Strain identifier

BacDive ID: 155796

Type strain: No

Species: Phocaeicola sartorii

Strain history: M. Kitahara ST170.

NCBI tax ID(s): 671267 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 8.1 (current version)

General

@ref: 61918

BacDive-ID: 155796

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

description: Phocaeicola sartorii CCUG 59335 is an anaerobe, mesophilic bacterium that was isolated from Chinchilla feces .

NCBI tax id

  • NCBI tax id: 671267
  • Matching level: species

strain history

  • @ref: 67770
  • history: M. Kitahara ST170.

doi: 10.13145/bacdive155796.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Bacteroidaceae
  • genus: Phocaeicola
  • species: Phocaeicola sartorii
  • full scientific name: Phocaeicola sartorii (Clavel et al. 2010) García-López et al. 2020
  • synonyms

    @refsynonym
    20215Bacteroides chinchillae
    20215Phocaeicola chinchillae
    20215Bacteroides sartorii

@ref: 61918

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Bacteroidaceae

genus: Bacteroides

species: Bacteroides sartorii

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no90.096
6948099.996negative

colony morphology

  • @ref: 61918
  • incubation period: 2 days

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
61918positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
61918anaerobe
69480anaerobe99.578

spore formation

@refspore formationconfidence
69480no99.998
69481no100

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
61918Chinchilla feces (Chinchilla lanigera)JapanJPNAsia
67770Chinchilla feces

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_7372.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_21;96_3450;97_4233;98_5406;99_7372&stattab=map
  • Last taxonomy: Phocaeicola sartorii subclade
  • 16S sequence: AB531490
  • Sequence Identity:
  • Total samples: 121989
  • soil counts: 1570
  • aquatic counts: 3072
  • animal counts: 116898
  • plant counts: 449

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
67770Bacteroides chinchillae gene for 16S rRNA, partial sequence, strain: JCM 16497AB5314901490ena1236538
67770Bacteroides chinchillae gene for 16S ribosomal RNA, partial sequenceAB5476361490ena1236538

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacteroides sartorii JCM 164971236538.3wgspatric1236538
66792Bacteroides sartorii JCM 164972565956596draftimg1236538
67770Phocaeicola sartorii JCM 16497GCA_000615645contigncbi1236538

GC content

@refGC-contentmethod
6777045.2high performance liquid chromatography (HPLC)
6777044.1high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.744no
gram-positiveno96.997no
anaerobicyes97.953yes
aerobicno97.274no
halophileno87.477no
spore-formingno95.088no
thermophileno99.296no
glucose-utilyes88.471no
flagellatedno96.738no
glucose-fermentyes77.016no

External links

@ref: 61918

culture collection no.: CCUG 59335, JCM 16497

straininfo link

  • @ref: 109171
  • straininfo: 411010

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20495039Bacteroides chinchillae sp. nov. and Bacteroides rodentium sp. nov., isolated from chinchilla (Chinchilla lanigera) faeces.Kitahara M, Tsuchida S, Kawasumi K, Amao H, Sakamoto M, Benno Y, Ohkuma MInt J Syst Evol Microbiol10.1099/ijs.0.024026-02010Anaerobiosis, Animals, Bacterial Typing Techniques, Bacteroides/*classification/genetics/*isolation & purification/physiology, Base Composition, 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, DNAGenetics
Phylogeny21764984Bacteroides sartorii is an earlier heterotypic synonym of Bacteroides chinchillae and has priority.Sakamoto M, Ohkuma MInt J Syst Evol Microbiol10.1099/ijs.0.035659-02011Bacterial Proteins/genetics, Bacteroides/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsMetabolism

Reference

@idauthorstitledoi/urlcatalogue
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
61918Curators of the CCUGhttps://www.ccug.se/strain?id=59335Culture Collection University of Gothenburg (CCUG) (CCUG 59335)
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/
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
109171Reimer, 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-ID411010.1