Identification of Interactions between Sindbis Virus Capsid Protein and Cytoplasmic vRNA as Novel Virulence Determinants
A) Magnified regions of the viral genomic RNA with special emphasis on the individual C:R interaction sites prioritized during this study. Plotted on the left y-axis are the Z-scores previously reported in Fig 1. The right y-axis indicates the prevalence of single nucleotide polymorphisms (SNPS) across a curated set of SINV genomic RNAs; higher values indicate increased base identity variation at a particular nucleotide but are not informative as to relative base conservation. Nucleotide position is reported on the x-axis. B) The individual nucleotide sequences of the C:R interaction sites are described in regards to parental sequence (top) and mutant sequence (bottom). The mutated nucleotides are highlighted in red. C) Quantitative analysis of the individual C:R interaction sites following mutation indicates that Capsid:RNA binding is significantly reduced relative to parental virus. Data shown is the mean of three independent biological replicates, with the error bar representing the standard deviation of the mean.