Nucleotide sequences encoding part of the VP1 capsid protein of FMDVs derived from infected cattle in phase I and phase II of the study. Nucleotide sequences.

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Nucleotide sequences encoding part of the VP1 capsid protein of FMDVs derived from infected cattle in phase I and phase II of the study. Nucleotide sequences encoding part of the VP1 capsid protein of FMDVs derived from infected cattle in phase I and phase II of the study. Partial VP1 coding sequence obtained from nasal swab samples collected during the clinical phase of FMD from cattle of experimental phases I (animal identifiers [IDs] 01 to 09) at 3 or 4 dpi and phase II (animal IDs 10 to 17) at 6 or 7 dpi. The top row (*A24CruzIn for A24 Cruzeiro given INP) represents the consensus sequence of the inoculum used to infect cattle in phase I. The middle row (**A24CruzP1) is the consensus sequence of the pooled OPF inoculum (as determined after a single passage in cell culture; see text) that was used to infect cattle in phase II. Nucleotide changes and the corresponding amino acid substitutions are marked using the same color code. The variations in coding sequence suggest that the inoculums used for both phase I and II consisted of heterogeneous viral populations. Additionally, the sequences obtained from phase II animals suggest that infection of this group of animals was seeded by at least two different virus populations, as the samples from animals 10 and 13 are distinct from the remaining samples at amino acid residues 133 and 147 of VP1. Y = mixture of C and T (pyrimidines). AA seq, amino acid sequence; AA res., amino acid residue. Jonathan Arzt et al. mSphere 2018; doi:10.1128/mSphere.00365-18