Table 1. Distribution of E.coli nucleoid proteins in bacterial species.
Hu/IHF | H-NS/StpA | Dps | Fis | CbpA | DnaA | CbpB | Hfq | IciA/LysR | Lrp/AsnC | |||
---|---|---|---|---|---|---|---|---|---|---|---|---|
Proteobacteria | γ | Escherichia coli K-12 MG1655 | + | + | + | + | + | + | + | + | + | + |
Escherichia coli K-12 W3110 | + | + | + | + | + | + | + | + | + | + | ||
Escherichia coli O157 EDL933 | + | + | + | + | + | + | + | + | + | + | ||
Escherichia coli O157 Sakai | + | + | + | + | + | + | + | + | + | + | ||
Escherichia coli CFT073 | + | + | + | + | + | + | + | + | + | + | ||
Salmonella typhi CT18 | + | + | + | + | + | + | + | + | + | + | ||
Salmonella typhimurium | + | + | + | + | + | + | + | + | + | + | ||
Yersinia pestis CO92 | + | + | + | + | − | + | + | + | + | + | ||
Yersinia pestis KIM | + | + | + | + | − | + | + | + | + | + | ||
Shigella flexneri 301 (serotype 2a) | + | + | + | + | + | + | + | + | + | + | ||
Buchnera sp. APS (Acyrthosiphon pisum) | + | + | − | + | − | + | − | − | − | − | ||
Buchnera aphidicola (Schizaphis graminum) | + | − | − | + | − | + | − | − | + | − | ||
Buchnera aphidicola (Baizongia pistaciae) | + | − | − | − | − | + | − | − | − | − | ||
Wigglesworthia brevipalpis | + | + | − | − | − | − | − | + | − | − | ||
Haemophilus influenzae | + | + | + | + | − | + | − | + | + | + | ||
Pasteurella multocida | + | + | + | + | − | + | − | + | + | + | ||
Xylella fastidiosa 9a5c | + | + | + | + | + | + | − | + | + | − | ||
Xylella fastidiosa Temecula1 | + | + | + | + | + | + | − | + | + | − | ||
Xanthomonas campestris | + | + | + | + | + | + | − | + | + | + | ||
Xanthomonas axonopodis | + | + | + | + | + | + | − | + | + | + | ||
Vibrio cholerae | + | + | + | + | − | + | − | + | + | + | ||
Vibrio vulnificus | + | + | + | + | − | + | + | + | + | + | ||
Vibrio parahaemolyticus | + | + | + | + | − | + | − | + | + | + | ||
Pseudomonas aeruginosa | + | + | + | + | − | + | + | + | + | + | ||
Shewanella oneidensis | + | + | + | + | − | + | − | + | + | + | ||
Coxiella burnetii | + | − | − | + | + | + | − | − | − | − | ||
β | Neisseria meningitidis MC58 (serogroup B) | + | − | − | + | − | + | − | + | + | + | |
Neisseria meningitidis Z2491 (serogroup A) | + | − | − | + | − | + | − | + | + | + | ||
Ralstonia solanacearum | + | + | + | + | − | + | + | + | + | + | ||
δ/ε | Helicobacter pylori 26695 | + | − | + | − | + | + | − | − | − | − | |
Helicobacter pylori J99 | + | − | + | − | + | + | + | − | − | − | ||
Campylobacter jejuni | + | − | + | − | + | + | − | − | − | − | ||
α | Rickettsia prowazekii | + | − | + | − | − | + | − | − | − | − | |
Rickettsia conorii | + | − | − | − | − | + | − | − | − | − | ||
Mesorhizobium loti | + | − | − | − | − | + | + | + | + | + | ||
Sinorhizobium meliloti | + | − | − | − | + | + | + | + | + | + | ||
Agrobacterium tumefaciens C58 (UWash/Dupont) | + | − | + | − | − | + | + | + | + | + | ||
Agrobacterium tumefaciens C58 (Cereon) | + | − | + | − | − | + | + | + | + | + | ||
Brucella melitensis | + | − | + | − | − | + | − | + | + | + | ||
Brucella suis | + | − | + | − | − | + | − | + | + | + | ||
Bradyrhizobium japonicum | + | − | + | − | + | + | + | + | + | + | ||
Caulobacter crescentus | + | − | + | − | − | + | + | + | + | + | ||
Firmicutes | Bacillales | Bacillus subtilis | + | − | + | − | − | + | + | + | + | + |
Bacillus halodurans | + | − | + | − | − | + | + | + | + | + | ||
Bacillus anthracis | + | − | + | − | − | + | + | + | + | + | ||
Bacillus cereus | + | − | + | − | − | + | + | + | + | + | ||
Oceanobacillus iheyensis | + | − | + | − | − | + | + | + | + | + | ||
Staphylococcus aureus N315 (MRSA) | + | − | + | − | − | + | − | + | + | − | ||
Staphylococcus aureus Mu50 (VRSA) | + | − | + | − | − | + | − | + | + | − | ||
Staphylococcus aureus MW2 | + | − | + | − | − | + | − | + | + | − | ||
Staphylococcus epidermidis | + | − | + | − | − | + | − | + | + | − | ||
Listeria monocytogenes | + | − | + | − | − | + | − | + | + | − | ||
Listeria innocua | + | − | + | − | − | + | + | + | + | − | ||
Lactobacillales | Lactococcus lactis | + | − | + | − | − | + | − | − | + | − | |
Streptococcus pyogenes SF370 (serotype M1) | + | − | + | − | − | + | − | − | + | − | ||
Streptococcus pyogenes MGAS8232 (serotype M18) | + | − | + | − | − | + | − | − | + | − | ||
Streptococcus pyogenes MGAS315 (serotype M3) | + | − | + | − | − | + | − | − | + | − | ||
Streptococcus pneumoniae TIGR4 | + | − | + | − | − | + | − | − | + | − | ||
Streptococcus pneumoniae R6 | + | − | + | − | − | + | − | − | + | − | ||
Streptococcus mutans | + | − | + | − | − | + | − | − | + | − | ||
Lactobacillus plantarum | + | − | + | − | − | + | − | − | + | + | ||
Enterococcus faecalis | + | − | + | − | − | + | − | − | + | − | ||
Clostridia | Clostridium acetobutylicum | + | − | − | − | − | + | + | + | + | + | |
Clostridium perfringens | + | − | − | − | − | + | − | + | + | + | ||
Clostridium tetani | + | − | − | − | − | + | + | + | + | + | ||
Thermoanaerobacter tengcongensis | + | − | − | − | − | + | − | + | + | + | ||
Mollicutes | Mycoplasma genitalium | − | − | − | − | − | + | − | − | − | − | |
Mycoplasma pneumoniae | − | − | − | − | − | + | − | − | − | − | ||
Mycoplasma pulmonis | + | − | − | − | − | + | − | − | − | − | ||
Mycoplasma penetrans | + | − | − | − | − | + | − | − | − | − | ||
Ureaplasma urealyticum | + | − | − | − | − | + | − | − | − | − | ||
Actinobacteria | Mycobacterium tuberculosis H37Rv (lab strain) | + | − | − | − | − | + | − | − | + | + | |
Mycobacterium tuberculosis CDC1551 | + | − | − | − | − | + | − | − | + | + | ||
Mycobacterium leprae | + | − | − | − | − | + | − | − | + | + | ||
Corynebacterium glutamicum | − | − | + | − | − | + | − | − | + | + | ||
Corynebacterium efficiens | − | − | + | − | − | + | − | − | + | + | ||
Streptomyces coelicolor | + | − | + | − | − | + | + | − | + | + | ||
Bifidobacterium longum | + | − | + | − | − | + | − | − | + | + | ||
Tropheryma whipplei Twist | + | − | + | − | + | + | − | − | − | − | ||
Tropheryma whipplei TW08/27 | + | − | + | − | + | + | − | − | − | − | ||
Fusobacteria | Fusobacterium nucleatum | + | − | + | − | − | − | − | − | + | − | |
Chlamydia | Chlamydia trachomatis | + | − | − | − | − | + | − | − | − | − | |
Chlamydia muridarum | + | − | − | − | − | + | − | − | − | − | ||
Chlamydophila pneumoniae CWL029 | + | − | − | − | − | + | − | − | − | − | ||
Chlamydophila pneumoniae AR39 | + | − | − | − | − | + | − | − | − | − | ||
Chlamydophila pneumoniae J138 | + | − | − | − | − | + | − | − | − | − | ||
Chlamydophila caviae | + | − | − | − | − | + | − | − | − | − | ||
Spirochete | Borrelia burgdorferi | + | − | + | − | + | + | − | − | − | − | |
Treponema pallidum | + | − | + | − | − | + | − | − | − | − | ||
Leptospira interrogans | + | − | + | − | − | + | − | + | − | − | ||
Cyanobacteria | Synechocystis sp. PCC6803 | + | − | + | − | + | + | − | − | + | − | |
Thermosynechococcus elongatus | + | − | + | − | − | + | − | − | + | − | ||
Anabaena sp. PCC7120 (Nostoc sp. PCC7120) | + | − | + | − | + | + | − | − | + | − | ||
Green sulfur bacteria | Chlorobium tepidum | + | − | − | − | − | + | − | − | − | + | |
Radioresistant bacteria | Deinococcus radiodurans | + | − | + | − | − | + | − | − | + | + | |
Hyperthermophilic bacteria | Aquifex aeolicus | + | − | − | − | − | + | − | + | − | − | |
Thermotoga maritima | + | − | − | − | − | + | − | + | − | − |
The presence (+) and absence (–) of orthologs [for CbpA, DnaA, CbpB, Dps, HU/IHF (paralogs), Hfq, Fis, H-NS/StpA (paralogs)] or closely related homologs (for IciA/LysR, Lrp/AsnC) in various bacterial species was determined by homolog search (SSDB and the FASTA) in the KEGG databases. It should be noted that H-NS, HU, IHF, StpA and Dps were distributed among many species, whereas CbpA, CbpB, Fis and IciA were detected only in the restricted ones.