Strain identifier

BacDive ID: 2748

Type strain: Yes

Species: Clostridium scindens

Strain Designation: 19

Culture col. no.: CCUG 45363, JCM 6567, CIP 106687, DSM 5676, ATCC 35704, VPI 13733

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General

@ref: 2276

BacDive-ID: 2748

DSM-Number: 5676

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

description: Clostridium scindens 19 is an anaerobe, mesophilic bacterium that was isolated from human faeces.

strain history: <- ATCC <- L.V. Holdeman, VPI 13733 <- V. Bokkenheuser, 19

doi: 10.13145/bacdive2748.20201210.5

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/firmicutes
  • domain: Bacteria
  • phylum: Firmicutes
  • class: Clostridia
  • order: Eubacteriales
  • family: Clostridiaceae
  • genus: Clostridium
  • species: Clostridium scindens
  • full scientific name: Clostridium scindens Morris et al. 1985

@ref: 2276

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Clostridium

species: Clostridium scindens

full scientific name: Clostridium scindens Morris et al. 1985

strain designation: 19

type strain: yes

Morphology

colony morphology

  • @ref: 56742
  • incubation period: 2 days

Culture and growth conditions

culture medium

@refnamegrowthlink
2276WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339), with strain-specific modifications, anaerobicyeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium339.pdf
2276CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110), anaerobicyeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium110.pdf

culture temp

@refgrowthtypetemperaturerange
2276positivegrowth35mesophilic
56742positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
2276anaerobe
56742anaerobe

compound production

@refcompound
227620-alpha hydroxysteroid dehydrogenase
2276steroid desmolase
22767-ß dehydrogenase
22767-alpha dehydroxylase

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
2276human faecesUSAUSANorth America
56742Human fecesUSAUSANorth AmericaNew York

isolation source categories

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

Safety information

risk assessment

  • @ref: 2276
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Moellerella wisconsensis 16S rRNA gene, type strain DSM 5676TAM0407541482ena158849
20218Clostridium scindens 16S rRNA gene, partial, strain DSM 5676Y181861490ena29347
20218Clostridium scindens 16S rRNA, partial sequence, strain:JCM 6567AB0208831453ena29347
20218Clostridium scindens gene for 16S ribosomal RNA, partial sequenceAB9107471496ena29347
2276Clostridium scindens 16S ribosomal RNA gene, partial sequenceAF2622381529ena29347

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792[Clostridium] scindens ATCC 35704GCA_004295125completencbi411468
66792[Clostridium] scindens BL389WT3DGCA_009684695completencbi29347
66792[Clostridium] scindens ATCC 35704GCA_000154505scaffoldncbi411468
66792[Clostridium] scindens MSK.5.24GCA_013304085contigncbi29347
66792[Clostridium] scindens MGYG-HGUT-01303GCA_902373645scaffoldncbi29347
66792[Clostridium] scindens MSK.1.26GCA_013304105contigncbi29347
66792[Clostridium] scindens MSK.1.16GCA_013304115contigncbi29347
66792[Clostridium] scindens BL-389-WT-3DGCA_009696415contigncbi29347
66792[Clostridium] scindens W0P25.025GCA_004558675contigncbi29347
66792Clostridium scindens ATCC 35704411468.9wgspatric411468
66792[Clostridium] scindens ATCC 35704411468.41completepatric411468
66792[Clostridium] scindens strain BL-389-WT-3D29347.24wgspatric29347
66792[Clostridium] scindens strain BL389WT3D29347.25completepatric29347
66792[Clostridium] scindens strain MGYG-HGUT-0130329347.22wgspatric29347
66792[Clostridium] scindens strain W0P25.02529347.20wgspatric29347

GC content

  • @ref: 2276
  • GC-content: 45.0

External links

@ref: 2276

culture collection no.: CCUG 45363, JCM 6567, CIP 106687, DSM 5676, ATCC 35704, VPI 13733

straininfo link

@refpassport
20218http://www.straininfo.net/strains/159364
20218http://www.straininfo.net/strains/111093

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2276Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5676)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5676
20215D.Gleim, M.Kracht, N.Weiss et. al.http://www.dsmz.de/bacterial-diversity/prokaryotic-nomenclature-up-to-date.htmlProkaryotic Nomenclature Up-to-date - compilation of all names of Bacteria and Archaea, validly published according to the Bacteriological Code since 1. Jan. 1980, and validly published nomenclatural changes since
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
56742Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 45363)https://www.ccug.se/strain?id=45363
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)