Holdemanella biformis

(aka Eubacterium biforme)

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

Overview

  • Holdemanella biformis, (aka Eubacterium biforme), is a Gram-positive, non-spore-forming, strictly anaerobic, non-motile, coccus bacterium. It has been detected in at least 15 gut microbiome compilation studies or metastudies. The DNA G+C content is 32-34%. Holdemanella biformis is a common gut coloniser. (Maesschalck2014; Holdeman1974; Wade2011aBergeys)



  • This organism has been recovered from human faeces (CCUG). The risk classification (www.baua.de) for this organism is 1, i.e., low risk of infection and spread. Pathogenicity status unknown, or very unlikely to be pathogenic. Is a known gut commensal.
    • GENERAL CHARACTERISTICS (Maesschalck2014); (Holdeman1974); (Wade2011aBergeys);
    Character Response
  • Substrates hydrolysed or digested:
  • gelatin;
  • H+
  • Acid from carbohydrates usually produced:
  • L-arabinose; glucose; mannose; xylose; raffinose; mannitol; salicin;
  • Active enzymes:
  • alkaline phosphatase; acid phosphatase; naphthol-ASBI-P;
    • SPECIAL FEATURES (Maesschalck2014); (Holdeman1974); (Wade2011aBergeys);
    Character Response
  • ✓
  • Metabolites produced:
  • acetate; propionate; butyrate; lactate;
    • RESPONSE TO ANTIBIOTICS (Citron2012); (Wade2011aBergeys);
    Class Active Resistant
  • Vancomycins:
  • vancomycin;

    • Details

    GENERAL
    Lineage Physiology General Growth Tolerances Hydrol./digest./degr.
    Phylum:  Firmicutes Class:  Erysipelotrichia Order:  Erysipelotrichales Family:  Erysipelotrichaceae Genus:  Holdemanella Alt. name:  Eubacterium biforme Gram stain:  + O2 Relation.:  strictly anaerobic Spore:  No spore Motility:  Sessile Morphology:  Coccus
    Health:  Unknown
    Source:  human faeces (CCUG)
    DNA G+C(%):  32-34
    		Aesculin:  neg Gelatin:  +
    CARBOHYDRATE ACID FORMATION
    Monosaccharide O/F Oligosaccharide O/F Polysaccharide O/F Polyol O/F Other O/F
    L-Arabinose:  + Glucose:  + Mannose:  + Rhamnose:  neg Xylose:  + Cellubiose:  neg Lactose:  neg Maltose:  neg Melezitose:  neg Sucrose:  neg Trehalose:  neg Mannitol:  + Sorbitol:  neg Salicin:  +
    ENZYME ACTIVITY
    Enzymes: General Enzymes: Carbohydrate Enzymes: Protein Enzymes: Arylamidases Enzymes: Esters/fats
    Urease:  neg Ac-β-glcamnd:  neg α-Fucosidase:  neg α-Galactosidase:  neg β-Galactosidase:  neg α-Glucosidase:  neg β-Glucosidase:  neg β-Glucuronidase:  neg α-Mannosidase:  neg Chymotrypsin:  neg Trypsin:  neg CystineAA:  neg LeuAA:  neg ValAA:  neg AlkalineP:  + AcidP:  + Esterase(C4):  neg EstLip(C8):  neg Lipase(C14):  neg
    ANTIBIOTICS ℞
    Penicillins & Penems (μg/mL) Cephalosporins (μg/mL) Aminoglycosides (μg/mL) Macrolides (μg/mL) Quinolones (μg/mL)
    Tetracyclines (μg/mL) Vancomycin Class (μg/mL) Polypep/ketides (μg/mL) Heterocycles (μg/mL) Other (μg/mL)
    vancomycin:  S(MIC50): 1, MIC90: 2, RNG: (0.25–32)

    References

    SPECIFIC REFERENCES FOR HOLDEMANELLA BIFORMIS
  • Maesschalck2014 - Faecalicoccus acidiformans gen. nov., sp. nov., isolated from the chicken caecum, and reclassification of Streptococcus pleomorphus (Barnes et al. 1977), Eubacterium biforme (Eggerth 1935) and Eubacterium cylindroides (Cato et al. 1974) as Faecalicoccus pleomorphus comb. nov., Holdemanella biformis gen. nov., comb. nov. and Faecalitalea cylindroides gen. nov., comb. nov., respectively, within the family Erysipelotrichaceae.
  • Wang2019b - Alterations in the human gut microbiome associated with Helicobacter pylori infection
  • Citron2012 - In vitro activities of CB-183,315, vancomycin, and metronidazole against 556 strains of Clostridium difficile, 445 other intestinal anaerobes, and 56 Enterobacteriaceae species.
  • Holdeman1974 - New Genus, Coprococcus, Twelve New Species, and Emended Descriptions of Four Previously Described Species of Bacteria from Human Feces.
  • Schwiertz2000 - Quantification of Different Eubacterium spp. in Human Fecal Samples with Species-Specific 16S rRNA-Targeted Oligonucleotide Probes.
  • Wade2011aBergeys - Bergey's manual of systematic bacteriology. Vol. 3, The Firmicutes. Family Eubacteriaceae, Genus I. Eubacterium
  • Salyers1977 - Fermentation of mucins and plant polysaccharides by anaerobic bacteria from the human colon
  • Bedarf2017 - Functional implications of microbial and viral gut metagenome changes in early stage L-DOPA-naïve Parkinson's disease patients
  • Huang2019 - Analysis of microbiota in elderly patients with Acute Cerebral Infarction
  • Jackson2016 - Signatures of early frailty in the gut microbiota
  • Lozupone2013 - Alterations in the gut microbiota associated with HIV-1 infection
  • Olbjorn2019 - Fecal microbiota profiles in treatment-naïve pediatric inflammatory bowel disease - associations with disease phenotype, treatment, and outcome
  • Schippa2013 - Cystic fibrosis transmembrane conductance regulator (CFTR) allelic variants relate to shifts in faecal microbiota of cystic fibrosis patients
  • Sokol2017 - Fungal microbiota dysbiosis in IBD
  • Ying2020 - Gut microbiota and Chinese medicine syndrome: altered fecal microbiotas in spleen (Pi)-deficient patients
  • Yu2015 - Metagenomic analysis of faecal microbiome as a tool towards targeted non-invasive biomarkers for colorectal cancer
  • ...............................
    • GUT MICROBIOME COMPILATIONS AND METASTUDIES FOR HOLDEMANELLA BIFORMIS
  • Byrd2020 - Stability and dynamics of the human gut microbiome and its association with systemic immune traits.
  • 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
  • Minerbi2019 - Altered microbiome composition in individuals with fibromyalgia
  • PerezBrocal2015 - Metagenomic Analysis of Crohn's Disease Patients Identifies Changes in the Virome and Microbiome Related to Disease Status and Therapy, and Detects Potential Interactions and Biomarkers
  • Salonen2014 - Impact of diet and individual variation on intestinal microbiota composition and fermentation products in obese men.
  • Wang2018 - A metagenome-wide association study of gut microbiota in asthma in UK adults
  • Wang2018a - Morphine induces changes in the gut microbiome and metabolome in a morphine dependence model.
  • Wang2020a - Aberrant gut microbiota alters host metabolome and impacts renal failure in humans and rodents
  • Woodmansey2004 - Comparison of compositions and metabolic activities of fecal microbiotas in young adults and in antibiotic-treated and non-antibiotic-treated elderly subjects.
  • Yang2020 - Species-Level Analysis of Human Gut Microbiota With Metataxonomics.
  • Yang2020a - Establishing high-accuracy biomarkers for colorectal cancer by comparing fecal microbiomes in patients with healthy families
  • Zeller2014 - Potential of fecal microbiota for early-stage detection of colorectal cancer
  • Zou2019 - 1,520 reference genomes from cultivated human gut bacteria enable functional microbiome analyses.
  • ...............................
    • GENERAL REFERENCES FOR HOLDEMANELLA BIFORMIS
  • Ludwig2009 - Revised road map to the phylum Firmicutes.
  • CCUG - Culture Collection University of Gothenburg - Entire Collection
    • Added: July 12, 2021