Gordonibacter pamelaeae

Bacteria
General | Carbohydrate O/F | Substrate utilisation | Enzymes | Metabolites | Antibiotics

Overview

  • Gordonibacter pamelaeae is a Gram-positive, non-spore-forming, strictly anaerobic, motile, coccobacillus bacterium. It has been detected in at least 15 gut microbiome compilation studies or metastudies. The DNA G+C content is 66.4%. Gordonibacter pamelaeae is a common gut coloniser. (Wurdemann2009)



  • This organism has been recovered from human faeces and clinical sources (inflammatory bowel disease). Could be a possible pathogen in humans, but unknown at this stage. A possible gut commensal.
    • GENERAL CHARACTERISTICS (Wurdemann2009);
    Character Response
  • Substrates hydrolysed or digested:
  • arginine;
  • ⥅
  • Substrates assimilated or utilised:
  • dextrin; mannitol; sorbitol; glutamate; methionine; phenylalanine; valine; DL-lactate; pyruvate; succinate; glutamine; methyl pyruvate; D-glucose-6-phosphate;
  • Active enzymes:
  • arginine dihydrolase; catalase;
    • SPECIAL FEATURES (Wurdemann2009);
    Character Response
  • ✗
  • Metabolites not produced:
  • indole;
  • ✗
  • Nitrate:
  • not reduced

  • N/A

  • The strain was catalase-positive and metabolized only a small number of carbon sources. Whole-cell fatty acids consisted predominantly of saturated fatty acids (89 %), of which 15 : 0 anteiso was the major component. [https://doi.org/10.1099/ijs.0.005900-0]

  • GutFeeling KnowledgeBase COMMENTS [Website]

    A strictly anaerobic, Gram-positive, short-rod/coccobacillus-shaped bacterial strain, designated 7-10-1-bT, was isolated from the colon of a patient suffering from acute Crohn's disease. The isolate formed small, pale-white, semi-translucent colonies on solid cultivation media. The strain was catalase-positive and metabolized only a small number of carbon sources. Whole-cell fatty acids consisted predominantly of saturated fatty acids (89 %), of which 15 : 0 anteiso was the major component. [https://doi.org/10.1099/ijs.0.005900-0]

  • Würdemann, D., Tindall, B. J., Pukall, R., Lünsdorf, H., Strömpl, C., Namuth, T., Nahrstedt, H., Wos-Oxley, M., Ott, S., Schreiber, S., Timmis, K. N., & Oxley, A. P. A. (2009). Gordonibacter pamelaeae gen. nov., sp. nov., a new member of the Coriobacteriaceae isolated from a patient with Crohn’s disease, and reclassification of Eggerthella hongkongensis Lau et al. 2006 as Paraeggerthella hongkongensis gen. nov., comb. nov. International Journal of Systematic and Evolutionary Microbiology, 59(Pt 6), 1405–1415.

    • Details

    GENERAL
    Lineage Physiology General Growth Tolerances Hydrol./digest./degr.
    Phylum:  Actinobacteria Class:  Coriobacteriia Order:  Eggerthellales Family:  Eggerthellaceae Genus:  Gordonibacter Gram stain:  + O2 Relation.:  strictly anaerobic Spore:  No spore Motility:  Swimming Morphology:  Coccobacillus
    Health:  Unknown
    Source:  human faeces and clinical sources (inflammatory bowel disease)
    DNA G+C(%):  66.4
    		Urea:  neg Gelatin:  neg Arginine:  +
    CARBOHYDRATE ACID FORMATION
    Monosaccharide O/F Oligosaccharide O/F Polysaccharide O/F Polyol O/F Other O/F
    Arabinose:  neg Glucose:  neg Mannose:  neg Rhamnose:  neg Xylose:  neg Cellubiose:  neg Lactose:  neg Maltose:  neg Melezitose:  neg Sucrose:  neg Trehalose:  neg Glycerol:  neg Mannitol:  neg Sorbitol:  neg Salicin:  neg
    SUBSTRATE ASSIMILATION & UTILISATION
    Monosaccharide util/assim Oligosaccharide util/assim Other carboh. util/assim Amino acid util/assim Organic acid util/assim
    Fucose:  neg Mannose:  neg Rhamnose:  neg Lactose:  neg Raffinose:  neg Sucrose:  neg Trehalose:  neg Amygdalin:  w Dextrin:  + Mannitol:  + Sorbitol:  + Glu:  + Met:  + Phe:  + Thr:  neg Val:  + Acetate:  neg 3-Hydroxybutyrate:  neg DL-Lactate:  + Pyruvate:  + Saccharate:  neg Succinate:  +
    ENZYME ACTIVITY
    Enzymes: General Enzymes: Carbohydrate Enzymes: Protein Enzymes: Arylamidases Enzymes: Esters/fats
    Oxidase:  neg Catalase:  + Urease:  neg Ac-β-glcamnd:  neg α-Fucosidase:  neg α-Galactosidase:  neg β-Galactosidase:  neg α-Glucosidase:  neg β-Glucosidase:  neg β-Glucuronidase:  neg ArgDH:  + GluDC:  vr AlanineAA:  neg ArgAA:  neg GluGluAA:  neg GlyAA:  neg HisAA:  neg LeuAA:  neg LeuGlyAA:  neg ProAA:  neg PyrrolidAA:  neg SerAA:  neg TyrAA:  neg AlkalineP:  neg
    METABOLITES - PRODUCTION & USE
    Fuel Usable Metabolites Metabolites Released Special Products Compounds Produced

    		Indole:  neg

    References

    SPECIFIC REFERENCES FOR GORDONIBACTER PAMELAEAE
  • Wurdemann2009 - Gordonibacter pamelaeae gen. nov., sp. nov., a new member of the Coriobacteriaceae isolated from a patient with Crohn's disease, and reclassification of Eggerthella hongkongensis Lau et al. 2006 as Paraeggerthella hongkongensis gen. nov., comb. nov.
  • Ventura2019 - Gut microbiome of treatment-naïve MS patients of different ethnicities early in disease course
  • ...............................
    • GUT MICROBIOME COMPILATIONS AND METASTUDIES FOR GORDONIBACTER PAMELAEAE
  • Byrd2020 - Stability and dynamics of the human gut microbiome and its association with systemic immune traits.
  • Chen2020 - Structural and Functional Characterization of the Gut Microbiota in Elderly Women With Migraine
  • Chen2020a - Featured Gut Microbiomes Associated With the Progression of Chronic Hepatitis B Disease
  • Dubinkina2017 - Links of gut microbiota composition with alcohol dependence syndrome and alcoholic liver disease
  • Forster2019 - A human gut bacterial genome and culture collection for improved metagenomic analyses.
  • Hu2019 - The Gut Microbiome Signatures Discriminate Healthy From Pulmonary Tuberculosis Patients
  • Jeong2021 - The effect of taxonomic classification by full-length 16S rRNA sequencing with a synthetic long-read technology
  • King2019 - Baseline human gut microbiota profile in healthy people and standard reporting template.
  • Lagier2016 - Culture of previously uncultured members of the human gut microbiota by culturomics.
  • New2022 - Collective effects of human genomic variation on microbiome function.
  • Pfleiderer2013 - Culturomics identified 11 new bacterial species from a single anorexia nervosa stool sample.
  • Qin2012 - Metagenome-wide association study of gut microbiota in type 2 diabetes
  • RajilicStojanovic2014 - The first 1000 cultured species of the human gastrointestinal microbiota.
  • Rothschild2018 - Environment dominates over host genetics in shaping human gut microbiota.
  • Tyakht2013 - Human gut microbiota community structures in urban and rural populations in Russia.
  • ...............................
    • GENERAL REFERENCES FOR GORDONIBACTER PAMELAEAE
  • CCUG - Culture Collection University of Gothenburg - Entire Collection
  • Alkhalil2017 - Bacterial involvements in ulcerative colitis: molecular and microbiological studies
    • Added: February 08, 2021