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Bradyrhizobium

RANK: Genus

TAXONOMY: cellular organisms -> Bacteria -> Proteobacteria -> Alphaproteobacteria -> Rhizobiales -> Bradyrhizobiaceae -> Bradyrhizobium

OVERVIEW:

Rods 0.5–0.9 × 1.2–3.0 µm. Commonly pleomorphic under adverse growth conditions. Usually contain granules of poly-β-hydroxybutyrate that are refractile by phase-contrast microscopy. Nonsporeforming. Gram negative. Motile by one polar or subpolar flagellum. Fimbriae have not been described. Aerobic, possessing a respiratory type of metabolism with oxygen as the terminal electron acceptor. Optimal temperature 25–30°C. Optimal pH, 6–7, although lower optima may be exhibited by strains from acid soils. Colonies are circular, opaque, rarely translucent, white, and convex, and tend to be granular in texture; they do not exceed 1.0 mm in diameter in less than 5–6 days incubation on A1EG medium. Turbidity develops only after 3–4 days in agitated broth. Generation times are 9–18 h. Chemoorganotrophic, utilizing a range of carbohydrates and salts of organic acids as carbon sources, without gas formation; arabinose and other pentoses are preferred carbon sources. Cellulose and starch are not utilized. Produce an alkaline reaction in mineral salts medium containing mannitol and/or many other carbohydrates. Growth on carbohydrate media is usually accompanied by extracellular polysaccharide slime production particularly with glycerol, gluconate, or mannitol. Some strains can grow chemolithotrophically in the presence of H2, CO2, and low levels of O2. Ammonium salts, usually nitrates, and some amino acids, can serve as nitrogen sources. Peptone is poorly utilized (except for strains isolated from Lotononis). Casein and agar are not hydrolyzed. There is usually no requirement for vitamins with the rare exception of biotin, which also may be inhibitory to some strains. 3-Ketoglycosides are not produced (Bernaerts and De Ley, 1963). The organisms are characteristically able to enter the root hairs of tropical-zone and some temperate-zone leguminous plants (family Leguminosae) and incite the production of root nodules, in which the bacteria occur as intracellular nitrogen-fixing symbionts. Some strains, especially B. elkanii, fix nitrogen in the free-living state when examined under special conditions.The mol% G + C of the DNA is: 61–65.Type species: Bradyrhizobium japonicum

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



Microbial Abundance Data: Bradyrhizobium
(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
0.000 %
(0.000)
0.000 %
(0.000)
0.000 %
(0.000)
0.000 %
(0.000)
0.000 %
(0.000)
0.000 %
(0.000)
0.000 %
(0.000)
0.000 %
(0.000)
0.000 %
(0.000)
0.000 %
(0.001)
0.000 %
(0.001)
0.000 %
(0.001)
0.000 %
(0.000)
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
  • Bradyrhizobium arachidis
  • Bradyrhizobium betae
  • Bradyrhizobium canariense
  • Bradyrhizobium cytisi
  • Bradyrhizobium daqingense
  • Bradyrhizobium denitrificans
  • Bradyrhizobium diazoefficiens
  • Bradyrhizobium elkanii
  • Bradyrhizobium erythrophlei
  • Bradyrhizobium ferriligni
  • Bradyrhizobium ganzhouense
  • Bradyrhizobium genosp.
  • Bradyrhizobium guangdongense
  • Bradyrhizobium guangxiense
  • Bradyrhizobium huanghuaihaiense
  • Bradyrhizobium icense
  • Bradyrhizobium ingae
  • Bradyrhizobium iriomotense
  • Bradyrhizobium japonicum
  • Bradyrhizobium jicamae
  • Bradyrhizobium kavangense
  • Bradyrhizobium lablabi
  • Bradyrhizobium liaoningense
  • Bradyrhizobium lupini
  • Bradyrhizobium manausense
  • Bradyrhizobium neotropicale
  • Bradyrhizobium oligotrophicum
  • Bradyrhizobium ottawaense
  • Bradyrhizobium pachyrhizi
  • Bradyrhizobium paxllaeri
  • Bradyrhizobium retamae
  • Bradyrhizobium rifense
  • Bradyrhizobium sp.
  • Bradyrhizobium sp. 68A4SAPT
  • Bradyrhizobium sp. CCBAU 53380
  • Bradyrhizobium sp.YB2
  • Bradyrhizobium valentinum
  • Bradyrhizobium vignae
  • Bradyrhizobium viridifuturi
  • Bradyrhizobium yuanmingense
  • environmental samples
  • INTERACTIONS
    KEGG PATHWAYS
  • 2-Oxocarboxylic acid metabolism
  • ABC transporters
  • 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
  • Atrazine degradation
  • Bacterial chemotaxis
  • Bacterial secretion system
  • Base excision repair
  • Benzoate degradation
  • Biosynthesis of amino acids
  • Biosynthesis of antibiotics
  • Biosynthesis of secondary metabolites
  • Biosynthesis of unsaturated fatty acids
  • Biotin metabolism
  • Butanoate metabolism
  • C5-Branched dibasic acid metabolism
  • Caprolactam degradation
  • Carbapenem biosynthesis
  • Carbon fixation in photosynthetic organisms
  • Carbon metabolism
  • Carotenoid biosynthesis
  • 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-Arginine and D-ornithine metabolism
  • D-Glutamine and D-glutamate metabolism
  • DNA replication
  • Degradation of aromatic compounds
  • Dioxin degradation
  • Fatty acid biosynthesis
  • Fatty acid degradation
  • Fatty acid metabolism
  • Flagellar assembly
  • Fluorobenzoate degradation
  • Folate biosynthesis
  • Fructose and mannose metabolism
  • Furfural degradation
  • 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
  • Insulin resistance
  • 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
  • Non-homologous end-joining
  • Novobiocin biosynthesis
  • Nucleotide excision repair
  • One carbon pool by folate
  • Oxidative phosphorylation
  • Pantothenate and CoA biosynthesis
  • Penicillin and cephalosporin 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
  • Porphyrin and chlorophyll metabolism
  • Propanoate metabolism
  • Protein export
  • Purine metabolism
  • Pyrimidine metabolism
  • Pyruvate metabolism
  • RNA degradation
  • RNA polymerase
  • Riboflavin metabolism
  • Ribosome
  • Secondary bile acid biosynthesis
  • Selenocompound metabolism
  • Sesquiterpenoid and triterpenoid biosynthesis
  • Starch and sucrose metabolism
  • Streptomycin biosynthesis
  • Styrene degradation
  • 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
  • beta-Alanine metabolism
  • beta-Lactam resistance

  • CLUSTERS WITH
    Group 84
  • Mesorhizobium
  • Rhizobium etli
  • Sinorhizobium meliloti
  • Bradyrhizobium
  • Group 161
  • Frankia
  • Bradyrhizobium
  • Group 155
  • Novosphingobium aromaticivorans
  • Bradyrhizobium
  • Group 97
  • Thiobacillus denitrificans
  • Acidovorax
  • Bradyrhizobium
  • Group 26
  • Mesorhizobium loti
  • Ochrobactrum anthropi
  • Rhizobium etli
  • Brucella melitensis
  • Rhizobium leguminosarum
  • Brucella suis
  • Silicibacter
  • Mesorhizobium
  • Caulobacter crescentus
  • Photobacterium profundum
  • Xylella fastidiosa
  • Sinorhizobium meliloti
  • Rhodobacter sphaeroides
  • Bradyrhizobium
  • Group 17
  • Burkholderia xenovorans
  • Nitrobacter winogradskyi
  • Rhizobium etli
  • Nitrobacter hamburgensis
  • Rhizobium leguminosarum
  • Acidobacteria bacterium
  • Silicibacter
  • Mesorhizobium
  • Sinorhizobium meliloti
  • Paracoccus denitrificans
  • Rhodobacter sphaeroides
  • Bradyrhizobium japonicum
  • Bradyrhizobium
  • Group 38
  • Nocardia farcinica
  • Methylococcus capsulatus
  • Bacillus halodurans
  • Silicibacter pomeroyi
  • Nocardioides
  • Xanthomonas oryzae
  • Gluconobacter oxydans
  • Hyphomonas neptunium
  • Xylella fastidiosa
  • Alcanivorax borkumensis
  • Bradyrhizobium
  • Group 19
  • Rhodopseudomonas palustris
  • Renibacterium salmoninarum
  • Rhodospirillum rubrum
  • Nitrobacter winogradskyi
  • Shewanella oneidensis
  • Cytophaga hutchinsonii
  • Geobacillus kaustophilus
  • Bradyrhizobium japonicum
  • Bradyrhizobium
  • Bartonella bacilliformis
  • Silicibacter pomeroyi
  • Nitrobacter hamburgensis
  • Caulobacter crescentus
  • Paracoccus denitrificans
  • Syntrophus aciditrophicus
  • Rhodobacter sphaeroides
  • METABOLOMICS       
    NUTRIENTS/ SUBSTRATES

    ENDPRODUCTS
    ANTIBIOTIC RESISTANCE   
    BIOFILM FORMERS   
    COGEM PATHOGENICITY   

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