Strain identifier

BacDive ID: 12519

Type strain: Yes

Species: Barnesiella intestinihominis

Strain history: M. Morotomi 7-38 (=YIT 11860).

NCBI tax ID(s): 742726 (strain), 487174 (species)

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General

@ref: 15518

BacDive-ID: 12519

DSM-Number: 21032

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, rod-shaped

description: Barnesiella intestinihominis DSM 21032 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human faeces.

NCBI tax id

NCBI tax idMatching level
487174species
742726strain

strain history

@refhistory
15518<- H. Sakon; YIT 11860 {2007}
67770M. Morotomi 7-38 (=YIT 11860).

doi: 10.13145/bacdive12519.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Barnesiellaceae
  • genus: Barnesiella
  • species: Barnesiella intestinihominis
  • full scientific name: Barnesiella intestinihominis Morotomi et al. 2008

@ref: 15518

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Barnesiellaceae

genus: Barnesiella

species: Barnesiella intestinihominis

full scientific name: Barnesiella intestinihominis Morotomi et al. 2008 emend. Hahnke et al. 2016

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31196negative1.3-3 µm0.4-1 µmrod-shapedno
69480no93.04
69480negative99.932

colony morphology

  • @ref: 15518
  • incubation period: 2-3 days

pigmentation

  • @ref: 31196
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 15518
  • name: CHOPPED MEAT MEDIUM (DSMZ Medium 78)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/78
  • composition: Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water

culture temp

@refgrowthtypetemperaturerange
15518positivegrowth37mesophilic
31196positivegrowth37mesophilic
31196positiveoptimum37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepH
31196positivegrowth7
31196positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
15518anaerobe
31196anaerobe
69480anaerobe99.38

spore formation

@refspore formationconfidence
31196no
69481no100
69480no99.999

observation

  • @ref: 31196
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3119617234glucose+carbon source
3119617716lactose+carbon source
3119617306maltose+carbon source
3119637684mannose+carbon source
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838029985L-glutamate+degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

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

enzymes

@refvalueactivityec
31196acid phosphatase+3.1.3.2
31196alkaline phosphatase+3.1.3.1
31196alpha-galactosidase+3.2.1.22
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380alanine arylamidase+3.4.11.2
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
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
68380glutamate decarboxylase+4.1.1.15
68380N-acetyl-beta-glucosaminidase+3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380alpha-glucosidase+3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
15518--++-++/---+--++--+--++/---+/-++/----
15518--+/-+-++/---+-+/-++/---+--+----+----
15518--++-++--+--++/---+--+----+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15518human faecesTokyoJapanJPNAsia
67770Human feces

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_7180.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_530;96_3361;97_4125;98_5278;99_7180&stattab=map
  • Last taxonomy: Barnesiella intestinihominis subclade
  • 16S sequence: AB547647
  • Sequence Identity:
  • Total samples: 65981
  • soil counts: 278
  • aquatic counts: 1533
  • animal counts: 64067
  • plant counts: 103

Safety information

risk assessment

  • @ref: 15518
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Barnesiella intestinihominis gene for 16S ribosomal RNA, partial sequence, strain: JCM 15079AB5476471481ena487174
15518Barnesiella intestinihominis gene for 16S ribosomal RNA, partial sequenceAB3702511484ena742726

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Barnesiella intestinihominis YIT 11860742726.3wgspatric742726
66792Barnesiella intestinihominis YIT 118602529292932draftimg742726
67770Barnesiella intestinihominis YIT 11860GCA_000296465scaffoldncbi742726

GC content

@refGC-contentmethod
1551845.5
1551843.9sequence analysis
6777045.5high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.647yes
flagellatedno96.489yes
gram-positiveno97.794yes
anaerobicyes99.211yes
aerobicno98.478yes
halophileno85.896no
spore-formingno95.639yes
glucose-utilyes85.595yes
thermophileno97.959yes
glucose-fermentyes58.534no

External links

@ref: 15518

culture collection no.: DSM 21032, JCM 15079, YIT 11860

straininfo link

  • @ref: 81738
  • straininfo: 400531

literature

  • topic: Phylogeny
  • Pubmed-ID: 19060046
  • title: Dialister succinatiphilus sp. nov. and Barnesiella intestinihominis sp. nov., isolated from human faeces.
  • authors: Morotomi M, Nagai F, Sakon H, Tanaka R
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.2008/000810-0
  • year: 2008
  • mesh: Bacteroidetes/*classification/genetics/*physiology, Feces/*microbiology, Humans, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Species Specificity, Veillonellaceae/*classification/genetics/*physiology
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
15518Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21032)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21032
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
31196Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604127523
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
81738Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID400531.1StrainInfo: A central database for resolving microbial strain identifiers