Table 2 The panel of 50 bacterial species chosen for this study
From: CoMetGeNe: mining conserved neighborhood patterns in metabolic and genomic contexts
Species | Strain | Class | KEGG |
|---|---|---|---|
| Â | Â | Â | code |
Escherichia coli | K-12 MG1655 | γ-proteobacteria | eco |
Yersinia pestis | CO92 (biovar Orientalis) | γ-proteobacteria | ype |
Vibrio cholerae | O395 | γ-proteobacteria | vco |
Shewanella putrefaciens | CN-32 | γ-proteobacteria | spc |
Pseudomonas aeruginosa | PAO1 | γ-proteobacteria | pae |
Xylella fastidiosa | 9a5c | γ-proteobacteria | xfa |
Ralstonia solanacearum | GMI1000 | β-proteobacteria | rso |
Neisseria meningitidis | MC58 (serogroup B) | β-proteobacteria | nme |
Acidithiobacillus ferrivorans | — | Acidithiobacillia | afi |
Agrobacterium radiobacter | — | α-proteobacteria | ara |
Rickettsia rickettsii | Iowa | α-proteobacteria | rrj |
Geobacter sulfurreducens | PCA | δ-proteobacteria | gsu |
Nitrospira defluvii | — | Nitrospira | nde |
Acidobacterium capsulatum | — | Acidobacteriales | aca |
Desulfurispirillum indicum | — | Chrysiogenetes | din |
Fusobacterium nucleatum | subsp. nucleatum ATCC 25586 | Fusobacteriia | fnu |
Denitrovibrio acetiphilus | — | Deferribacteres | dap |
Thermodesulfatator indicus | — | Thermodesulfobacteria | tid |
Aquifex aeolicus | — | Aquificae | aae |
Bacillus subtilis | subsp. subtilis 168 | Bacilli | bsu |
Listeria monocytogenes | EGD-e | Bacilli | lmo |
Staphylococcus aureus | subsp. aureus N315 (MRSA/VSSA) | Bacilli | sau |
Lactobacillus acidophilus | NCFM | Bacilli | lac |
Streptococcus pneumoniae | ST556 | Bacilli | snd |
Clostridium perfringens | 13 | Clostridia | cpe |
Mycoplasma pneumoniae | M129 | Mollicutes | mpn |
Synechocystis sp. | PCC 6803 | Cyanobacteria (phylum) | syn |
Prochlorococcus marinus | subsp. marinus CCMP1375 | Cyanobacteria (phylum) | pma |
Chloroflexus aurantiacus | — | Chloroflexia | cau |
Bifidobacterium breve | ACS-071-V-Sch8b | Actinobacteria | bbv |
Corynebacterium glutamicum | ATCC 13032 (Kyowa Hakko) | Actinobacteria | cgl |
Mycobacterium tuberculosis | H37Rv | Actinobacteria | mtv |
Streptomyces coelicolor | — | Actinobacteria | sco |
Deinococcus radiodurans | — | Deinococci | dra |
Thermus thermophilus | HB27 | Thermi | tth |
Fimbriimonas ginsengisoli | — | Fimbriimonadia | fgi |
Acetomicrobium mobile | — | Synergistia | amo |
Thermotoga maritima | MSB8 | Thermotogae | tmm |
Caldisericum exile | — | Caldisericia | cex |
Dictyoglomus thermophilum | — | Dictyoglomia | dth |
Fibrobacter succinogenes | — | Fibrobacteria | fsu |
Gemmatimonas aurantiaca | — | Gemmatimonadetes | gau |
Chlorobium phaeobacteroides | DSM 266 | Chlorobia | cph |
Bacteroides fragilis | YCH46 | Bacteroidia | bfr |
Rhodopirellula baltica | — | Planctomycetia | rba |
Chlamydia pneumoniae | CWL029 | Chlamydiia | cpn |
Opitutus terrae | — | Opitutae | ote |
Borrelia burgdorferi | N40 | Spirochaetia | bbn |
Elusimicrobium minutum | — | Elusimicrobia | emi |
Helicobacter pylori | 26695 | ε-proteobacteria | heo |