Horizontal gene transfer in O. oeni. A. The probability of genomic regions being present due to horizontal gene transfer (HGT). A region of high probability of strain-specific HGT is indicated (black arrow). B. Maximum-likelyhood phylogeny of a horizontally-acquired transmembrane protein within the region highlighted in (A). Bacterial genera are indicated by colored shading (Oenococcus spp., blue; Lactobacillus spp., pink; Weissella spp., green; Pediococcus spp., yellow). C. Homology between O. oeni and Lactococcus spp. A representative protein for each pan_genome locus was used in homology searches against the combined predicted protein sequences from each Lactococcus spp. genome available in Genbank. Average identity values were calculated using a 10 ORF sliding window (blue line). Regions predicted to be result of HGT in which >5 adjacent ORFs displayed >90% amino acid identity between an O. oeni protein and a protein from Lactococcus spp. are also indicated (red boxes).
Borneman et al. BMC Genomics 2012 13:373 doi:10.1186/1471-2164-13-373