Porcine Noroviruses Related to Human Noroviruses
Figure 3. Identification of a potential recombination event between QW170 and Sw43 strains. A) Recombination Identification Program analysis of QW170 strain. At each position of the window, the query sequence (QW170) was compared to each of the background genotype representatives (GII-11/Sw43 and GII-18/QW101). When the query sequence is similar to the background sequences, the homologous regions are indicated as thick lines on the plot. Analysis parameters were window size of 100 and significance of 90%. The nucleotide positions of the 3´-end RNA-dependent RNA polymerase (RdRp) and the shell (S) and protruding (P) domains of the capsid protein are indicated. B) Sequence alignments of the RdRp-capsid junction region of noroviruses (NoVs). The genomic and subgenomic conserved 18-nucleotide (nt) motif is indicated by a horizontal line with 2 vertical bars. Asterisks indicate the identical residues to the sequence of the first line. Dashes represent gaps. The letter N indicates missing data on the residue. The start codon of open reading frame ORF 2 is underlined. Five NoV genogroups are indicated.