Fig. 3
From: xenoGI 3: using the DTLOR model to reconstruct the evolution of gene families in clades of microbes
Evolution of the acid fitness island (AFI) and its genomic environs in a clade of enteric bacteria. At the left is a phylogenetic tree including six enteric species. At the right are displayed the genomic region containing the AFI, or the syntenic region in species that lack it. The displayed region extends from the treF (green) to gor (tan) genes. The AFI is shown in blue in the four species where it occurs, with the leftmost gene being gadA and the rightmost slp. The AFI inserted before the divergence of E. albertii, indicated on the tree by a green star. Subsequently, a subset of eight genes that were part of this original island (known as the heme transport locus and highlighted in the red boxes) were deleted in the lineage leading to E. coli K12, indicated on the tree by a green dot. xenoGI correctly identified the loss (deletion) event in each of these gene families