Phylogenetic analyses of trappin genes. (A) Phylogeny of trappin, SLPI, and trappin-related genes. The WAP-coding region of each gene was used for the analyses. (B) Phylogeny of trappin genes. Noncoding region of the trappin genes that was used for the analyses. The phylogenetic trees were constructed using neighbor joining (NJ), maximum parsimony (MP), and maximum likelihood (ML) methods. The NJ trees (left) with bootstrap values for both the NJ and MP methods and ML trees (right) are shown. Trappin genes with short nucleotide sequences were not included in the analyses, because inclusion of short sequences reduces the reliability of the analyses when we removed all the sites containing missing data and alignment gaps prior to the calculation (called the complete deletion in MEGA software). Bars indicate 10% replacement per site. Species- or lineage-specific trappin multigenes are shaded in gray.