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Figure 2 | BMC Evolutionary Biology

Figure 2

From: Horizontal gene transfer of microbial cellulases into nematode genomes is associated with functional assimilation and gene turnover

Figure 2

Phylogenies of diplogastrid GHF5 cellulase proteins and the best non-diplogastrid matches. The best protein matches from the GenBank database were identified and retrieved using BLAST Explorer and a phylogram was reconstructed using the Phylogeny.fr server by the PhyML (v3.0) algorithm. Paralogous genes were omitted from the analysis. The GenInfo Identifier (gi) numbers are given after the taxon names. Numbers in black print at nodes indicate approximate Likelihood-Ratio Test (aLRT) values, numbers in blue print indicate bootstrap support values. Red arrows indicate the query taxa. (A) Phylogenetic relationships of P. pacificus cellulases Ppa-cel-1, Ppa-cel-2, and Ppa-cel-3 to 63 best-matching proteins from GenBank using 109 amino acid positions after curation by the Gblocks algorithm. The initial tree was obtained by the BIONJ algorithm, the amino acid substitution model was set to WAG. The discrete gamma model was applied with 4 categories, a gamma shape parameter of 1.119, and proportion of invariant sites of 0.030. (B) Phylogenetic relationships of the K. sudhausi cellulase EST contig to 51 best-matching proteins from GenBank using 141 amino acid positions after curation by the Gblocks algorithm. The initial tree was obtained by the BIONJ algorithm, the amino acid substitution model was set to WAG. The discrete gamma model was applied with 4 categories, a gamma shape parameter of 1.294, and proportion of invariant sites of 0.097.

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