Table 1 Identification of 28 potential recombination events in the spike gene of PEDVs isolated in China during 2007–2019 using RDP4 software package [61]
From: The spike glycoprotein genes of porcine epidemic diarrhea viruses isolated in China
Recombination Event serial number | Recombinant | Major parent | Minor parent | Detection methods | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
GenBank ID: Virus name/Country-Year | Geno-group | GenBank ID: Virus name/Country-Year | Geno-group | GenBank ID: Virus name/Country-Year | Geno-group | R | G | B | M | C | S | T | |
1 | MH061336.1:CH/SCGA/2017/China-2017 | GI-c | MH726406.1:GDS49/China-2017 | GII-C5 | MF375374.1:CH/JXJA/2017/China-2017 | GII-C9 |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
2 | MN486588.1:Ah2016f2/China-2016 | GI-c | KF761675.1:CH/YNKM-8/China-2013 | GII-C3 | KX839247.1:85–7-mutant1/China-2015 | GI-a |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
3 | MK673545.1:TW/Yunlin550/China-2018 | GI-c | KU558702.1:CO/P14/IC/China-2013 | GII-C1 | MH726401.1:GDS41/China-2011 | GII-C9 |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
4 | MK140813.1:CH/TP-4–3/2018/China-2018 | GI-c | MH061337.1:CH/SCZG/China-2017* | GII-C1 | KM609203.1:PEDV-1C/China-2012* | GII-C9 |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
5 | MK138516.1:V7-HB2018/China-2018 | GI-c | MK606368.1:CH-HB1-2018/China-2018 | GII-C5 | MN315264.1:AH-2018-HF1/China-2018 | GI-b |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
6 | KM609211.1:PEDV-LS/China-2014 | GII-C3 | MH726371.1:GDS21/China-2014* | GII-C5 | MH726406.1:GDS49/China-2017* | GII-C9 |  +  |  +  | − |  +  |  +  |  +  |  +  |
7 | MF346935.1:CH/JLDH/2016/China-2016 | GII-C9 | KM609209.1:PEDV-CHZ/China-2013 | GII-C1 | MH726406.1:GDS49/China-2017 | GII-C9 |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
8 | KM609204.1:PEDV-7C/China-2011 | GII-C1 | MH726374.1:GDS11/China-2014* | GII-C6 | MN486588.1:Ah2016f2/China-2016* | GI-c |  +  |  +  | − |  +  |  +  |  +  |  +  |
9 | KU380331.1:CH-SD01/China-2015 | GII-C8 | KM609209.1:PEDV-CHZ/China-2013 | GII-C1 | MK138353.1:G2/China-2016* | GII-C9 |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
10 | MH726374.1:GDS11/China-2014 | GII-C6 | KM609204.1:PEDV-7C/China-2011 | GII-C1 | MH056657.1:JSX2014/ATT/China-2018 | GII-C1 |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
11 | MK140813.1:CH/TP-4–3/China-2018 | GI-c | KM609209.1:PEDV-CHZ/China-2013 | GII-C1 | MK644601.1:G2-HE2017/China-2017* | GII-C9 |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
12 | MH726384.1:GDS06/China-2011 | GII-C8 | KM609204.1:PEDV-7C/China-2011 | GII-C1 | MH056657.1:JSX2014/ATT/China-2018 | GII-C1 |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
13 | KM609204.1:PEDV-7C/China-2011 | GII-C1 | MH726406.1:GDS49/China-2017 | GII-C9 | MH061337.1:CH/SCZG/China-2017* | GII-C1 |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
14 | KM609209.1:PEDV-CHZ/China-2013 | GII-C1 | MH726363.1:GDS20/China-2012* | GII-C1 | MN486588.1:Ah2016f2/China-2016* | GI-c | − |  +  |  +  |  +  |  +  | − |  +  |
15 | MK644601.1:G2-HE2017/China-2017 | GII-C9 | MH581489.1:CH/HBTS/2017/China-2017* | GII-C9 | MK138516.1:V7-HB2018/China-2018* | GI-c |  +  |  +  | − |  +  |  +  |  +  |  +  |
16 | MH726402.1:GDS46/China-2016 | GII-C9 | MH726406.1:GDS49/China-2017* | GII-C9 | MK409659.1:ZJ15XS0101-P120/China-2016* | GII-C1 | − |  +  | − |  +  |  +  |  +  |  +  |
17 | KM609203.1:PEDV-1C/China-2012 | GII-C1 | MH726369.1:GDS30/China-2014* | GII-C6 | MH726379.1:GDS33/China-2014* | GII-C2 |  +  |  +  |  +  |  +  |  +  |  +  |  +  |
18 | MH726366.1:GDS24/China-2012 | GII-C4 | MH726365.1:GDS25/China-2013* | GII-C2 | KM609208.1:PEDV-15F/China-2012* | GII-C3 | − | − | − |  +  |  +  |  +  |  +  |
19 | MN037494.1:WHLL/China-2017 | GII-C8 | KM609208.1:PEDV-15F/China-2012 | GII-C3 | KT021233.1:YN200/China-2014 | GII-C8 | − | − | − |  +  |  +  |  +  |  +  |
20 | KR818832.1:XY2013/China-2013 | GII-C4 | MK392335.1:LW/L/China-2010* | GII-C8 | KX812523.1:XM1-2/China-2016* | GII-C1 | − |  +  |  +  |  +  |  +  |  +  |  +  |
21 | MH581489.1:CH/HBTS/2017/China-2017 | GII-C9 | KX058033.1:CH/JX/01/P30/China-2014 | GII-C1 | MN037494.1:WHLL/China-2017 | GII-C8 | − | − | − | − | − |  +  | − |
22 | KR095279.1:CH/HNQX-3/14/China-2015 | GII-C10 | MH726401.1:GDS41/China-2011* | GII-C9 | KC196276.1:CH/ZMDZY/11/China-2011* | GII-C2 | − | − | − |  +  |  +  |  +  |  +  |
23 | KF761675.1:CH/YNKM-8/China-2013 | GII-C3 | MH726398.1:GDS37/China-2011 | GII-C9 | KX812523.1:XM1-2/China-2016 | GII-C1 | − | − | − |  +  |  +  |  +  | − |
24 | JQ023161.1:Virulent DR13/South Korea-2009 | GI-a | EF185992.1:LZC/China-2007* | GI-a | KC109141.1:JS2008-2/China-2012* | GI-b | − | − | − | − | − |  +  | − |
25 | MK644604.1:N7-GD2017/China-2017 | GII-C6 | MH726392.1:GDS44/China-2013 | GII-C8 | MK796238.1:CN/Liaoning25/2018/China-2018 | GII-C3 | − | − | − | − | − |  +  | − |
26 | MH061342.1:CH/SCZJ/2018/China-2018 | GII-C3 | MH107321.1:GDS10/China-2013* | GII-C2 | MK409659.1:ZJ15XS0101-P120/China-2016* | GII-C1 | − | − | − | − | − |  +  | − |
27 | KM609208.1:PEDV-15F/China-2012 | GII-C3 | MH061342.1:CH/SCZJ/2018/China-2018 | GII-C3 | MK409659.1:ZJ15XS0101-P120/China-2016 | GII-C1 | − | − | − | − | − |  +  | − |
28 | MK644605.1:T10-HB2018/China-2018 | GII-C9 | MH061341.1:CH/SCLS/2018/China-2018 | GII-C9 | KM609212.1:PEDV-LYG/China-2014 | GII-C1 | − | − | − | − | − |  +  |  |