Research Article

Soft Topographic Maps for Clustering and Classifying Bacteria Using Housekeeping Genes

Table 1

Actual taxonomy of the bacteria dataset. We focused on Gammaproteobacteria class, which is divided into 14 orders. Each order has one or more families. Inside each family, we considered only the type strains, that is, sample species.

GammaproteobacteriaOrder nameNumber of familiesNumber of type strainsCode numbers

TAB.001Chromatiales3 families25 type strains1–25
TAB.002 Acidithiobacillales2 families2 type strains26,27
TAB.003 Xanthomonodales1 family11 type strains28–38
TAB.004Cardiobacteriales1 family3 type strains39, 40, 41
TAB.005Thiotrichales3 families11 type strains42–52
TAB.006Legionellales2 families2 type strains53, 54
TAB.007Methylococcales1 families7 type strains55–61
TAB.008Oceanospirillales4 families11 type strains62–72
TAB.009Pseudomonadales2 families7 type strains73–79
TAB.0010Alteromonadales1 family13 type strains80–92
TAB.0011Vibrionales1 family3 type strains93, 94, 95
TAB.0012Aeromonadales2 families7 type strains96–102
TAB.0013Enterobacteriales1 family39 type strains103–141
TAB.0014Pasteurellales1 families6 type strains142–147

14 orders25 families147 type strains