In mikeod38/ProvidenciaChemo:

knitr::opts_chunk$set(echo = TRUE)

knitr::include_graphics("Figure_ext4_v2.pdf")

Fig. S4. Phylogenetic analysis of group II decarboxylase genes in Gammaproteobacteria.\ a) Neighbor-joining unrooted tree based on sequences identified via a BLAST search using Enterococcus faecalis TyrDC and C. elegans TDC-1. Initial tree indicates 3 major groups. Representative enzymes and operon structures for each group are indicated by colored boxes.\ b) Bootstrapped maximum likelihood phylogeny using PhyML and Phylomizer pipeline. Maximum of two highly similar sequences per genus were included after each BLAST search. Genera are indicated to the right. Numbers on branch-points matching this tree out of 100 bootstrap replicates are indicated at values >60. Group representatives from (a) are indicated in corresponding colors. Providencia and C. elegans sequences discussed in this work are indicated in bold. Accession numbers and BLAST metrics are listed in Extended Data Table 1.

mikeod38/ProvidenciaChemo documentation built on April 6, 2020, 11:57 p.m.