Genomic and Virulence Investigations of a Novel Porcine Deltacoronavirus Strain Identified in South Korea

Figure 3

Phylogenetic analysis based on the full-length genome sequences of four coronavirus (CoV) genera (Alpha-CoV, Beta-CoV, Gamma-CoV, and Delta-CoV) (a) and the nucleotide sequences of the complete genomes (b) and the S genes (c) of PDCoV strains. Multiple sequence alignments were performed using ClustalX software, and phylogenetic trees were constructed from the aligned nucleotide sequences using the neighbor-joining method. Numbers at each branch are bootstrap values greater than 50% based on 1,000 replicates. The names of the strains, countries along with the dates (year) of isolation, GenBank accession numbers, and clades proposed in this study are shown. Individual clades are shaded in different colors: yellow-green (UKJ), orange (Chinese), and sky-blue (SEA). South Korean (KOR) PDCoV strains are also shaded in gray. Blue circles indicate the KNU-1607 strains; red circles indicate the GNU-2105 strains identified in this study; green circles indicate the KOR prototype strain KNU14-04. Scale bars indicate nucleotide substitutions per site.

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