Strain identifier

BacDive ID: 17829

Type strain: Yes

Species: Sutterella parvirubra

Strain history: H. Sakon YIT 11816 <-- H. Sakon and T. Nagai S7.

NCBI tax ID(s): 762967 (strain), 437898 (species)

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General

@ref: 8068

BacDive-ID: 17829

DSM-Number: 19354

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

description: Sutterella parvirubra DSM 19354 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human faeces .

NCBI tax id

NCBI tax idMatching level
437898species
762967strain

strain history

@refhistory
8068<- H. Sakon {2007}
67770H. Sakon YIT 11816 <-- H. Sakon and T. Nagai S7.

doi: 10.13145/bacdive17829.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Sutterellaceae
  • genus: Sutterella
  • species: Sutterella parvirubra
  • full scientific name: Sutterella parvirubra Sakon et al. 2008

@ref: 8068

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Sutterellaceae

genus: Sutterella

species: Sutterella parvirubra

full scientific name: Sutterella parvirubra Sakon et al. 2008

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32412negative1.2 µm0.7 µmovoid-shapedno
69480negative99.998

colony morphology

  • @ref: 8068
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

  • @ref: 8068
  • name: FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1203
  • composition: Name: FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) Composition: Horse blood 100.0 g/l Fastidious Anaerobe Agar 45.7 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
8068positivegrowth37mesophilic
61199positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8068anaerobe
32412anaerobe
61199anaerobe
69480anaerobe98.955

spore formation

@refspore formationconfidence
32412no
69481no100
69480no99.998

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
8068human faeces (healthy adult)JapanJPNAsia
61199Human fecesJapanJPNAsia
67770Human feces

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_94057.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_173;96_38674;97_49238;98_64678;99_94057&stattab=map
  • Last taxonomy: Sutterella parvirubra subclade
  • 16S sequence: AB300989
  • Sequence Identity:
  • Total samples: 23754
  • soil counts: 236
  • aquatic counts: 474
  • animal counts: 23004
  • plant counts: 40

Safety information

risk assessment

  • @ref: 8068
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 8068
  • description: Sutterella parvirubra gene for 16S ribosomal RNA, partial sequence, strain: YIT 11816 (= JCM 14724, = DSM 19354)
  • accession: AB300989
  • length: 1489
  • database: ena
  • NCBI tax ID: 762967

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Sutterella parvirubra YIT 11816GCA_000250875scaffoldncbi762967
66792Sutterella parvirubra YIT 11816762967.3wgspatric762967
66792Sutterella parvirubra YIT 118162513237371draftimg762967

GC content

@refGC-contentmethod
3241264.4
6777064.4high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno90.656yes
flagellatedno95.622yes
gram-positiveno97.944no
anaerobicyes98.073no
aerobicno96.178no
halophileno76.898no
spore-formingno97.726yes
glucose-utilno69.06no
glucose-fermentno77.536no
thermophileno98.396yes

External links

@ref: 8068

culture collection no.: DSM 19354, JCM 14724, CCUG 57110, YIT 11816, KCTC 15665

straininfo link

  • @ref: 86820
  • straininfo: 343820

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18398204Sutterella parvirubra sp. nov. and Megamonas funiformis sp. nov., isolated from human faeces.Sakon H, Nagai F, Morotomi M, Tanaka RInt J Syst Evol Microbiol10.1099/ijs.0.65456-02008Alcaligenaceae/*classification/genetics/*isolation & purification/metabolism, Base Sequence, DNA Primers/genetics, DNA, Bacterial/genetics, Feces/microbiology, Genes, Bacterial, Humans, Microscopy, Electron, Scanning, Microscopy, Electron, Transmission, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Species Specificity, Terminology as Topic, Veillonellaceae/*classification/genetics/*isolation & purification/metabolismEnzymology
Phylogeny30394865Mesosutterella multiformis gen. nov., sp. nov., a member of the family Sutterellaceae and Sutterella megalosphaeroides sp. nov., isolated from human faeces.Sakamoto M, Ikeyama N, Kunihiro T, Iino T, Yuki M, Ohkuma MInt J Syst Evol Microbiol10.1099/ijsem.0.0030962018Alcaligenaceae/classification, Bacterial Typing Techniques, Base Composition, Burkholderiales/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/*microbiology, Female, Humans, Japan, Male, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryPathogenicity

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
8068Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19354)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19354
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
32412Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2863628776041
61199Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 57110)https://www.ccug.se/strain?id=57110
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/
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
86820Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID343820.1StrainInfo: A central database for resolving microbial strain identifiers