TABLE 1.
Viruses used in this study
| Isolate | Strain | Passage levela | Source | Stateb | Genotype, cladec | 3′ NCR statusd | GenBank no. | Reference |
|---|---|---|---|---|---|---|---|---|
| 14 FA | Angola71 | SM7 Mosq 1 | Human | ND | Angola | YF-std | AY326413 | 28 |
| OBS 7687 | Bolivia99A | C6/36#2 | Human | Santa Cruz | SAm II, clade 2 | YF-std | AY541326 | |
| OBS 8026 | Bolivia99D | C8/36#2 | Human | La Paz | SAm II, clade 1 | YF-std | AY541327 | |
| JSS | Brazil35 | Mosq1, SM8 | Human | MT | SAm I, Old Pará | YF-std | U52389 | 49 |
| BeH 111 | Brazil54 | C6/36, SM10 | Human | PA | SAm I, Old Pará | ND | AY541335 | 4 |
| BeAr 162 | Brazil56B | SM4, C6/36#1 | Haemagogus janthinomys | PA | SAm I, Old Pará | YF-std | AY541336 | 46a |
| BeAr 189 | Brazil55C | SM1 C6/36#1 | Sabethes sp. | PA | SAm I, Old Pará | YF-std | AY541337 | 4 |
| BeAn 23536 | Brazil60 | SM1 C6/36#1 | Macaco sp. | PA | SAm I, Old Pará | ND | AY541338 | 4 |
| BeAr 46299 | Brazil62A | C6/36#1 | Haemagogus sp. | PA | SAm I, Old Pará | YF-std | AY541339 | 4 |
| BeAr 44824 | Brazil62B | SM1 C6/36#1 | Haemagogus sp. | PA | SAm I, Old Pará | ND | AY541340 | 4 |
| BeAn 142028 | Brazil68A | C6/36#1 | Macaco sp. | PA | SAm I, Old Pará | YF-std | AY541341 | 4 |
| BeAr 142658 | Brazil68C | SM2, C6/36#1 | Haemagogus sp. | PA | SAm I, Old Pará | YF-std | AY541342 | 4 |
| BeAn 142027 | Brazil68D | Original | Saguinus midas | PA | SAm I, Old Pará | YF-std | AY566272 | 4 |
| BeH 171995 | Brazil69A | SM1 C6/36#1 | Human | PA | SAm I, unresolved | ND | AY541343 | 46a |
| BeH 203410 | Brazil71 | Original, C6/36#1 | Human | PA | SAm I, clade 1C | ND | AY541344 | 4 |
| BeAr 233164 | Brazil73A | Mosq 4 | H. janthinomys | GO | SAm I, clade 1A | YF-XL | AY541345 | 4 |
| BeAn 232669 | Brazil73B | Mosq 1, SM2 | Mosquito | GO | SAm I, clade 1A | YF-std | AY541346 | 4 |
| BeAr 233436 | Brazil73C | Original | Haemagogus sp. | GO | SAm I, clade 1A | ND | AY541347 | 4 |
| BeH 233393 | Brazil73D | SM1 C6/36#1 | Human | GO | SAm I, clade 1A | ND | AY541348 | 46a |
| BeAr 301129 | Brazil76A | SM1 C6/36#1 | Haemagogus sp. | PA | SAm I, unresolved | ND | AY541349 | 46a |
| BeH 301035 | Brazil76B | SM1 C6/36#1 | Human | PA | SAm I, unresolved | ND | AY541350 | 46a |
| BeH 324213 | Brazil77 | SM1 C6/36#1 | Human | PA | SAm I, unresolved | ND | AY541351 | 46a |
| BeH 350698 | Brazil78A | SM2, Mosq 1 | Human | PA | SAm I, clade 1C | ND | AY541352 | 4 |
| BeAr 350397 | Brazil78B | SM2, Mosq 1 | Haemagogus sp. | PA | SAm I, unresolved | YF-XL | AY541353 | 46a |
| BeH 340824 | Brazil78C | SM1 C6/36#1 | Human | PA | SAm I, unresolved | ND | AY541354 | 46a |
| BeH 371220 | Brazil79A | SM1 C6/36#1 | Human | PA | SAm I, unresolved | ND | AY541355 | 46a |
| BeAr 378600 | Brazil80A | SM2, C6/36#1 | Haemagogus sp. | GO | SAm I, clade 1C | ND | AY541356 | 46a |
| BeH 385780 | Brazil80B | SM1 C6/36#1 | Human | PA | SAm I, unresolved | YF-XL | AY541357 | 46a |
| BeH 379501 | Brazil80C | SM2 | Human | MA | SAm I, clade 1C | ND | AY541358 | 4 |
| BeH 394880 | Brazil81 | Original, C6/36#1 | Human | PA | SAm I, unresolved | ND | AY541359 | 46a |
| BeH 403366 | Brazil82A | SM1 C6/36#1 | Human | MA | SAm I, clade 1C | ND | AY541360 | 46a |
| BeH 405954 | Brazil82B | SM1 C6/36#1 | Human | PA | SAm I, unresolved | ND | AY541361 | 46a |
| BeH 413820 | Brazil83 | SM1 C6/36#1 | Human | RO | SAm II, clade 1 | YF-std | AY566273 | 46a |
| BeH 425381 | Brazil84A | C6/36#1 | Human | AP | SAm I, unresolved | ND | AY541362 | 4 |
| BeAn 424208 | Brazil84B | Original, C6/36#1 | Chiropotes satanas | PA | SAm I, clade 1C | ND | AY541363 | 46a |
| BeAr 424719 | Brazil84C | SM1 C6/36#1 | Haemagogus sp. | PA | SAm I, clade 1C | ND | AY541364 | 46a |
| BeAr 424083 | Brazil84D | SM1 C6/36#1 | Haemagogus albomaculatus | PA | SAm I, clade 1D | ND | AY541365 | 46a |
| BeAr 424492 | Brazil84E | SM1 C6/36#1 | H. janthinomys | PA | SAm I, clade 1A | ND | AY541366 | 46a |
| BeH 422255 | Brazil84F | SM1 C6/36#1 | Human | PA | SAm 1, clade 1B | ND | AY541367 | 46a |
| BeH 423602 | Brazil84G | SM1 C6/36#1 | Human | PA | SAm I, clade 1C | ND | AY541368 | 46a |
| BeH 422312 | Brazil84H | SM1 C6/36#1 | Human | PA | SAm 1, clade 1B | ND | AY541369 | 46a |
| BeH 436823 | Brazil85A | SM1 C6/36#1 | Human | MT | SAm I, unresolved | ND | AY541370 | 46a |
| BeAr 437159 | Brazil85B | SM1 C6/36#1 | H. janthinomys | MT | SAm I, unresolved | ND | AY541371 | 46a |
| BeH 463676 | Brazil87 | SM1 C6/36#1 | Human | PA | SAm I, clade 1C | ND | AY541372 | 46a |
| BeH 474245 | Brazil88A | SM1 C6/36#1 | Human | GO | SAm I, clade 1C | ND | AY541373 | 46a |
| BeH 474297 | Brazil88B | SM1 C6/36#1 | Human | MG | SAm I, clade 1C | ND | AY541374 | 46a |
| BeH 485717 | Brazil89 | SM1 C6/36#1 | Human | MG | SAm I, clade 1C | ND | AY541375 | 46a |
| BeAr 511437 | Brazil91A | C6/36#1 | H. janthinomys | PA | SAm I, clade 1C | ND | AY541376 | 4 |
| BeH 511843 | Brazil91B | SM1, C6/36#2 | Human | RR | SAm I, clade 1B | YF-XL | AY541377 | 4 |
| BeAn 510266 | Brazil91C | SM1 C6/36#1 | Alouatta sp. | GO | SAm I, clade 1C | YF-ΔRYF-XL | AY541378 | 46a |
| BeAr 512943 | Brazil92A | SM1 C6/36-1 Vero2 | H. janthinomys | MS | SAm 1, clade 1B | YF-XL | AY541379 | 4 |
| BeAr 513008 | Brazil92B | SM1 C6/36#1 | Sabethes sp. | MS | SAm 1, clade 1B | YF-XL | AY541380 | 4 |
| BeH 512772 | Brazil92C | SM2, C6/36#1 | Human | MS | SAm 1, clade 1B | ND | AY541381 | 4 |
| BeAr 513060 | Brazil92D | SM1 C6/36#1 | Haemagogus sp. | MS | SAm 1, clade 1B | YF-XL | AY541382 | 46a |
| BeAr 513292 | Brazil92E | SM1 C6/36-1 Vero1 | Sabethes cloropterus | MS | SAm 1, clade 1B | YF-XL | AY541383 | 4 |
| BeH 520988 | Brazil93A | SM1 C6/36#1 | Human | MA | SAm 1, clade 1B | YF-std | AY541384 | 46a |
| BeH 521244 | Brazil93B | SM1 C6/36#1 | Human | MA | SAm I, clade 1C | YF-XL | AY541385 | 46a |
| BeAr 527785 | Brazil94A | SM1 C6/36#1 | S. cloropterus | MG | SAm I, clade 1C | YF-XL | AY541386 | 4 |
| BeAr 527198 | Brazil94B | SM1 C6/36#1 | Haemagogus sp. | MG | SAm I, clade 1C | YF-XL | AY541387 | 4 |
| BeAr 527547 | Brazil94C | ?, Vero1 | Haemagogus sp. | PA | SAm I, clade 1C | ND | AY541388 | 46a |
| BeH 526722 | Brazil94D | SM2, C6/36#1 | Human | MG | SAm I, clade 1C | YF-std | AY541389 | 46a |
| BeAr 528057 | Brazil94E | Original, C6/36#1 | H. janthinomys | MG | SAm I, unresolved | ND | AY541390 | 46a |
| BeAr 527410 | Brazil94F | Original, C6/36#1 | H. janthinomys | MA | SAm I, clade 1C | ND | AY541391 | 46a |
| BeH 535010 | Brazil95 | SM2, C6/36#1 | Human | MA | SAm I, clade 1C | ND | AY541392 | 46a |
| BeAr 544276 | Brazil96A | SM1 C6/36#1 | H. janthinomys | RO | SAm 1, clade 1B | YF-XL | AY541393 | 4 |
| BeAn 604552 | Brazil98A | Original, C6/36#1 | Alouatta belzebul | PA | SAm 1, clade 1C | ND | AY541394 | 46a |
| BeAr 603401 | Brazil98B | Original, C6/36#1 | H. janthinomys | PA | SAm 1, clade 1D | ND | AY541395 | 46a |
| BeAr 605158 | Brazil98C | SM1 C6/36#1 | H. janthinomys | PA | SAm 1, clade 1D | ND | AY541396 | 46a |
| BeH 603325 | Brazil98D | Original, C6/36#1 | Human | PA | SAm 1, clade 1D | ND | AY541397 | 46a |
| BeH 605427 | Brazil98E | SM1 C6/36#1 | Human | MT | SAm 1, clade 1D | ND | AY541398 | 46a |
| BeAr 614320 | Brazil99B | SM1 C6/36#1 | Haemagogus sp. | PA | SAm 1, clade 1D | ND | AY541399 | 46a |
| BeAr 617127 | Brazil99D | SM1 C6/36#1 | H. janthinomys | TO | SAm 1, clade 1D | ND | AY541400 | 46a |
| BeH 613582 | Brazil99E | SM1 C6/36#1 | Human | PA | SAm 1, clade 1D | ND | AY541401 | 46a |
| BeAr 628124 | Brazil2000A | SM1 C6/36#1 | H. janthinomys | TO | SAm 1, clade 1D | YF-std | AY541328 | 4 |
| BeH 622491 | Brazil2000B | ?, C6/36#1 | Human | DF | SAm 1, clade 1D | ND | AY541329 | 46a |
| BeAn 625923 | Brazil2000C | Original, C6/36#1 | Alouatta sp. | GO | SAm 1, clade 1D | ND | AY541330 | 46a |
| BeH 622205 | Brazil2000D | SM1 C6/36#1 | Human | GO | SAm 1, clade 1D | ND | AY541331 | 46a |
| BeAr 630768 | Brazil2001A | ?, C6/36#1 | H. janthinomys | GO | SAm 1, clade 1D | ND | AY541332 | 46a |
| BeAr 631464 | Brazil2001B | SM1 C6/36#1 | S. cloropterus | BA | SAm 1, clade 1D | YF-XL | AY541333 | 46a |
| BeAr 645693 | Brazil2001D | SM1 C6/36#1 | Haemagogus sp. | MG | SAm 1, clade 1D | ND | AY541334 | 46a |
| Ar B 8883 | CAR77A | SM5, C6/36#1 | Mosquito | Boyo | East Central Africa | ND | U52392 | 4a |
| Ar B 9005 | CAR77B | SM5 Mosq1 | Aedes africanus | Boyo | East Central Africa | ND | U52395 | 4a |
| DAK Ar B 17239 | CAR80 | AP61#1, C6/36#1 | Aedes sp. | Bozo | East Central Africa | ND | AY541402 | |
| V528A | Colombia79 | Monkey 1 Mosq2 | Human | ND | SAm I, unresolved | ND | AY541403 | |
| INS347613 | Colombia85 | C6/36#3 | Human | ND | SAm I, unresolved | ND | AY541404 | |
| 1337 | Ecuador79 | SM1, Mosq2 | Human | ND | SAm I, unresolved | YF-std | U52399 | 4a |
| 1345 | Ecuador81 | SM1, Vero1, c6/36#2 | Human | ND | SAm I | ND | AY541405 | |
| OBD 5041 | Ecuador97 | C6/36#1 | Human | Pastaza | SAm II, clade 1 | YF-std | AY541406 | |
| Serie 227 | Ethiopia61A | Mosq1, SM7 | Human | ND | East Africa | ND | AY541407 | |
| Asibi | Ghana27 | C6/36#1 | Human | ND | West Africa II | ND | Not deposited | 37a |
| 85-82H | IvoryCoast85 | ?, C6/36#1 | Human | ND | West Africa II | ND | O54798 | 49 |
| BC 7914 | Kenya93a | SM1, c636#1 | Human | Baringo | East Africa | ND | AY541408 | |
| 69056 | Nigeria46 | ?, C6/36#2 | Human | ND | West Africa I | ND | U52403 | 29 |
| IB AR 45244 | Nigeria69 | SM4 | Mosquito | ND | West Africa I | ND | AY541409 | |
| H117505 | Nigeria87C | SM4 | Human | ND | West Africa I | ND | AY541410 | |
| 56205 | Nigeria91 | ?, C6/36#1 | Human | ND | West Africa I | ND | AY541411 | |
| 614819 | Panama74A | ?, C6/36#1 | Human | ND | SAm I | YF-XL | AY541412 | |
| 1362/77 | Peru77A | C6/36#2 | Human | Ayacucho | SAm II, clade 2 | YF-std | AY541413 | 4 |
| 1368 | Peru77B | SM1, Vero1, C6/36#2 | Human | Ayacucho | SAm II, clade 1 | ND | AY541414 | 4 |
| 1371 | Peru77C | SM1, Vero1, C6/36#2 | Human | Ayacucho | SAm II, clade 2 | ND | AY541415 | 4 |
| 287/78 | Peru78 | SM2, Mosq 2 | Human | Ayacucho | SAm II, clade 2 | ND | AY541416 | 4 |
| R 35740 | Peru79 | SM1, Mosq 2 | Human | Ayacucho | SAm II, clade 2 | ND | AY541417 | 4 |
| B4.1 | Peru81A | Plaque pick | Plaque pick | Cusco | SAm II, clade 2 | YF-std | U52411 | 4a |
| 1914 | Peru81B | MILLC 1, LLCMK2 | Sentinel mice | Cusco | SAm II, clade 2 | ND | AY541418 | 4 |
| ARV 0544 | Peru95A | SM1, Vero1, c6/36#1 | Human | S. Martin | SAm II, clade 1 | YF-std | AY541419 | 4 |
| HEB4224 | Peru95B | SM1, C6/36#1 | Human | S. Martin | SAm II, clade 1 | ND | AY541420 | 4 |
| HEB4236 (153) | Peru95C | C6/36#1 | Human | Pasco | SAm II, clade 2 | YF-std | AY541421 | 4a |
| 149 | Peru95D | SM1, C6/36#1 | Human | Pasco | SAm II, clade 2 | YF-std | AY541422 | 4a |
| cepa #2 | Peru95E | SM1, C6/36#1 | Human | Puno | SAm II, clade 2 | YF-std | AY541423 | 4 |
| Cepa#1 | Peru 95F | C6/36#2 | Human | Puno | SAm II, clade 1 | ND | AY541424 | 4 |
| OBS 2240 | Peru95G | C6/36#2 | Human | Huanuco | SAm II, clade 1 | YF-std | AY541425 | 4 |
| OBS 2250 | Peru95H | SM1, C6/36#1 | Human | Huanuco | SAm II, clade 2 | ND | AY541426 | 4 |
| HEB 4240 | Peru95I | C6/36#1, SM1 | Human | Junin | SAm II, clade 2 | ND | AY541427 | 4 |
| HEB 4245 | Peru95J | SM1, C6/36#1 | Human | Junin | SAm II, clade 2 | ND | AY541428 | 4 |
| HEB 4246 | Peru95K | SM1, C6/36#1 | Human | Junin | SAm II, clade 2 | YF-std | AY541429 | 4 |
| ARV 0548 | Peru95M | SM1, C6/36#1 | Human | S. Martin | SAm II, clade 1 | ND | AY541430 | 4 |
| OBS 6530 | Peru98A | ?, C6/36#1 | Human | Cusco | SAm II, clade 2 | ND | AY541431 | 4 |
| 03-5350-98 | Peru98B | C6/36#2 | Human | Cusco | SAm II, clade 2 | ND | AY541432 | 4 |
| OBS 6745 | Peru98C | C6/36#2 | Human | Cusco | SAm II, clade 2 | YF-std | AY541433 | 4 |
| IQT 5591 | Peru98D | C6/36#2 | Human | Loreto | SAm II, clade 1 | ND | AY541434 | 4 |
| OBS 7904 | Peru99 | Vero1, C6/36 3 | Human | S. Martin | SAm II, clade 1 | YF-std | AY541435 | 4 |
| FVV | Senegal27 | Monkey, c6/36#1 | Human | ND | West African II | ND | GI694115 | 49a |
| Dak 1279 | Senegal65C | SM7 | Human | ND | West African II | ND | U52413 | 49 |
| M 90-5 | Sudan40B | C6/36#1, SM4 | Human | ND | East Central Africa | ND | AY326414 | 28 |
| GML902621 | Trinidad54 | Monk1, C6/36#1 | Alouatta sp. | ND | SAm I, unresolved | ND | AY541436 | |
| CAREC 889920 | Trinidad88 | AP61#2, C6/36#1 | Haemagogus sp. | S.E. Trin | SAm I | YF-XL | AY541437 | |
| CAREC 890692 | Trinidad89A | ?, C6/36#1 | S. cloropterus | S.E. Trin | SAm I | YF-XL | AY541438 | |
| CAREC 891957 | Trinidad89C | AP61, C6/36#1 | Alouatta sp. | S.E. Trin | SAm I | ND | AY541439 | |
| A 709-4-A2 | Uganda48A1 | C6/36#1 | Human | ND | East Africa | ND | U52424 | |
| MR 896 | Uganda48B1 | C6/36#1 | Human | ND | East Africa | ND | U52422 | |
| Z 19039 | Uganda72 | C6/36#1, SM3 | Monkey | ND | East Central Africa | ND | AY541440 | |
| P128MC | Venezuela59 | SM3, Mosq 1 | Monkey | Cojedes | SAm 1 | ND | AY541441 | |
| PHO 42H | Venezuela61 | C6/36#2, SM2 | Human | Tachira | SAm 1 | YF-std | AY541442 | |
| 35720 | Venezuela98A | Vero#1, C6/36#1 | Human | Amazonas | SAm I | YF-XL | AY541443 | |
| 35708 | Venezuela98B | SM1, Vero1 | Human | Amazonas | SAm I | YF-XL | AY541444 | |
| STA-LSF-4-4143 | Zaire58 | SM2, Mosq 1, C6/36#1 | Human | ND | East Central Africa | ND | AY541445 |
a
Passage of seed stock virus, cell line, or animal model followed by passage number. SM, suckling mouse; Monk, monkey; Mosq. mosquito. Question mark indicates unknown passage level prior to collection catalogue.
b
AP, Amapa; BA, Bahia; DF, Federal District; GO, Goiás; MA, Maranhão; MG, Minas Gerais; MS, Mato Grosso do Sul; MT, Mato Grosso; PA, Para; RO, Rondônia; RR, Roraima; TO, Tocantins; ND, no data.
c
SAm I, South American genotype I; SAm II, South American genotype II.
d
YF-XL, viruses containing the 216-nt duplication; YF-std, viruses with prototype conformation of 3′ NCR; ND, no data, viruses for which the genome terminus has not been sequenced.