SUBSTRATA MAIN PAGE


Citrobacter

RANK: Genus

TAXONOMY: cellular organisms -> Bacteria -> Proteobacteria -> Gammaproteobacteria -> Enterobacteriales -> Enterobacteriaceae -> Citrobacter

OVERVIEW:

Straight rods, ~1.0 µm × 2.0–6.0 µm. Occur singly and in pairs. Conform to the general definition of the family Enterobacteriaceae. Usually not encapsulated. Gram negative. Usually motile by peritrichous flagella. Facultatively anaerobic, having both a respiratory and a fermentative type of metabolism. Grow readily on ordinary media. Colonies on nutrient agar are generally 2–4 mm in diameter, smooth, low convex, moist, translucent or opaque, and gray with a shiny surface and entire edge. Mucoid or rough forms may occur occasionally. Oxidase negative. Catalase positive. Chemoorganotrophic. Citrate can be utilized as a sole carbon source by most strains. Lysine is not decarboxylated. Alginate and pectate are not decomposed. d-glucose is fermented with the production of acid and gas. The methyl red test is positive; the Voges–Proskauer test is negative. Occur in the feces of humans and some animals; probably normal intestinal inhabitants. Sometimes pathogenic and often isolated from clinical specimens as opportunistic pathogens. Can also be found in soil, water, sewage, and food.The mol% G + C of the DNA is: 50–52 (Tm).Type species: Citrobacter freundii

This genus contains microbial species that can reside in the human gastrointestinal tract. [PMC 4262072]



Microbial Abundance Data: Citrobacter
(Percent of total population with standard deviation [PMID: 22698087])
Group 1
Group 2
Group 3
Group 4
Group 1 Avg
Buccal
Mucosa
Keratinized
Gingiva
Hard
Palate
Group 2 Avg
Throat
Throat
Tonsils
Saliva
Group 3 Avg
Supragingival
Plaque
Subgingival
Plaque
Stool
0.002 %
(0.016)
0.001 %
(0.004)
0.001 %
(0.006)
0.006 %
(0.038)
0.002 %
(0.011)
0.004 %
(0.029)
0.001 %
(0.008)
0.000 %
(0.001)
0.001 %
(0.007)
0.001 %
(0.011)
0.000 %
(0.002)
0.002 %
(0.020)
0.000 %
(0.006)
TAGS
Keystone
Core species
Type species
Pathogen
Dysbiosis associated
Flora/ commensal
Gut associated
Probiotic
Leanness
Obesity
Skin microbiome
Fecal distribution
Oral microbiome
Vaginal microbiome
Butyrate producer
Catalase producer
Histamine producer
Food fermenter
Amylolytic
Propionate producer
Nitrifying
Biofilm producer
DESCENDANTS
INTERACTIONS
KEGG PATHWAYS
  • 2-Oxocarboxylic acid metabolism
  • ABC transporters
  • Acarbose and validamycin biosynthesis
  • Alanine, aspartate and glutamate metabolism
  • Amino sugar and nucleotide sugar metabolism
  • Aminoacyl-tRNA biosynthesis
  • Aminobenzoate degradation
  • Arachidonic acid metabolism
  • Arginine and proline metabolism
  • Arginine biosynthesis
  • Ascorbate and aldarate metabolism
  • Bacterial chemotaxis
  • Bacterial secretion system
  • Base excision repair
  • Benzoate degradation
  • Biosynthesis of amino acids
  • Biosynthesis of antibiotics
  • Biosynthesis of secondary metabolites
  • Biosynthesis of siderophore group nonribosomal peptides
  • Biosynthesis of unsaturated fatty acids
  • Biotin metabolism
  • Butanoate metabolism
  • C5-Branched dibasic acid metabolism
  • Caprolactam degradation
  • Carbapenem biosynthesis
  • Carbon metabolism
  • Cationic antimicrobial peptide (CAMP) resistance
  • Chloroalkane and chloroalkene degradation
  • Chlorocyclohexane and chlorobenzene degradation
  • Citrate cycle (TCA cycle)
  • Cyanoamino acid metabolism
  • Cysteine and methionine metabolism
  • D-Alanine metabolism
  • D-Glutamine and D-glutamate metabolism
  • DNA replication
  • Degradation of aromatic compounds
  • Dioxin degradation
  • Ether lipid metabolism
  • Fatty acid biosynthesis
  • Fatty acid degradation
  • Fatty acid metabolism
  • Flagellar assembly
  • Fluorobenzoate degradation
  • Folate biosynthesis
  • Fructose and mannose metabolism
  • Galactose metabolism
  • Geraniol degradation
  • Glutathione metabolism
  • Glycerolipid metabolism
  • Glycerophospholipid metabolism
  • Glycine, serine and threonine metabolism
  • Glycolysis / Gluconeogenesis
  • Glyoxylate and dicarboxylate metabolism
  • Histidine metabolism
  • Homologous recombination
  • Inositol phosphate metabolism
  • Limonene and pinene degradation
  • Lipoic acid metabolism
  • Lipopolysaccharide biosynthesis
  • Lysine biosynthesis
  • Lysine degradation
  • Metabolic pathways
  • Methane metabolism
  • Microbial metabolism in diverse environments
  • Mismatch repair
  • Monobactam biosynthesis
  • Naphthalene degradation
  • Nicotinate and nicotinamide metabolism
  • Nitrogen metabolism
  • Nitrotoluene degradation
  • Nonribosomal peptide structures
  • Novobiocin biosynthesis
  • Nucleotide excision repair
  • One carbon pool by folate
  • Other glycan degradation
  • Oxidative phosphorylation
  • Pantothenate and CoA biosynthesis
  • Pentose and glucuronate interconversions
  • Pentose phosphate pathway
  • Peptidoglycan biosynthesis
  • Phenylalanine metabolism
  • Phenylalanine, tyrosine and tryptophan biosynthesis
  • Phosphonate and phosphinate metabolism
  • Phosphotransferase system (PTS)
  • Polycyclic aromatic hydrocarbon degradation
  • Polyketide sugar unit biosynthesis
  • Porphyrin and chlorophyll metabolism
  • Propanoate metabolism
  • Protein export
  • Purine metabolism
  • Pyrimidine metabolism
  • Pyruvate metabolism
  • Quorum sensing00253
  • RNA degradation
  • RNA polymerase
  • Riboflavin metabolism
  • Ribosome
  • Selenocompound metabolism
  • Starch and sucrose metabolism
  • Streptomycin biosynthesis
  • Sulfur metabolism
  • Sulfur relay system
  • Synthesis and degradation of ketone bodies
  • Taurine and hypotaurine metabolism
  • Terpenoid backbone biosynthesis
  • Thiamine metabolism
  • Toluene degradation
  • Tryptophan metabolism
  • Two-component system
  • Tyrosine metabolism
  • Ubiquinone and other terpenoid-quinone biosynthesis
  • Valine, leucine and isoleucine biosynthesis
  • Valine, leucine and isoleucine degradation
  • Vancomycin resistance
  • Vitamin B6 metabolism
  • Xylene degradation
  • alpha-Linolenic acid metabolism
  • beta-Alanine metabolism
  • beta-Lactam resistance

  • CLUSTERS WITH
    METABOLOMICS       
    ANTIBIOTIC RESISTANCE   
  • Paromomycin (aph3ia)
  • Neomycin (aph3ia)
  • Kanamycin (aph3ia)
  • Ribostamycin (aph3ia)
  • Lividomycin (aph3ia)
  • Gentamincin b (aph3ia)
  • Cloxacillin (bl2d_oxa10)
  • Penicillin (bl2d_oxa10)
  • Cephamycin (bl1_cmy2)
  • Cephalosporin (bl1_cmy2)
  • Ceftriaxone (bl1_cmy2)
  • Cefoxitin (bl1_cmy2)
  • Carbapenem (bl1_cmy2)
  • Ceftazidime (bl1_cmy2)
  • Fluoroquinolone (qnrb)
  • Cephamycin (bl3_cit)
  • Cephalosporin (bl3_cit)
  • Penicillin (bl3_cit)
  • Carbapenem (bl3_cit)
  • Tetracycline (tetd)
  • Sulfonamide (sul1)
  • Trimethoprim (dfra1)
  • Cephalosproin (bl1_ampc)
  • Trimethoprim (dfra25)
  • Monobactam (bl2be_shv2)
  • E cephalosproin (bl2be_shv2)
  • Penicillin (bl2be_shv2)
  • N cephalosproin (bl2be_shv2)
  • Monobactam (bl2be_per)
  • E cephalosproin (bl2be_per)
  • Penicillin (bl2be_per)
  • N cephalosproin (bl2be_per)
  • Trimethoprim (dfra12)
  • Spectinomycin (ant3ia)
  • Streptomycin (ant3ia)
  • Tobramycin (aac6ia)
  • Netilmicin (aac6ia)
  • Isepamicin (aac6ia)
  • Amikacin (aac6ia)
  • Sisomicin (aac6ia)
  • Dibekacin (aac6ia)
  • Monobactam (bl2be_ctxm)
  • Cephalosporin ii (bl2be_ctxm)
  • Cephalosporin iii (bl2be_ctxm)
  • Penicillin (bl2be_ctxm)
  • Cephalosporin i (bl2be_ctxm)
  • Ceftazidime (bl2be_ctxm)
  • Tobramycin (aac6ib)
  • Netilmicin (aac6ib)
  • Isepamicin (aac6ib)
  • Amikacin (aac6ib)
  • Sisomicin (aac6ib)
  • Dibekacin (aac6ib)
  • Cephamycin (bl2_kpc)
  • Cephalosporin (bl2_kpc)
  • Penicillin (bl2_kpc)
  • Carbapenem (bl2_kpc)
  • Cloxacillin (bl2d_oxa1)
  • Penicillin (bl2d_oxa1)
  • Tobramycin (ant2ia)
  • Sisomicin (ant2ia)
  • Kanamycin (ant2ia)
  • Gentamicin (ant2ia)
  • Dibekacin (ant2ia)
  • Cephalosporin (bl2b_tem)
  • Penicillin (bl2b_tem)
  • Cephalosproin (bl3_imp)
  • Cephamycin (bl3_imp)
  • Penicillin (bl3_imp)
  • Carbapenem (bl3_imp)
  • Tobramycin (aac3iia)
  • Netilmicin (aac3iia)
  • Sisomicin (aac3iia)
  • Gentamicin (aac3iia)
  • Dibekacin (aac3iia)
  • Cephalosproin (bl2b_ula)
  • Penicillin (bl2b_ula)
  • Cephalosporin ii (bl2b_tem1)
  • Penicillin (bl2b_tem1)
  • Cephalosporin i (bl2b_tem1)
  • Aminoglycoside (acra)
  • Glycylcycline (acra)
  • Macrolide (acra)
  • Beta lactam (acra)
  • Acriflavin (acra)
  • Trimethoprim (dfra16)
  • BIOFILM FORMERS   
    COGEM PATHOGENICITY   

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