Proposed Orthohepevirus A subtype reference sequences
Reference sequences for subtypes of Orthohepvirus A have been proposed in Smith, D.B., Izopet J., Nicot F., Simmonds P., Jameel S., Meng X-J., Norder H., Okamoto H., van der Poel W.H.M., Reuter G. and Purdy M.A. (2020, J. Gen. Virol, 101:692-698) which includes the following table. This is an update of the propsals of Smith, D. B., Simmonds, P., Izopet, J., Oliveira-Filho, E. F., Ulrich, R. G., Johne, R., Koenig, M., Jameel, S., Harrison, T. J., Meng X-J., Okamoto H., van der Poel W.H.M. and Purdy M.A. (2016). Proposed reference sequences for Hepatitis E virus subtypes. J Gen Virol. 97: 537-542
Sequence alignment of these reference sequences available at the bottom of this page and here.
Reference complete genome sequences for HEV subtypes (bold - additions since 2016)
UPDATE - March 2021
MF959764 is now subtype 3n, together with LR777863-66
Pierini, I, Di Bartolo, I, Manuali, E, et al. Hepatitis E virus (HEV) genotype 3 diversity: Identification of a novel HEV subtype in wild boar in Central Italy. Transbound Emerg Dis. 2020; 00: 1– 9. https://doi.org/10.1111/tbed.13860
|
Genotype |
Subtype |
Accession |
Strain |
Geographical origin# |
Host# |
Comments |
|
|
|
|
|
|
|
|
|
1 |
1a |
M73218 |
Burma |
India, Pakistan, UK, Myanmar |
human |
|
|
|
1b |
L08816 |
Xinjiang |
China, Pakistan |
human |
Replaces the recombinant D11092 |
|
|
1c |
X98292 |
I1 |
India |
human |
|
|
|
1d |
AY230202 |
Morocco |
Morocco |
human |
|
|
|
1e |
AY204877 |
T3 |
Chad |
human |
|
|
|
1f |
JF443721 |
IND-HEV- AVH5-2010 |
Bangladesh, India, UK |
human |
|
|
|
1g |
LC225387 |
MNE15-072 |
India, Mongolia, Pakistan Japan, UK, France |
human |
|
|
|
1 |
FJ457024 |
HEV-H |
India |
human |
|
|
|
1 |
MH918640 |
NG/17-0503 |
Nigeria |
human |
|
|
2 |
2a |
KX578717 |
Mex-14 |
Mexico |
human |
Reference sequence replaces M74506 |
|
|
2b |
(MH809516) |
(NG/17-0500) |
Nigeria |
human |
(Provisional assignment) |
|
3 |
3a |
AF082843 |
Meng |
Japan, USA, South Korea, UK, Germany, Canada, Singapore, China, Mexico, Thailand |
human, pig, mongoose |
|
|
|
3b |
AP003430 |
JRA1 |
Japan, China, Canada |
human, pig, wild boar, deer, mongoose |
|
|
|
3c |
FJ705359 |
wbGER27 |
France, Germany, Netherlands, Sweden, UK, Thailand, Canada |
human, wild boar |
|
|
|
3d |
|
|
|
|
AF296165-7 (ORF2) |
|
|
3e |
AB248521 |
swJ8-5 |
France, Germany, Hungary, Italy, UK, Japan |
human, pig, wild boar, Maccaca sp. monkey* |
|
|
|
3f |
AB369687 |
E116-YKH98C |
France, Germany, UK, Sweden, Denmark, Spain, Thailand, Japan, Singapore |
human, pig, wild boar |
Includes the previously unclassified sequences EU723513, EU360977 and KJ873911 |
|
|
3g |
AF455784 |
Osh 205 |
Kyrgyzstan |
pig* |
|
|
|
3h |
JQ013794 |
TR19 |
France, Switzerland, Mongolia |
human, pig |
|
|
|
3i |
FJ998008 |
BB02 |
Sweden, Germany |
human, wild boar |
|
|
|
3j |
AY115488 |
Arkell |
Canada |
pig |
From pooled material |
|
|
3k |
AB369689 |
E088-STM04C |
Japan |
human, pig |
|
|
|
3l |
JQ953664 |
FR-SHEV3c-like |
Italy, France |
pig, human |
|
|
|
3m |
KU513561 |
IC2011 |
France, Spain |
human |
|
|
|
3n |
MF959764 |
WB/HEV/NA17ITA15 |
Italy |
wild boar |
|
|
|
3 |
AB290313 |
swMN06-C1056 |
Mongolia |
pig |
|
|
|
3 |
MF959765 |
WB/HEV/ NA21ITA15 |
Italy |
wild boar |
|
|
|
3 |
LC260517 |
swHE1606845 |
Japan |
pig |
|
|
|
3 |
MK390971 |
17RS1920 |
Italy |
wild boar |
|
|
|
3 |
KP294371 |
MWP_2010 |
Germany |
wild boar |
|
|
|
3ra |
FJ906895 |
GDC9 |
France, Germany, China, South Korea, USA |
rabbit, hare, human |
Considerable within-clade diversity |
|
4 |
4a |
AB197673 |
JKO-ChiSai98C |
China, Mongolia, Taiwan, South Korea |
pig, human |
|
|
|
4b |
DQ279091 |
swDQ |
Taiwan, China, Cambodia, Japan |
pig, human, Rhesus monkey |
Three lineages within this subtype |
|
|
4c |
AB074915 |
JAK-Sai |
Japan |
human, pig |
Three lineages within this subtype |
|
|
4d |
AJ272108 |
T1 |
China |
pig, human |
|
|
|
4e |
AY723745 |
IND-SW-00-01 |
India |
pig |
|
|
|
4f |
AB220974 |
HE-JA2 |
Japan |
human |
|
|
|
4g |
AB108537 |
CCC220 |
Japan, China |
human |
|
|
|
4h |
GU119961 |
CHN-XJ-SW13 |
China |
human, pig, cow, goat, yak |
|
|
|
4i |
AB369690 |
E067-SIJ05C |
China, Japan |
pig, wild boar human |
Replaces the recombinant DQ450072 |
|
|
4 |
AB369688 |
E087-SAP04C |
Japan* |
human |
|
|
|
4 |
MK410048 |
SWU/42-5/2018 |
China |
pig |
|
|
5 |
5a |
AB573435 |
JBOAR135-Shiz09 |
Japan |
wild boar |
|
|
6 |
6a |
AB602441 |
wbJOY_06 |
Japan |
wild boar |
|
|
|
6 |
AB856243 |
wbJNN_13 |
Japan |
wild boar |
|
|
7 |
7a |
KJ496143 |
178C |
UAE |
camel |
Dromedary camel |
|
|
7 |
KJ496144 |
180C |
UAE |
camel, human |
Dromedary camel |
|
8 |
8a |
KX387865 |
12XJ |
China |
camel |
Bactrian camel |
|
|
8 |
MH410174 |
BcHEV-GP
|
China |
camel |
Bactrian camel |
# Information for strains for which a complete coding region sequence is available
* Geographical origin or host uncertain
Unassigned subtypes are denoted by genotype without a subtype designation.