Strain identifier

BacDive ID: 5414

Type strain: Yes

Species: Eubacterium barkeri

Strain history: ATCC 25849 <-- L. DS. Smith VPI 5359.

NCBI tax ID(s): 1528 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 587

BacDive-ID: 5414

DSM-Number: 1223

keywords: mesophilic, anaerobe, Bacteria, 16S sequence, genome sequence

description: Eubacterium barkeri DSM 1223 is an anaerobe, mesophilic bacterium that was isolated from mud.

NCBI tax id

  • NCBI tax id: 1528
  • Matching level: species

strain history

doi: 10.13145/bacdive5414.20220920.7

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Eubacteriaceae
  • genus: Eubacterium
  • species: Eubacterium barkeri
  • full scientific name: Eubacterium barkeri (Stadtman et al. 1972) Collins et al. 1994
  • synonyms

    • @ref: 20215
    • synonym: Clostridium barkeri

@ref: 587

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Eubacteriaceae

genus: Eubacterium

species: Eubacterium barkeri

full scientific name: Eubacterium barkeri (Stadtman et al. 1972) Collins et al. 1994

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
587NICOTINIC ACID MEDIUM (DSMZ Medium 152)yeshttps://bacmedia.dsmz.de/medium/152Name: NICOTINIC ACID MEDIUM (DSMZ Medium 152) Composition: Yeast extract 10.0 g/l Nicotinic acid 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.008 g/l CaCl2 x 2 H2O 0.008 g/l Distilled water
587CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)yeshttps://bacmedia.dsmz.de/medium/110Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l NaOH Vitamin K1 Distilled water

culture temp

@refgrowthtypetemperaturerange
587positivegrowth30-37mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 587
  • oxygen tolerance: anaerobe

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
587mudPotomac riverUSAUSANorth America
67770MudPotomac RiverUSAUSANorth America

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Mud (Sludge)

Safety information

risk assessment

  • @ref: 587
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
587Eubacterium barkeri strain ATCC 25849 16S ribosomal RNA gene, partial sequenceM239271527ena1528
67770Eubacterium barkeri gene for 16S ribosomal RNA, partial sequence, strain: JCM 1389LC0363141486ena1528

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Eubacterium barkeri VPI 5359GCA_900107125scaffoldncbi1528
66792Eubacterium barkeri strain VPI 53591528.7wgspatric1528
66792Eubacterium barkeri VPI 53592642422543draftimg1528
67770Eubacterium barkeri strain VPI 5359, whole genome shotgun sequencing projectFNOU00000000ncbi1528

GC content

@refGC-contentmethod
58745.0
6777045thermal denaturation, midpoint method (Tm)

External links

@ref: 587

culture collection no.: DSM 1223, ATCC 25849, NCIB 10623, VKM B-1775, VPI 5359, JCM 1389, BCRC 14473, BCRC 17243, CGMCC 1.5084, NCIMB 10623

straininfo link

@refpassport
20218http://www.straininfo.net/strains/157208
20218http://www.straininfo.net/strains/104631
20218http://www.straininfo.net/strains/157209
20218http://www.straininfo.net/strains/157210

literature

  • topic: Metabolism
  • Pubmed-ID: 30285910
  • title: Eubacterium maltosivorans sp. nov., a novel human intestinal acetogenic and butyrogenic bacterium with a versatile metabolism.
  • authors: Feng Y, Stams AJM, Sanchez-Andrea I, de Vos WM
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003028
  • year: 2018
  • topic2: Phylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
587Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1223)https://www.dsmz.de/collection/catalogue/details/culture/DSM-1223
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/