Phylogenomics
We have extracted 31 phylogenetic marker genes (primarily genes involved in replication, transcription and translation) sequences (i.e. amino acid) of strain SJ98 and select rpoB gene for the comparison. We did the BLAST of rpoB gene against nr database and a total of 33 Burkholderia strains genomes have been selected for comparitive genomics.
After that, all 31 phylogenetic markers genes (amino acid sequences) from all 33 Burkholderia strains were extracted and aligned to generate a maximum-likelihood tree with 1,000 bootstrap replicates using MEGA5.1 program. Sequences from Pseudomonas putida ND6 were used as an outgroup.
| dnaG | rplE | rpoB |
| frr | rplF | rpsB |
| infC | rplK | rpsC |
| nusA | rplL | rpsE |
| pgk | rplM | rpsI |
| pyrG | rplN | rpsJ |
| rplA | rplP | rpsK |
| rplB | rplS | rpsM |
| rplC | rplT | rpsS |
| rplD | rpmA | smpB |
| tsf |