Strain identifier

BacDive ID: 17682

Type strain: Yes

Species: Ruminococcus albus

Strain Designation: 7

Strain history: DSM 20455 <-- G. Fuchs <-- M. Bryant 7.

NCBI tax ID(s): 697329 (strain), 1264 (species)

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General

@ref: 8827

BacDive-ID: 17682

DSM-Number: 20455

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

description: Ruminococcus albus 7 is an anaerobe, mesophilic bacterium that was isolated from bovine rumen.

NCBI tax id

NCBI tax idMatching level
1264species
697329strain

strain history

@refhistory
8827<- G. Fuchs <- M. Bryant, 7
67770DSM 20455 <-- G. Fuchs <-- M. Bryant 7.

doi: 10.13145/bacdive17682.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Oscillospiraceae
  • genus: Ruminococcus
  • species: Ruminococcus albus
  • full scientific name: Ruminococcus albus Hungate 1957 (Approved Lists 1980)

@ref: 8827

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Oscillospiraceae

genus: Ruminococcus

species: Ruminococcus albus

full scientific name: Ruminococcus albus Hungate 1957

strain designation: 7

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no90.263
6948099.719positive

Culture and growth conditions

culture medium

  • @ref: 8827
  • name: RUMINOCOCCUS ALBUS MEDIUM (DSMZ Medium 436)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/436
  • composition: Name: RUMINOCOCCUS ALBUS MEDIUM (DSMZ Medium 436) Composition: Tryptone 5.0 g/l Na2CO3 4.0 g/l Glucose 3.0 g/l Yeast extract 2.0 g/l Cellobiose 2.0 g/l (NH4)2SO4 0.8 g/l L-Cysteine HCl x H2O 0.5 g/l NaCl 0.48 g/l K2HPO4 0.24 g/l KH2PO4 0.24 g/l MgSO4 x 7 H2O 0.1 g/l CaCl2 x 7 H2O 0.064 g/l Resazurin 0.001 g/l Isovaleric acid 2-Methylbutyric acid Isobutyric acid Distilled water

culture temp

@refgrowthtypetemperaturerange
8827positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8827anaerobe
69480anaerobe100

spore formation

@refspore formationconfidence
69481no100
69480no96.868

murein

  • @ref: 8827
  • murein short key: A31
  • type: A1gamma m-Dpm-direct

observation

  • @ref: 43409
  • observation: glycocalyx formation

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
43409376711,3-beta-d-glucan-degradation
4340928102amylose-degradation
4340927569arabinogalactan-degradation
4340962968cellulose+hydrolysis
4340917020glucomannan+degradation
4340915443inulin+degradation
434096364laminarin-degradation
434096452lichenin+degradation
4340917309pectin+degradation
4340928017starch-degradation
4340937166xylan+degradation
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
4340930089acetateyes
4340916236ethanolyes
4340927897tryptophanyes
6838035581indoleno

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
43409cellulase+3.2.1.4
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase-3.4.11.1
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase-
68380alkaline phosphatase-3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase-3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-glucosidase-3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380alpha-galactosidase+3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
8827--++--++---------------------
8827--++/---+/-+/----------------------
8827--++/---++---------------------
8827--++--++---------------------

Isolation, sampling and environmental information

isolation

@refsample type
8827bovine rumen
67770Bovine rumen

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body-Site#Organ#Rumen

taxonmaps

  • @ref: 69479
  • File name: preview.99_3598.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_203;96_1165;97_1369;98_1661;99_3598&stattab=map
  • Last taxonomy: Ruminococcus albus subclade
  • 16S sequence: L76598
  • Sequence Identity:
  • Total samples: 2115
  • soil counts: 57
  • aquatic counts: 8
  • animal counts: 1942
  • plant counts: 108

Safety information

risk assessment

  • @ref: 8827
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Ruminococcus albus small subunit ribosomal RNA (16S rDNA) geneL765981407ena697329
67770Ruminococcus albus gene for 16S ribosomal RNA, partial sequence, strain: JCM 14654AB5384381472ena1264
67770Ruminococcus albus strain 7 16S ribosomal RNA gene, complete sequenceAY4456001503ena697329

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Ruminococcus albus 7 = DSM 20455GCA_000179635completencbi697329
66792Ruminococcus albus 7 = DSM 20455GCA_000621285scaffoldncbi697329
66792Ruminococcus albus 7697329.10completepatric697329
66792Ruminococcus albus 7 = DSM 20455697329.24wgspatric697329
66792Ruminococcus albus 7 = DSM 20455697329.33plasmidpatric697329
66792Ruminococcus albus 7 = DSM 20455697329.36plasmidpatric697329
66792Ruminococcus albus 7 = DSM 20455697329.34plasmidpatric697329
66792Ruminococcus albus 7 = DSM 20455697329.35plasmidpatric697329
66792Ruminococcus albus DSM 204552558860976draftimg697329
66792Ruminococcus albus 7649633094completeimg697329

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno88.878no
flagellatedno95.043no
gram-positiveyes83.879no
anaerobicyes99.389no
aerobicno97.955yes
halophileno90.597no
spore-formingno69.376no
thermophileno88.456yes
glucose-utilyes84.942no
glucose-fermentyes66.547no

External links

@ref: 8827

culture collection no.: DSM 20455, ATCC 27210, JCM 14654

straininfo link

  • @ref: 86673
  • straininfo: 38867

literature

Pubmed-IDtitleauthorsjournalDOIyearmeshtopictopic2
1426982Plasmid transformation of Ruminococcus albus by means of high-voltage electroporation.Cocconcelli PS, Ferrari E, Rossi F, Bottazzi VFEMS Microbiol Lett10.1016/0378-1097(92)90631-w1992DNA, Bacterial/*genetics, *Genetic Vectors, Gram-Positive Cocci/*genetics, *Plasmids, *Transfection, *Transformation, Bacterial
17612504Cloning and sequencing of the cellobiose 2-epimerase gene from an obligatory anaerobe, Ruminococcus albus.Ito S, Hamada S, Yamaguchi K, Umene S, Ito H, Matsui H, Ozawa T, Taguchi H, Watanabe J, Wasaki J, Ito SBiochem Biophys Res Commun10.1016/j.bbrc.2007.06.0912007Amino Acid Sequence, Anaerobiosis, Bacterial Proteins/chemistry/*genetics/isolation & purification, Carbohydrate Epimerases/chemistry/*genetics/isolation & purification, Cellobiose/*metabolism, Cloning, Molecular, Molecular Sequence Data, Ruminococcus/*enzymology/*genetics, Sequence Homology, Amino AcidEnzymologyPhylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8827Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20455)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20455
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
43409Melissa R Christopherson, John A Dawson, David M Stevenson, Andrew C Cunningham, Shanti Bramhacharya, ,Paul J Weimer, Christina Kendziorski and Garret Suen10.1186/1471-2164-15-1066Unique aspects of fiber degradation by the ruminal ethanologen Ruminococcus albus 7 revealed by physiological and transcriptomic analysisBMC Genomics 15: - 201425477200
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/
68380Automatically annotated from API rID32A
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
86673Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID38867.1StrainInfo: A central database for resolving microbial strain identifiers