Roadmap for the development of diagnostic tests for FMD

What are we trying to achieve and why? What is the problem we are trying to solve?

To implement NGS full genome to understand better the ecology and microenvironment of the virus.

What are the scientific and technological challenges
(knowledge gaps needing to be addressed)?

• Implement NGS full genome to understand better the ecology and microenvironment of the virus

Existing knowledge including successes and failures

Next-generation sequencing technologies that allow sequencing of not only the predominant sequence but also minority variants present within a single sample have emerged. This technology has been used to explore within host virus evolution and selection in a way not previously possible, substantially advancing knowledge of FMDV dynamics within the host. A protocol, suitable for usage in a high-throughput laboratory, has been published for whole FMDV genome consensus sequencing.