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Table 1 List of the 49 FMD viruses analysed in this study

From: Characterisation of recent foot-and-mouth disease viruses from African buffalo (Syncerus caffer) and cattle in Kenya is consistent with independent virus populations

*Serial no. **Sample reference no. Date of collection Host species District of origin Province Serotype on Ag ELISA Ct value on RT-qPCR Serotype on VP1 sequencing Accession no.
1 Ken/TSE1/2012 31/07/2012 Buffalo Taita Coast SAT 1 17.19a SAT 1 KP263443
2 K159/2012 19/12/2012 Cattle Meru Eastern SAT 1 24.1b SAT 1 KP263444
3 K127/2011 01/12/2011 Cattle Taita-Taveta Coast SAT 1 9.96 SAT 1 KP263445
4 K56/2010 24/03/2010 Cattle Laikipia Rift Valley SAT 1 24.48 SAT 1 KP263446
5 KenMMB37/2012 25/02/2012 Buffalo Narok Rift Valley SAT 2 25.12 SAT 2 KP263447
6 K146/2012 31/10/2012 Cattle Nakuru North Rift Valley SAT 2 14.66 SAT 2 KP263448
7 K125/2012 05/09/2012 Cattle Kisii Nyanza SAT 2 14.6 SAT 2 KP263449
8 K126/2012 09/10/2012 Cattle Nakuru Rift Valley SAT 2 15.64 SAT 2 KP263450
9 K53/2012 25/05/2012 Cattle Kericho Rift Valley SAT 2 17.79 SAT 2 KP263451
10 K26/2012 21/02/2012 Cattle Narok South Rift Valley SAT 2 10.44 SAT 2 KP263452
11 K28/2012 25/02/2012 Cattle Nyandarua Central SAT 2 13.57 SAT 2 KP263453
12 K10/2012 20/01/2012 Cattle Bomet Rift Valley SAT 2 23.11 SAT 2 KP263454
13 K46/2012 27/04/2012 Cattle Nakuru North Rift Valley SAT 2 15.7 SAT 2 KP263455
14 K128/2011 01/12/2011 Cattle Nyandarua Central SAT 2 19.37 SAT 2 KP263456
15 K30/2012 28/02/2012 Cattle Subukia Rift Valley SAT 2 14.03 SAT 2 KP263457
16 K138/2012 05/10/2012 Cattle Gilgil Rift Valley A 11.31 A KJ440872
17 K143/2012 19/10/2012 Cattle Naivasha Rift Valley A 24.13 A KJ440873
18 K148/2012 13/11/2012 Cattle Nakuru North Rift Valley A 19.29 A KJ440874
19 K154/2012 03/12/2012 Cattle Koibatek Rift Valley A 23.5 A KJ440875
20 K3/2013 09/01/2013 Cattle Thika East Central A 22.56 A KJ440876
21 K63/2009 31/03/2009 Cattle Narok South Rift Valley A 25.75 A KJ440871
22 K73/2008 23/08/2008 Cattle Loitokitok Rift Valley A 23.17 A KJ440870
23 K33/2010 01/12/2010 Cattle Ijara North Eastern O 25.75 O KP765607
24 K10/2009 26/01/2009 Cattle Machakos Eastern A 28.65 N/A N/A
25 K14/2013 28/01/2013 Cattle Sotik Rift Valley A No Ct N/A N/A
26 K140/2012 12/10/2012 Cattle Koibatek Rift Valley A 30.12 N/A N/A
27 K144/2012 25/10/2012 Cattle Sotik Rift Valley A 29.44 N/A N/A
28 K151/2012 26/11/2012 Cattle Subukia Rift Valley A 26.69 N/A N/A
29 K152/2010 07/12/2010 Cattle Transmara Rift Valley A 25.4 N/A N/A
30 K160/2012 28/12/2012 Cattle Rongai Rift Valley A 27.41 N/A N/A
31 K18/2013 31/01/2013 Cattle Rongai Rift Valley A 16.74 N/A N/A
32 K2/2013 09/01/2013 Cattle Mogotio Rift Valley A 16.43 N/A N/A
33 K5/2013 10/01/2013 Cattle Murang’a Central A 18.38 N/A N/A
34 K64/2010 04/06/2010 Cattle Narok Rift Valley A 36.78 N/A N/A
35 K7/2013 16/01/2013 Cattle Nakuru Rift Valley A 27.58 N/A N/A
36 K88/2010 14/05/2010 Cattle Githunguri Central A 31.86 N/A N/A
37 K43/2011 19/03/2011 Cattle Suba Nyanza SAT 1 29.12 N/A N/A
38 K78/2011 26/08/2011 Cattle Lamu West Coast SAT 1 28.21 N/A N/A
39 K8/2011 01/07/2011 Cattle Nyeri South Central SAT 1 23.64 N/A N/A
40 K84/2012 07/03/2012 Cattle Kathonzweni Eastern SAT 1 13.77 N/A N/A
41 K113/2012 09/08/2012 Cattle Mathioya Central SAT 2 25.69 N/A N/A
42 K122/2011 23/11/2011 Cattle Njoro Rift Valley SAT 2 25.65 N/A N/A
43 K127/2012 12/09/2012 Cattle Kisumu East Nyanza SAT 2 24.62 N/A N/A
44 K33/2012 01/03/2012 Cattle Njoro Rift Valley SAT 2 24.06 N/A N/A
45 K39/2012 16/03/2012 Cattle Kenyanya Nyanza SAT 2 28.08 N/A N/A
46 K54/2012 31/05/2012 Cattle Mashuru Rift Valley SAT 2 21.16 N/A N/A
47 K55/2012 04/06/2012 Cattle Koibatek Rift Valley SAT 2 28.86 N/A N/A
48 K78/2012 28/06/2012 Cattle Naivasha Rift Valley SAT 2 22.07 N/A N/A
49 K98/2012 22/07/2012 Cattle Nyandarua West Central SAT 2 9.9 N/A N/A
  1. *No. 1-15 correspond to the numbers in Figure 1 showing the geographic origin of the 15 SAT 1 and SAT 2 cattle and buffalo FMD viruses sequenced and compared in this study, while No. 1-23 indicate all the 23 FMD viruses that were successfully sequenced in the entire study.
  2. N/A - Not applicable since the sequence was not determined.
  3. **Sample reference number: the letter (K) indicates the first letter of the name of the country of origin (Kenya), followed by the serial number of the isolate and the year of sampling.
  4. aCt value for buffalo samples based on 3D RT-qPCR assay.
  5. bCt value for all cattle samples based on 5’UTR RT-qPCR assay.