Table 1 - Confirmed HCV genotypes/subtypes
CONFIRMED HCV GENOTYPES/SUBTYPES (May 2019)
| Genotype1 | Locus/Isolate(s)2 | Accession number(s) | Reference(s) | |
|---|---|---|---|---|
| Genotype 1 | ||||
| 1a | HPCPLYPRE, HPCCGAA | M62321, M67463 | (Choo et al., 1991; Inchauspe et al., 1991) | |
| 1b | HPCJCG, HPCHUMR | D90208, M58335 | (Kato et al., 1990; Takamizawa et al., 1991) | |
| 1c | HPCCGS, AY051292 | D14853, AY051292 | (Okamoto et al., 1994), (Guntaka et al. unpublished 2001) | |
| 1d | QC103 | KJ439768 | (Lu et al., 2014) | |
| 1e | 148636, QC172 | KC248194, KJ439769 | (Li et al., 2013), (Lu et al., 2014) | |
| 1g | 1804, QC78 | AM910652, KJ439770 | (Bracho et al., 2008), (Lu et al., 2014) | |
| 1h | EBW443, EBW9 | KC248198, KC248199 | (Li et al., 2013) | |
| 1i | QC181 | KJ439772 | (Lu et al., 2014) | |
| 1j | QC329 | KJ439773 | (Lu et al., 2014) | |
| 1k | QC82 | KJ439774 | (Lu et al., 2014) | |
| 1l | 136142, EBW424 | KC248193, KC248197 | (Li et al., 2013) | |
| 1m | QC196, QC87 | KJ439778, KJ439782 | (Lu et al., 2014) | |
| 1n | QC113, QC74 | KJ439775, KJ439781 | (Lu et al., 2014) | |
| 1o | QC316, DE/17-0414 | KJ439779, MH885469 | (Lu et al., 2014; Wang et al., 2019) | |
| Genotype 2 | ||||
| 2a | HPCPOLP, JFH-1 | D00944, AB047639 | (Kato et al., 2001; Okamoto et al., 1991) | |
| 2b | HPCJ8G, JPUT971017 | D10988, AB030907 | (Murakami et al., 2001; Okamoto et al., 1992) | |
| 2c | BEBE1 | D50409 | (Nakao et al., 1996) | |
| 2d | QC259 | JF735114 | (Li et al., 2012) | |
| 2e | QC64 | JF735120 | (Li et al., 2012) | |
| 2f | ZS542, GZ98799 | KC844042, KC844050 | (Xu et al., 2013) | |
| 2i | D54 | DQ155561 | (Noppornpanth et al., 2006) | |
| 2j | C1799, QC232 | HM777358 JF735113 | (Sulbarán et al., 2010) (Li et al., 2012) | |
| 2k | VAT96 | AB031663 | (Samokhvalov et al., 2000) | |
| 2l | MRS89, PTR7904 | KC197235, KC197240 | (Jordier et al., 2013) | |
| 2m | QC178, BID-G1314 | JF735111, JX227967 | (Li et al., 2012; Newman et al., 2013) | |
| 2q | 963, 852 | FN666428, FN666429 | (Martró et al., 2011) | |
| 2r | QC283 | JF735115 | (Li et al., 2012) | |
| 2t | MRS40 | KC197238 | (Jordier et al., 2013) | |
| 2u | QC182 | JF735112 | (Li et al., 2012) | |
| Genotype 3 | ||||
| 3a | HPCEGS, HPCK3A | D17763, D28917 | (Sakamoto et al., 1994; Yamada et al., 1994) | |
| 3b | HPCFG | D49374 | (Chayama et al., 1994) | |
| 3d | NE274 | KJ470619 | (Li et al., 2014a) | |
| 3e | NE145 | KJ470618 | (Li et al., 2014a) | |
| 3g | BID-G1243, QC260 | JX227954, JF735123 | (Lu et al., 2013; Newman et al., 2013) | |
| 3h | QC29 | JF735121 | (Lu et al., 2013) | |
| 3i | IND-HCV, BID-G1244 | FJ407092, JX227955 | (Arankalle & Gupte 2008 unpublished) (Newman et al., 2013) | |
| 3k | HPCJK049E1, QC105 | D63821, JF735122 | (Lu et al., 2013; Tokita et al., 1996) | |
| Genotype 4 | ||||
| 4a | ED43 | Y11604 | (Chamberlain et al., 1997a) | |
| 4b | QC264 | FJ462435 | (Li et al., 2009a) | |
| 4c | QC381 | FJ462436 | (Li et al., 2009a) | |
| 4d | 03-18, QC382 | DQ418786, FJ462437 | (Timm et al., 2007) (Li et al., 2009a) | |
| 4f | IFBT88, PS6 | EF589161, EU392175 | (Hmaied et al., 2007) (Kuntzen et al., 2008) | |
| 4g | QC193 | FJ462432 | (Li et al., 2009a) | |
| 4k | PS3, QC383 | EU392173, FJ462438 | (Kuntzen et al., 2008) (Li et al., 2009a) | |
| 4l | QC274 | FJ839870 | (Li et al., 2009a) | |
| 4m | QC249 | FJ462433 | (Li et al., 2009a) | |
| 4n | QC97 | FJ462441 | (Li et al., 2009a) | |
| 4o | QC93 | FJ462440 | (Li et al., 2009a) | |
| 4p | QC139 | FJ462431 | (Li et al., 2009a) | |
| 4q | QC262 | FJ462434 | (Li et al., 2009a) | |
| 4r | QC384 | FJ462439 | (Li et al., 2009a) | |
| 4s | QC361 | JF735136 | (Lu et al., 2015) | |
| 4t | QC155 | FJ839869 | (Li et al., 2009a) | |
| 4v | CYHCV073, BID-G1248 | HQ537009, JX227959 | (Demetriou & Kostrikis, 2011) (Newman et al., 2013) | |
| 4w3 | P212, P245 | FJ025855, FJ025856 | (Koletzki et al., 2009) | |
| Genotype 5 | ||||
| 5a | EUH1480, SA134 | Y13184 ,AF064490 | (Bukh et al., 1998; Chamberlain et al., 1997b) | |
| Genotype 6 | ||||
| 6a | EUHK2, 6a33 | Y12083, AY859526 | (Tokita et al., 1998) | |
| 6b | Th580 | D84262 | (Tokita et al., 1998) | |
| 6c | Th846 | EF424629 | (Lu et al., 2007a) | |
| 6d | VN235 | D84263 | (Tokita et al., 1998) | |
| 6e | GX004 | DQ314805 | (Li et al., 2006) | |
| 6f | C-0044 | DQ835760 | (Lu et al., 2007b) | |
| 6g | HPCJK046E2 | D63822 | (Tokita et al., 1996) | |
| 6h | VN004 | D84265 | (Tokita et al., 1998) | |
| 6i | Th602 | DQ835770 | (Lu et al., 2007b) | |
| 6j | Th553 | DQ835769 | (Lu et al., 2007b) | |
| 6k | VN405 | D84264 | (Tokita et al., 1998) | |
| 6l | 537796 | EF424628 | (Lu et al., 2007a) | |
| 6m | B4/92 | DQ835767 | (Lu et al., 2007b) | |
| 6n | KM42, D86/93 | DQ278894, DQ835768 | (Lu et al., 2007b; Lu et al., 2006) | |
| 6o | QC227 | EF424627 | (Lu et al., 2007a) | |
| 6p | QC216 | EF424626 | (Lu et al., 2007a) | |
| 6q | QC99 | EF424625 | (Lu et al., 2007a) | |
| 6r | QC245 | EU408328 | (Li et al., 2009b) | |
| 6s | QC66 | EU408329 | (Li et al., 2009b) | |
| 6t | VT21, D49 | EF632071, EU246939 | (Lu et al., 2008; Noppornpanth et al., 2008) | |
| 6u | D83 | EU246940 | (Noppornpanth et al., 2008) | |
| 6v | NK46, KMN-02 | EU158186, EU798760 | (Lu et al., 2008) (Wang et al., 2009) | |
| 6w | GZ52557, D140 | DQ278892, EU643834 | (Lee et al., 2010; Lu et al., 2006) | |
| 6xa5 | DH012, DH028 | EU408330, EU408332 | (Xia et al., 2008) | |
| 6xb | TV476, VN110 | JX183552, KJ567645 | (Li et al., 2014b; Wang et al., 2013) | |
| 6xc | TV520 | KJ567651 | (Li et al., 2014b) | |
| 6xd | L23, L347 | KM252789, KM252790 | (Li et al., 2015) | |
| 6xe | DH027, KM98 | JX183557, KM252792 | (Li et al., 2015; Wang et al., 2013) | |
| 6xf | VN214, TV469 | KJ567647, KJ567646 | (Li et al., 2014b) | |
| 6xg | KS27, KS81 | MH492360, MH492361 | (Ye et al., 2019) | |
| 6xh | 1350-1 | MG879000 | (Wu et al., 2018) | |
| Genotype 7 | ||||
| 7a | QC69 | EF108306 | (Murphy et al., 2015) | |
| 7b | BAK1 | KX092342 | (Salmona et al., 2016) | |
| Genotype 8 | ||||
| 8a | GT8-1 | MH590698 | (Borgia et al., 2018) | |
An alignment of representatives of these genotypes / subtypes is available at http://hcv.lanl.gov/content/sequence/NEWALIGN/align.html
1 Consensus proposed genotype/subtype names. Where multiple sequences of a HCV genotype are available, two sequences have been listed, prioritised by (a) publication date or (b) submission date when unpublished.
2 Locus (or isolate name if locus is the same as the accession number).
3 Previously described as 4b, (Koletzki et al., 2009; Nakano et al., 2012)
4 Sequence obtained from acute phase plasma of a chimpanzee experimentally infected with (human-derived) isolate SA13.
5 Previously described as 6u (Xia et al., 2008).
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