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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, submitted) 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)

 

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

 

 

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

MF959764

WB/HEV/

NA17ITA15

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.

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