities and attributes for the 205 HIV-1-positive sera.
________________________________________________________________________________________________________________
Clade1
Name
Accession
Pre-screened
________________________________________________________________________________________________________________
A
707010095
HQ615968
Y
A
707010117
HQ615970
Y
A
707010240
HQ615971
Y
A
707010627
HQ615979
Y
A
A220
HQ595767
N
A
I230
HQ595782
N
A
K160
HQ595784
N
A
M160b
JF680921
N
B
700010333
HQ615980
Y
B
700010464
HQ615981
Y
B
A626
JF680906
N
B
B200
HQ595768
N
B
B400
HQ595769
N
B
B520
HQ595770
N
B
B650c
HQ595771
N
B
B653
HQ595772
N
B
BWH_HIV-025
JF680914
N
B
BWH_HIV-026
JF680915
N
B
BWH_HIV-028
JF680916
N
B
BWH_HIV-029
JF680917
N
B
C500
HQ595774
N
B
C522
JF680907
N
B
C600
JF680909
N
B
C625
JF680910
N
B
CBJC485
JF346916
Y
B
CBJC502
JF346917
Y
B
CBJC507
JF346918
Y
B
CBJC513
JF346919
Y
B
D650
HQ595775
N
B
E214
HQ595776
N
B
E355
HQ595777
N
B
F432b
JF680911
N
B
F455b
HQ595778
N
B
G125b
HQ595779
N
B
G230
HQ595780
N
B
G435
HQ595781
N
B
G652
JF680913
N
B
J525
HQ595783
N
B
K560
HQ595785
N
B
L000b
JF680919
N
B
L563
HQ595786
N
B
M263
JF680923
N
B
M425
HQ595788
N
B
M535
HQ595790
N
B
M600c
JF680924
N
B
N242
JF680925
N
B
P150
JF680928
N
B
P362
HQ595792
N
B
P362b
JF680929
N
B
P400
JF680930
N
1
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
P430
Q230
R232
S200c
S225
S230
S263
S321
S520
T300b
T460
T500105_286588
T500108_503963
T516
T520b
W450b
W452
100008
100177
100206
100239
100248
100255
100256
100257
702010118
703010073
703010085
703010102
703010180
703010479
703010588
703010632
703010760
705010121
705010270
705010528
706010471
707010562
C535
J520
M320d
M520c
N341
S315
SA-C10
SA-C101
SA-C12
SA-C18
SA-C2
SA-C21
SA-C26
SA-C3
SA-C32
JF680931
HQ595794
HQ595795
JF680933
HQ595797
HQ595798
JF680934
HQ595801
HQ595802
JF680936
HQ595803
JF297222
JF297229
HQ595804
HQ595805
HQ595806
JF680937
HQ625597
KC833437
HQ625598
HQ625600
HQ625602
HQ625603
HQ625604
HQ625605
HQ615984
HQ615985
HQ615986
HQ615987
HQ615988
HQ615962
HQ615963
HQ615964
HQ615982
HQ615983
HQ615965
HQ615966
HQ615967
HQ615976
JF680908
JF680918
HQ595787
HQ595789
JF680927
HQ595800
HQ625593
HQ625580
HQ625568
HQ625592
HQ625595
HQ625569
HQ625570
HQ625566
HQ625590
2
N
N
N
N
N
N
N
N
N
N
N
N
N
N
N
N
N
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
N
N
N
N
N
N
Y
Y
Y
Y
Y
Y
Y
Y
Y
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
D
D
D
AC
AC
AC
AC
AD
AD
AD
CD
ABCD
ABCD
01
01
01
01
01
01
01
01
01
01
01
01
01
01
01
02
02
07
07
07
SA-C34
SA-C36
SA-C37
SA-C44
SA-C48
SA-C61
SA-C62
SA-C67
SA-C72
SA-C74
SA-C75
SA-C76
SA-C8
SA-C80
SA-C82
SA-C86
SA-C87
SA-C9
SA-C90
SA-C91
T125
707010549
N320b
N535
707010258
707010277
707010585
S230b
707010100
C200
P534
707010598
G510
M260
707010339
R163b
T500104_276248
T500105_293735
T500105_500617
T500106_501602
T500107_357545
T500107_535902
T500204_502281
T500206_614109
T500207_502102
T500207_503006
T500207_509989
T500208_504258
T500104_256254
A530b
S163
CBJ008
CBJA017
CBJA021
HQ625571
HQ625589
HQ625572
HQ625588
HQ625573
HQ625587
HQ625574
HQ625575
HQ625585
HQ625576
HQ625584
HQ625577
HQ625594
HQ625565
HQ625583
HQ625578
HQ625582
HQ625567
HQ625579
HQ625581
JF680935
HQ615975
JF680926
HQ595791
HQ615972
HQ615973
HQ615977
HQ595799
HQ615969
HQ595773
HQ595793
HQ615978
JF680912
JF680922
HQ615974
JF680932
JF297221
JF297223
JF297224
JF297225
HQ690973
JF297232
JF297227
JF297233
JF297226
JF297228
JF297231
JF297230
KC748972
JF680905
HQ595796
JF346900
JF346901
JF346902
3
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
N
Y
N
N
Y
Y
Y
N
Y
N
N
Y
N
N
Y
N
N
N
N
N
N
N
N
N
N
N
N
N
N
N
N
Y
Y
Y
07
CBJA022
JF346903
Y
07
CBJA023
JF346904
Y
07
CBJA025
JF346905
Y
07
CBJA028
JF346906
Y
07
CBJA552
JF346907
Y
07
CBJA555
JF346908
Y
07
CBJA556
JF346909
Y
07
CBJA557
JF346910
Y
07
CBJA558
JF346911
Y
07
CBJA561
JF346912
Y
07
CBJA563
JF346913
Y
07
CBJA570
JF346914
Y
07
CBJB347
JF346915
Y
NA
700010555
NA
Y
NA
707010013
NA
Y
NA
A320
NA
N
NA
A400d
NA
N
NA
A530
NA
N
NA
B622
NA
N
NA
B650d
NA
N
NA
BWH_HIV-014
NA
N
NA
BWH_HIV-017
NA
N
NA
BWH_HIV-018
NA
N
NA
BWH_HIV-019
NA
N
NA
BWH_HIV-020
NA
N
NA
BWH_HIV-021
NA
N
NA
BWH_HIV-022
NA
N
NA
BWH_HIV-023
NA
N
NA
BWH_HIV-024
NA
N
NA
C520
NA
N
NA
C550
NA
N
NA
C650b
NA
N
NA
D250b
NA
N
NA
G363b
NA
N
NA
H630
NA
N
NA
J540
NA
N
NA
K152
NA
N
NA
M153
NA
N
NA
M246
NA
N
NA
O325
NA
N
NA
P636
NA
N
NA
S143
NA
N
NA
S451
NA
N
NA
S640
NA
N
NA
SA-C55
NA
Y
NA
SA-C63
NA
Y
NA
V563
NA
N
________________________________________________________________________________________________________________
1NA
indicates that env amplification was unsuccessful.
4
Supplementary Table 2. Identities and attributes for the complete panel of 219 tier 2 Envpseudotyped viruses assayed with HIV-1 sera and bnAbs.
______________________________________________________________________________________________________________________
Assayed with
Clade
Stage1
Country2
Accession
Name
bnAbs
______________________________________________________________________________________________________________________
A
A
A
A
A
A
A
A
A
A
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
E
E
E
E
E
E
I
I
L
NA
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
I
I
I
I
I
KE
KE
KE
UG
UG
UG
KE
RW
KE
TZ
US
US
IT
TT
TT
US
US
US
US
US
US
US
US
US
US
US
IT
US
TH
TT
TT
US
US
US
US
US
US
US
US
US
US
US
US
TT
US
US
ES
AF407152
AF407158
AF407160
HM215266
HM215272
HM215350
HM215275
HM215434
DQ187010
HM215312
EU289184
EU289186
AY835445
AY835441
EU289200
AY835446
AY835447
AY835448
AY835449
AY835451
EU289183
EU289185
EU289189
EU289190
EU289191
EU289202
AY835444
AY835450
JQ352781
AY835440
EU289201
AY835443
EU289187
EU289188
EU289192
EU289194
EU289198
EU289199
EU575170
EU575786
EU575870
EU576296
AY835438
AY835439
AY835452
EU289193
FJ817366
Q259.d2.17
Q769.d22
Q842.d12
191084.B7-19
191955_A11
9004SS_A3_4
21020_13
R18553_E1
MS208_A1
398_F1_F6_20
1012_11_TC21_3257
1056_10_TA11_1826
TRO_11
SC422661_8
SC05_8C11_2344
AC10.0.29
RHPA4259_7
THRO4156_18
REJO4541_67
WITO4160_33
1006_11_C3_1601
1054_07_TC4_1499
62357_14_D3_4589
6240_08_TA5_4622
6244_13_B5_4576
WEAU_d15_410_5017
PVO_4
TRJO4551_58
402288_c01
QH0515_1
SC45_4B5_2631
BG1168_1
1058_11_B11_1550
1059_09_A4_1460
63358_04_P3_4013
700010058_A4_4375
PRB931_06_TC3_4930
PRB958_06_TB1_4305
1051_12_TD12_3291
9014_01_TB1_4769
9020_20_A13_4607
BORI_d9_4D7_1410
6535_3
QH0692_42
CAAN5342.A2
700010040_C9_4520
X2278_C2_B6
5
Y
Y
Y
Y
Y
Y
N
N
Y
N
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
Y
N
N
N
N
N
N
N
N
N
N
N
N
N
N
Y
Y
Y
N
N
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
B
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
I
I
L
L
L
L
L
L
L
L
L
L
L
NA
NA
NA
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
E
I
I
I
I
I
I
I
I
US
US
PE
PE
PE
PE
PE
PE
PE
PE
CN
CN
CN
TH
TH
TT
IN
IN
IN
IN
IN
IN
ZA
ZA
ZA
ZM
MW
MW
MW
MW
MW
MW
MW
MW
MW
MW
MW
MW
TZ
TZ
ZA
ZA
ZA
ZA
ZM
ZM
IN
IN
ZM
ZM
IN
ZA
ZA
ZA
AY835434
AY835437
EF210726
EF210732
EF210727
EF210728
EF210735
EF210729
EF210730
EF210733
HM215398
HM215423
HM215428
HM215431
HM215435
EU577190
EF117272
EF117273
EF117266
EF117268
EF117270
EF117274
DQ411852
DQ435682
DQ435683
DQ388514
FJ443999
FJ444017
FJ444215
FJ444325
FJ444395
FJ444421
FJ444437
FJ444529
FJ444561
FJ444600
FJ444612
HM215360
HM215294
HM215307
FJ443670
FJ443744
FJ444059
FJ444103
FJ496194
FJ496204
EF117265
EF117271
AY424138
DQ388515
EF117269
DQ411850
DQ411851
DQ411853
6101_10
7165_18
H029_12
H086_8
H030_7
H031_7
H080_23
H035_18
H061_14
H078_14
CNE11
CNE6
CNE9
NKR_0512_8
RPW_0510_2
TT29P_3A1_2769
HIV-25711-2.4
HIV-25925-2.22
HIV-001428-2.42
HIV-16055-2.3
HIV-16936-2.21
HIV-26191-2.48
Du156.12
CAP45.2.00.G3
CAP210.2.00.E8
ZM249M_PL1
7030102001E5(Rev-)
Ce703010228_1C4
Ce0393_C3
Ce0682_E4
Ce1086_B2
Ce1172_H1
Ce1176_A3
1394C9G1(Rev-)
Ce2010_F5
Ce2060_G9
Ce2103_E8
BF1266.431a
3301.v1.c24
3728.v2.c6
Ce704010083_B8
Ce704010042_2E5
7060101641A7(Rev-)
Ce704809221_1B3
246F_C1G
ZM247v1(Rev-)
HIV-00836-2.5
HIV-25710-2.43
ZM109F_PB4
ZM197M_PB7
HIV-16845-2.22
Du123.6
Du151.2
Du172.17
6
N
N
N
N
N
N
N
N
N
N
N
N
N
N
N
N
N
N
Y
Y
N
N
Y
Y
Y
Y
Y
N
Y
Y
Y
Y
Y
Y
Y
Y
N
N
Y
N
N
N
N
Y
Y
Y
N
N
Y
Y
Y
N
N
Y
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
C
D
D
D
D
D
G
G
G
G
G
G
G
G
01
01
01
01
01
01
01
01
01
01
01
01
I
I
I
I
I
I
I
I
I
I
I
I
I
I
I
I
I
I
L
L
L
L
L
L
L
NA
NA
NA
NA
E
E
E
E
NA
I
L
L
L
L
L
NA
NA
E
E
E
E
E
E
E
E
L
L
L
L
ZA
ZM
ZM
ZM
ZM
MW
MW
TZ
TZ
TZ
TZ
TZ
TZ
TZ
TZ
TZ
TZ
ZA
BR
CN
CN
CN
CN
CN
ZA
MW
MW
TH
TZ
TZ
UG
UG
UG
UG
ES
CM
ES
ES
ES
GH
ES
ES
CN
CN
CN
CN
CN
TH
TH
TH
CN
CN
CN
CN
DQ411854
AY423984
AY424079
DQ388516
DQ388517
FJ443575
FJ443808
HM215278
HM215289
HM215305
HM215314
HM215316
HM215318
HM215320
HM215328
HM215338
HM215354
FJ444047
U15121
HM215403
HM215408
HM215411
HM215412
HM215416
HM215437
HM215361
HM215362
HM215433
HM215319
HM215283
HM215269
HM215270
JQ361079
HM215357
EU885763
EU513190
EU885762
EU885765
FJ817370
EU885764
EU885761
FJ817369
HM215372
HM215373
HM215377
HM215386
HM215389
JN944655
JN944659
JN944656
HM215409
HM215415
HM215418
HM215427
Du422.1
ZM53M_PB12
ZM135M_PL10a
ZM214M_PL15
ZM233M_PB6
Ce703010217_B6
Ce703010054_2A2
234_F1_16_57
3168.v4.c10
3637.v5.c3
410_F2_1_30
541_F1_A7_2
569_F1_37_10
6040.v4.c15
6471.v1.c16
6785.v5.c14
98_F4_H5_13
Ce706010018_2E3
92BR025_9
CNE17
CNE23
CNE30
CNE31
CNE52
TV1_21
BF1677F2_613a
BF942_218d
PWJ_0513_39
6022_v7_c24
3016.v5.c45
191727_F6
191821_E6_1
231965.c01
A07412M1.vrc12
X1854_c2_10
252_7
X1254_c3
X2160_c25
X1632_S2_B10
X2088.c9
X1193.c1
P1981_C5_3
BJOX009000.02.4
BJOX010000.06.2
BJOX015000.11.5
BJOX025000.01.1
BJOX028000.10.3
427299.c12
816763.c02
620345.c01
CNE28
CNE5
CNE55
CNE8
7
Y
Y
Y
Y
Y
N
Y
N
N
N
N
N
N
N
N
N
N
N
N
Y
N
Y
N
Y
N
N
N
N
N
Y
N
Y
Y
Y
N
N
Y
N
Y
Y
Y
Y
Y
Y
Y
Y
Y
N
N
Y
N
Y
N
Y
01
01
01
01
01
01
01
01
01
02
02
02
02
02
02
02
02
02
02
02
02
02
02
02
02
06
07
07
07
07
07
07
07
07
07
07
07
07
07
07
14
AC
AC
AC
AC
AC
AC
AD
AD
AD
AD
AD
ACD
BC
L
L
L
L
L
L
NA
NA
NA
L
L
L
L
L
L
L
L
L
L
L
L
L
L
L
NA
L
E
E
L
L
L
L
L
L
L
L
L
L
L
L
L
E
E
I
I
I
NA
E
I
I
I
NA
I
L
TH
TH
TH
TH
TH
TH
TH
TH
TH
CM
CM
CM
CM
CM
CM
CM
CM
CM
CM
CM
SN
SN
SN
SN
CM
SN
CN
CN
CN
CN
CN
CN
CN
CN
CN
CN
CN
CN
CN
CN
PT
KE
TZ
TZ
TZ
TZ
TZ
UG
TZ
UG
UG
KE
TZ
CN
AF259954
JN944660
JN944661
JN944665
JQ352782
JQ352783
HM215429
HM215432
HM215436
EU513188
EU513182
EU513183
EU513184
EU513187
EU513189
EU513193
EU513194
EU513195
EU513196
EU513198
HM215264
HM215281
HM215290
HM215293
EU513185
HM215265
HM215364
HM215380
EF117258
EF117259
EF117261
EF117262
EF042692
EF117255
EF117260
EF117263
EF117264
HM215405
HM215406
HM215407
EU885766
HM215276
HM215321
HM215279
HM215288
HM215315
HM215332
HM215273
HM215301
HM215274
HM215280
AF407156
HM215260
HM215401
C3347.c11
C1080.c03
C2101.c01
R2184.c04
C4118.c09
R1166.c01
KSS_0514_13
PSR_0508_2
SPK_0525_13
242_14
263-8
T280_5
T255_34
211_9
T250_4
T266_60
269_12
235_47
T251_18
T278_50
1105_p17_1
2705_p18_1
3169_p4
3273_p21_1
T257_31
1656_p21
BJOX002000.03.2
BJOX019000.02.1
CH111_8
CH181_12
CH119_10
CH117_4
CH038_12
CH070_1
CH120_6
CH115_12
CH114_8
CNE19
CNE20
CNE21
X2252.c7
21023_B4
6041.v3.c23
246_F3_C10_2
3103.v3.c10
477_F3_13_55
6545.v4.c1
192018_B1_9
3468.v1.c12
193003_B10
270015_J5_1
Q461.e2
0815.v3.c3
CNE15
8
Y
Y
Y
Y
Y
Y
N
N
N
N
Y
N
Y
Y
Y
N
N
Y
Y
Y
N
N
N
N
Y
N
N
N
N
N
N
N
N
N
N
N
N
Y
Y
Y
N
N
Y
N
Y
N
Y
N
N
N
N
Y
Y
N
BC
L
CN
HM215402
CNE16
N
BC
L
CN
HM215404
CNE18
N
BC
L
CN
HM215425
CNE67
N
BG
NA
CH
EU885760
X1100.c7
N
CD
I
TZ
HM215296
3326.v4.c3
N
CD
I
TZ
HM215313
401_F1_8_10
N
CD
NA
TZ
HM215310
3817.v2.c59
Y
CD
NA
TZ
HM215329
6480.v4.c25
Y
CD
NA
TZ
HM215340
6811.v7.c18
Y
CD
NA
TZ
HM215343
6952.v1.c20
Y
_______________________________________________________________________________________________________________________
1Infection stage of sample from which virus was isolated, where known: E (early) Fiebig I-IV; I (intermediate)
Fiebig V-VI; L (late) Fiebig VI – Chronic. NA, not known.
2
Country of origin indicated using the ISO standard 2-letter designations : KE, Kenya; UG, Uganda; RW, Rwanda;
TZ, Tanzania; USA, United States of America; IT, Italy; TT, Trinidad/Tobago; TH, Thailand; ES, Spain; PE, Peru;
CN, China; IN, India; ZA, South Africa; ZM, Zambia; MW, Malawi; BR, Brazil; CM, Cheng Mai; GH, Ghana; SN,
Senegal; PT, Portugal; CH, Switzerland.
Supplementary Table 3. Additional tier 2 Env-pseudotyped viruses assayed with bnAbs.
______________________________________________________________________________________________________________________________
Clade
Stage1
Country2
Accession
Name
______________________________________________________________________________________________________________________________
A
L
TZ
HM215256
0260.v5.c36
A
L
TZ
HM215257
0330.v4.c3
A
L
TZ
HM215298
3365.v2.c20
A
L
TZ
HM215299
3415.v1.c1
A
L
KE
AF004885
Q23.17
C
E
ZM
EU166866
249M_B10
C
E
IN
EF117267
HIV-0013095-2.11
D
E
UG
HM215356
231966.c02
G
L
PT
EU885759
P0402_c2_11
G
NA
ES
FJ817368
X2131_C1_B5
CRF01
E
TH
JN944658
703357.c02
CRF01
L
TH
AF009393
R3265.c06
CRF02
NA
CI
EU513199
928-28
BC
L
CN
HM215417
CNE53
BC
L
CN
HM215421
CNE58
CD
E
TZ
HM215349
89-F1_2_25
___________________________________________________________________________________________________________________________
Infection stage of sample from which virus was isolated, where known: E (early) Fiebig I-IV; L (late) Fiebig VI –
Chronic.
1
2
Country of origin: KE, Kenya; UG, Uganda; TZ, Tanzania; IT, Italy; TH, Thailand; ES, Spain; CN, China; IN,
India; ZM, Zambia; PT, Portugal; CI, Cote d’Ivoire.
9