Figure. A) Genome diagram indicating the location of structural (dark arrow) and nonstructural (shaded arrow) genes and the different regions (shaded boxes) used for phylogeny analysis. B) Phylogenetic trees based on deduced amino acid sequences of the spike protein S1 domain (a), the open reading frame (ORF)10' (b), and the N protein (c). Because of lack of the ORF10' coding region in Tor2, Tor2 could not be included for the tree in (b). GD01, human isolate from early phase of the outbreak in 2003; Tor2, human isolate from late phase of the outbreak in 2003; SZ3, civet isolate from March 2003; Rp3, bat isolate from Rhinolophus pearsoni, December 2004; Rf1, bat isolate from R. ferrumequinum, November 2004; Rm1, bat isolate from R. macrotis, November 2004; and HKU3–1, bat isolate from R. sinicus, February 2005. GenBank accession nos. appear next to isolate names.