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Table 1 Forty-five Japanese field PEDVs and two vaccine strains were used in this study

From: Molecular characterization of US-like and Asian non-S INDEL strains of porcine epidemic diarrhea virus (PEDV) that circulated in Japan during 2013–2016 and PEDVs collected from recurrent outbreaks

No

Strain

Age group

Collection time

Geographic origin

Accession No of genes

S gene

M gene

N gene

1

14JM-01

Suckling

2014/Mar

Miyazaki

KY619734

KY619830

KY619781

2

14JM-07

Post-weaning

2014/Apr

Miyazaki

KY619735

 

KY619782

3

14JM-40

Suckling

2014/Apr

Hokkaido

KY619736

 

KY619783

4

14JM-118

Suckling

2014/Mar

Miyazaki

KY619737

 

KY619784

5

14JM-119

Suckling

2014/Apr

Miyazaki

KY619738

 

KY619785

6

14JM-123

Suckling

2014/Mar

Miyazaki

KY619739

 

KY619786

7

14JM-126

Suckling

2014/Mar

Miyazaki

KY619740

 

KY619787

8

13JM-127

Suckling

2013/Dec

Miyazaki

KY619741

KY619831

KY619788

9

13JM-128

Suckling

2013/Dec

Miyazaki

KY619742

KY619832

KY619789

10

14JM-138

Suckling

2014/Mar

Miyazaki

KY619743

 

KY619790

11

14JM-139

Suckling

2014/Mar

Miyazaki

KY619744

 

KY619791

12

14JM-140

Suckling

2014/Mar

Miyazaki

KY619745

 

KY619792

13

14JM-142

Suckling

2014/Mar

Miyazaki

KY619746

 

KY619793

14

14JM-143

Suckling

2014/Feb

Miyazaki

KY619747

 

KY619794

15

14JM-144

Suckling

2014/Mar

Miyazaki

KY619748

KY619833

KY619795

16

14JM-146

Suckling

2014/Apr

Miyazaki

KY619749

 

KY619796

17

14JM-147

Suckling

2014/May

Miyazaki

KY619750

 

KY619797

18

14JM-150

Suckling

2014/Mar

Miyazaki

KY619751

 

KY619798

19

14JM-152

Suckling

2014/Mar

Miyazaki

KY619752

 

KY619799

20

14JM-157

Suckling

2014/May

Aichi

KY619753

 

KY619800

21

14JM-168 farm 1

Suckling

2014/May

Aomori

KY619754

 

KY619801

22

14JM-179 farm 2

Suckling

2014/May

Miyazaki

KY619755

 

KY619802

23

14JM-181 farm 2

Suckling

2014/May

Miyazaki

KY619756

 

KY619803

24

14JM-199 farm 3

Suckling

2014/May

Miyazaki

KY619757

 

KY619804

25

14JM-200 farm 3

Suckling

2014/May

Miyazaki

KY619758

 

KY619805

26

14JM-205

Suckling

2014/Jun

Hokkaido

KY619759

 

KY619806

27

14JM-208

Suckling

2014/Jun

Aichi

KY619760

KY619834

KY619807

28

14JM-210

Sow

2014/Jul

Aichi

KY619761

 

KY619808

29

14JM-216

Sow

2014/Jul

Aichi

KY619762

KY619835

KY619809

30

14JM-226

Suckling

2014/Jul

Kagoshima

KY619763

 

KY619810

31

14JM-236

Suckling

2014/Jul

Miyazaki

KY619764

KY619837

KY619811

32

14JM-242

Suckling

2014/May

Miyazaki

KY619765

 

KY619812

33

14JM-248

Suckling

2014/Jane

Miyazaki

KY619766

 

KY619813

34

14JM-268

Suckling

2014/May

Miyazaki

KY619767

 

KY619814

35

13JM-291

Suckling

2013/Dec

Kagoshima

KY619768

 

KY619815

36

13JM-293

Suckling

2013/Dec

Kagoshima

KY619769

 

KY619816

37

14JM-297

Suckling

2014/Apr

Aichi

KY619770

 

KY619817

38

14JM-311

Suckling

2014/Apr

Aichi

KY619771

 

KY619818

39

15JM-315

Suckling

2015/Jun

Aichi

KY619772

 

KY619819

40

16JM-319 farm 3

Suckling

2016/Feb

Miyazaki

KY619773

KY619836

KY619820

41

16JM-323 farm 3

Suckling

2016/Feb

Miyazaki

KY619774

 

KY619821

42

16JM-325 farm 2

Suckling

2016/Feb

Miyazaki

KY619775

 

KY619822

43

16JM-326 farm 2

Suckling

2016/Feb

Miyazaki

KY619776

 

KY619823

44

16JM-334 farm 1

Suckling

2016/Feb

Aomori

KY619777

KY619838

KY619824

45

16JM-339 farm 1

Suckling

2016/Feb

Aomori

KY619778

KY619839

KY619825

46

96P4C6

Nisseiken Co

2013/Dec

 

KY619779

KY619828

KY619827

47

P5-V

Kakatsuken Co

2014/Apr

 

KY619780

KY619829

KY619826

  1. - The following Japanese field strains have the same S gene sequences: 14JM-127 and 14JM-311; 14JM-01, 14JM-119, and 14JM123; 14JM-138, 14JM-142, and 14JM-150; 14JM-208 and14JM-216; 14JM-146, 14JM-147, and 14JM-199; 16JM-334 and 16JM-339; 16JM-319, 16JM-323, and 16JM-325
  2. -The following Japanese field strains have the same M gene sequences: 14JM-01, 14JM-07, 14JM-40, 14JM-118, 14JM-119, 14JM-123, 14JM-126, 14JM-138, 14JM-139, 14JM-140, 14JM-142, 14JM-143, 14JM-146, 14JM-147, 14JM-150, 14JM-152, 14JM-157, 14JM-168, 14JM-179, 14JM-181, 14JM-199, 14JM-200, 14JM-205, 14JM-210, 14JM-226, 14JM-242, 14JM-248, 14JM-268, 13JM-291, 13JM-293, 14JM-297, 14JM-311, and 15JM-315; 16JM-319, 16JM-323, 16JM-325, and 16JM-326; 13JM-127 and 13JM-128; 14JM-208 and 14JM-216; 16JM-334 and 16JM-339
  3. - The following Japanese field strains have the same N gene sequences: 13JM-127, 13JM-128, 14JM-142, 14JM-143, 14JM-157, 14JM-208, 14JM-216, 14JM-248, and 13JM-291; 14JM-01 and 14JM-119; 14JM-07, 14JM-126, and 14JM-123; 14JM-138, 14JM-150, and 14JM-226; 14JM-139, 14JM-152, and 14JM-242; 14JM-146, 14JM-147,14JM-179, 14JM181, 14JM-199, 14JM-200, 14JM-236, and 14JM-311; 14JM-268 and 13JM-293; 16JM-319 and 16JM-323; 16JM-334 and 16JM-339; 16JM-325 and 16JM-326