Fig. 1
Fig. 2
Fig. 3
Mean evolutionary rates of the O, A, and SAT2 serotypes
| O | A | SAT2 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| From/To | A | T | C | G | A | T | C | G | A | T | C | G | |
| Mean evolutionary rates | 0.03 | 0.25 | 0.82 | 2.90 | 0.01 | 0.11 | 0.61 | 3.28 | - | 3.16 | 3.16 | 18.67 | |
Year distribution of O, A, and SAT2 serotypes of FMDV and vaccine strains in Egypt based on the data in GenBank and WRLFMD
| SAT2 | O | A | Vaccine | ||||
|---|---|---|---|---|---|---|---|
| GenBank | WRL | GenBank | WRL | GenBank | WRL | ||
| 2006 | 0 | 0 | 0 | 1 | 0 | 5 | |
| 2007 | 0 | 0 | 0 | 8 | 0 | 3 | |
| 2008 | 0 | 0 | 0 | 5 | 0 | 0 | |
| 2009 | 5 – the serotype recorded in GenBank and missing in WRL | 0 | 6 | 19 | 0 | 9 | |
| 2010 | 0 | 0 | 2 – the serotype recorded in GenBank and missing in WRL | 0 | 0 | 3 | |
| 2011 | 0 | 0 | 0 | 3 | 1 | 4 | |
| 2012 | 17 | 19 | 1 | 12 | 0 | 4 | O, A, SAT2 |
| 2013 | 2 – the serotype recorded in GenBank and missing in WRL | 0 | 1 – the serotype recorded in GenBank and missing in WRL | 0 | 2 | 10 | A |
| 2014 | 1 | 6 | 4 | 21 | 3 | 4 | O, A, SAT2 |
| O, SAT2 | |||||||
| 2015 | 0 | 0 | 0 | 6 | 3 – the serotype recorded in GenBank and missing in WRL | 0 | No vaccine |
| 2016 | 0 | 1 | 9 | 12 | 3 | 1 | O |
| O, A, SAT2 | |||||||
| 2017 | 0 | 1 | 19 | 22 | 0 | 1 | O, A |
| 2018 | 0 | 6 | 0 | 1 | 2 | 2 | O, A, SAT2 |
Maximum likelihood estimate of substitution matrix-A among O, A, and SAT2 serotypes circulating in Egypt
| O serotype | A serotype | SAT2 serotype | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| A | T/U | C | G | A | T/U | C | G | A | T/U | C | G | |
| A | - | - | - | |||||||||
| T/U | 3.47 | - | 4.69 | - | 3.16 | - | ||||||
| C | 3.47 | 18.06 | - | 4.69 | 15.62 | - | 3.16 | 18.67 | - | |||
| G | 18.06 | 3.47 | 3.47 | - | 15.62 | 4.69 | 4.69 | - | 18.67 | 3.16 | 3.16 | - |