< 4th term

Phylogenetic trees

Last update on the 18th of February, 2018

Here I build a subtree based on described in the task page within chosen range of bacteria.

Chosen bacteria

Table 1. List of chosen bacteria for tree construction.
Species Accession code
Pasteurella multocida PASMU
Salmonella typhimurium SALTY
Yersinia pseudotuberculosis YERPS
Vibrio fischeri VIBFM
Ralstonia solanacearum RALSO
Neisseria meningitidis NEIMA
Bradyrhizobium diazoefficiens BRADU
Rhodobacter sphaeroides RHOS4

Bracket tree formula

Fig. 1. Bracket tree formula. 
(((PASMU, (SALTY, YERPS)), VIBFM), ((NEIMA, RALSO), (BRADU, RHOS4)));

Tree image

Fig. 2. Phylogenetic tree of sample 8 bacteria.

Tree branches

The tree contains 5 following non-trivial branches:

  1. {BRADU, RHOS4} VS {NEIMA, RALSO, VIBFM, PASMU, SALTY, YERPS}
  2. {NEIMA, RALSO} VS {BRADU, RHOS4, VIBFM, PASMU, SALTY, YERPS}
  3. {BRADU, RHOS4, NEIMA, RALSO} VS {VIBFM, PASMU, SALTY, YERPS}
  4. {BRADU, RHOS4, NEIMA, RALSO, VIBFM} VS {PASMU, SALTY, YERPS}
  5. {BRADU, RHOS4, NEIMA, RALSO, VIBFM, PASMU} VS {SALTY, YERPS}

Taxonomy

Table 1. Non-trivial branches and corresponding taxa from NCBI Taxonomy database.
No Branch Taxon
1 {BRADU, RHOS4} VS {NEIMA, RALSO, VIBFM, PASMU, SALTY, YERPS} Alphaproteobacteria
2 {NEIMA, RALSO} VS {BRADU, RHOS4, VIBFM, PASMU, SALTY, YERPS} Betaproteobacteria
3 {BRADU, RHOS4, NEIMA, RALSO} VS {VIBFM, PASMU, SALTY, YERPS} Gammaproteobacteria
5 {BRADU, RHOS4, NEIMA, RALSO, VIBFM, PASMU} VS {SALTY, YERPS} Enterobacteriales