Strain identifier

BacDive ID: 131249

Type strain: Yes

Species: Bacteroides stercorirosoris

Strain Designation: ST161

Strain history: M. Kitahara ST161.

NCBI tax ID(s): 1236514 (strain), 871324 (species)

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General

@ref: 22477

BacDive-ID: 131249

DSM-Number: 26884

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

description: Bacteroides stercorirosoris ST161 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from faeces of Chinchilla lanigera.

NCBI tax id

NCBI tax idMatching level
1236514strain
871324species

strain history

@refhistory
22477<- JCM <- M. Kitahara, RIKEN, Wako, Saitama, Japan; ST161
67770M. Kitahara ST161.

doi: 10.13145/bacdive131249.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Bacteroidaceae
  • genus: Bacteroides
  • species: Bacteroides stercorirosoris
  • full scientific name: Bacteroides stercorirosoris Kitahara et al. 2012

@ref: 22477

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Bacteroidaceae

genus: Bacteroides

species: Bacteroides stercorirosoris

full scientific name: Bacteroides stercorirosoris Kitahara et al. 2012

strain designation: ST161

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30294negative8.5 µm1.2 µmrod-shapedno
69480no93.101
69480negative99.995

colony morphology

@refincubation period
224771-2 days
624721 day

pigmentation

  • @ref: 30294
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22477CHOPPED MEAT MEDIUM (DSMZ Medium 78)yeshttps://mediadive.dsmz.de/medium/78Name: 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
22477COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

@refgrowthtypetemperaturerange
22477positivegrowth37mesophilic
30294positiveoptimum37mesophilic
62472positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
22477anaerobe
30294anaerobe
62472anaerobe
69480anaerobe99.734

spore formation

@refspore formationconfidence
30294no
69481no100
69480no99.976

observation

  • @ref: 67770
  • observation: quinones: MK-10, MK-11

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3029422599arabinose+carbon source
3029417057cellobiose+carbon source
3029417234glucose+carbon source
3029417716lactose+carbon source
3029417306maltose+carbon source
3029437684mannose+carbon source
3029416634raffinose+carbon source
3029426546rhamnose+carbon source
3029417992sucrose+carbon source
3029418222xylose+carbon source
302944853esculin+hydrolysis
6836727082trehalose-builds acid from
6836730911sorbitol-builds acid from
6836716634raffinose+builds acid from
683676731melezitose-builds acid from
6836716024D-mannose+builds acid from
6836717754glycerol-builds acid from
683674853esculin+hydrolysis
683675291gelatin+hydrolysis
6836730849L-arabinose+builds acid from
6836765327D-xylose+builds acid from
6836717814salicin+builds acid from
6836717306maltose+builds acid from
6836717992sucrose+builds acid from
6836717716lactose+builds acid from
6836716899D-mannitol-builds acid from
6836717634D-glucose+builds acid from
6836716199urea-hydrolysis
6836727897tryptophan-energy source
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose+fermentation
6838016634raffinose+fermentation
6838029985L-glutamate+degradation
6838017632nitrate-reduction
6838027897tryptophan+energy source

metabolite production

@refChebi-IDmetaboliteproduction
3029435581indoleyes
6836735581indoleno
6838035581indoleyes

metabolite tests

@refChebi-IDmetaboliteindole test
3029435581indole+
6838035581indole+
6836735581indole-

enzymes

@refvalueactivityec
30294alkaline phosphatase+3.1.3.1
30294alpha-galactosidase+3.2.1.22
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-arabinosidase+3.2.1.55
68380beta-glucosidase+3.2.1.21
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase+3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5
68367beta-glucosidase+3.2.1.21
68367gelatinase+
68367urease-3.5.1.5

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRE
22477--+-++++++++-+/-+-+-+/--

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
22477--++-+/-++-++++--++--+----+--+-

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentgeographic location
22477faeces of Chinchilla lanigeraChinchilla lanigeraJapanJPNAsia
62472Chinchilla feces,healthy (Chinchilla lanigera)JapanJPNAsiaMusashino
67770Feces of a chinchilla

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Rodentia (Other)
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_7286.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_21;96_1274;97_2457;98_5345;99_7286&stattab=map
  • Last taxonomy: Bacteroides stercorirosoris
  • 16S sequence: AB574481
  • Sequence Identity:
  • Total samples: 20805
  • soil counts: 101
  • aquatic counts: 254
  • animal counts: 20384
  • plant counts: 66

Safety information

risk assessment

  • @ref: 22477
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22477
  • description: Bacteroides stercorirosoris gene for 16S rRNA, partial sequence
  • accession: AB574481
  • length: 1484
  • database: ena
  • NCBI tax ID: 1236514

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacteroides stercorirosoris JCM 171031236514.3wgspatric1236514
66792Bacteroides stercorirosoris strain DSM 26884871324.4wgspatric871324
66792Bacteroides stercorirosoris JCM 171032585427867draftimg1236514
66792Bacteroides stercorirosoris DSM 268842700988705draftimg871324
67770Bacteroides stercorirosoris JCM 17103GCA_000614165contigncbi1236514
67770Bacteroides stercorirosoris DSM 26884GCA_900142015contigncbi871324

GC content

@refGC-contentmethod
2247745.7high performance liquid chromatography (HPLC)
3029445.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.851yes
gram-positiveno96.695yes
anaerobicyes94.392no
aerobicno96.365yes
halophileno90.689no
spore-formingno92.232no
glucose-utilyes89.387no
flagellatedno97.516yes
thermophileno99.427no
glucose-fermentyes71.919no

External links

@ref: 22477

culture collection no.: DSM 26884, CCUG 60872, JCM 17103

straininfo link

  • @ref: 89694
  • straininfo: 398255

literature

  • topic: Phylogeny
  • Pubmed-ID: 21724955
  • title: Bacteroides stercorirosoris sp. nov. and Bacteroides faecichinchillae sp. nov., isolated from chinchilla (Chinchilla lanigera) faeces.
  • authors: Kitahara M, Sakamoto M, Tsuchida S, Kawasumi K, Amao H, Benno Y, Ohkuma M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.032706-0
  • year: 2011
  • mesh: Aerobiosis, Animals, Bacterial Typing Techniques, Bacteroides/*classification/genetics/*isolation & purification/physiology, Chinchilla/*microbiology, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Feces/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
22477Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26884Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26884)
30294Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172663528776041
62472Curators of the CCUGhttps://www.ccug.se/strain?id=60872Culture Collection University of Gothenburg (CCUG) (CCUG 60872)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68367Automatically annotated from API 20A
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
89694Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID398255.1