Foot-and-mouth disease (FMD) virus (FMDv), like other ribonucleic acid (RNA) genome viruses, has a tendency to mutate rapidly. As such, available vaccines may not confer enough cross-protection against incursion of new lineages and sublineages. This paper is a retrospective study to determine the topotypes/lineages that caused previous FMD outbreaks in 6 southern African countries and the efficacy of the current vaccines to protect cattle against them. A total of 453 bovine epithelial tissue samples from 33 FMD outbreaks that occurred in these countries from 2014 to 2018 were investigated for the presence of FMDv. The genetic diversity of the identified Southern African Type (SAT)-FMD viruses was determined by comparing sequences from outbreaks and historical prototype sequences. Of the 453 samples investigated, 176 were positive for four FMDv serotypes. Out of the 176 FMD positive cases there were 105 SAT2 samples, 32 SAT1 samples, 21 SAT3 samples, and 18 serotype O samples. Phylogenetic analysis grouped the SATs VP1 gene sequences into previously observed topotypes in southern Africa. SAT1 viruses were from topotypes I and III, SAT2 viruses belonged to topotypes I, II, III, and IV, and SAT3 viruses were of topotypes I and II. Vaccine matching studies on the field FMDv isolates produced r1-values greater than or equal to 0.3 for the three SAT serotypes. This suggests that there is no significant antigenic difference between current SAT FMD vaccine strains and the circulating SAT serotypes. Therefore, the vaccines are still fit-purpose for the control FMD in the region. The study did not identify incursion of any new lineages/topotypes of FMD into the sampled southern African countries.

Virus isolation is the gold standard for foot-and-mouth disease virus (FMDV) detection in diagnostic procedures. This technique is heavily reliant on the use of sensitive cells for rapid and accurate detection of FMDV. To investigate the sensitivity of RM (primary lamb kidney cells), BHK-21 (baby hamster kidney cells) and IR-P1 (a derivative of female pig kidney cells) to infection with FMDV of the Southern African Territories (SAT) serotypes, we examined the virus concentration required to induce cytopathic effect (CPE) on each cell type. The results suggested that sensitivity of RM and IR-P1 cells was high and not significantly different (P < 0.05). BHK-21 however, exhibited low sensitivity to the strains used. Comparisons of three batches of each cell type were also done to establish the consistency of the sensitivity of these cells to FMDV infection. IR-P1 and BHK-21 cell batches gave consistent results for all samples used whereas RM cells showed significant differences (P > 0.05) between batches. TCID 50/ml was used to determine the viral titre required to induce CPE. IR-P1 cell line proved to have consistently higher TCID50/mL for all cell batches while RM cell batches displayed a difference in TCID50/mL values. The IR-P1 cell line was concluded to be a good cell culture system for virus isolation as it showed relatively high and reproducible sensitivity to all the FMDV strains used. The findings of this study indicate that the use of IR-P1 cell line could be considered for FMDV diagnostic work.

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