Figure 3From: Genetic characterization of EV71 isolates from 2004 to 2010 reveals predominance and persistent circulation of the newly proposed genotype D and recent emergence of a distinct lineage of subgenotype C2 in Hong KongRecombination analysis of the complete genome of EV71. Similarity plot (upper panel) and bootscan analysis (lower panel) were conducted with SimPlot version 3.5.1 (Kimura distance model; window size, 500 bp; step, 20 bp) on a gapless nucleotide alignment, generated with ClustalX, with the genome sequence of the EV71 “genotype D” strain V10-2234054 as the query sequence. The yellow line denotes EV71 genotype A strain BrCr, the blue line denotes EV71 genotype B strain Nagoya, the red line denotes EV71 genotype C strain 4643-TW98, and the grey line denotes CVA16 prototype strain G-10. Arrows indicate the gene regions in which potential recombination breakpoints are located.Back to article page