Strain identifier

BacDive ID: 1390

Type strain: Yes

Species: Saccharococcus thermophilus

Strain Designation: 657

Strain history: <- CCM <- R. Nystrand; 657

NCBI tax ID(s): 29396 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 1752

BacDive-ID: 1390

DSM-Number: 4749

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, thermophilic, motile

description: Saccharococcus thermophilus 657 is a spore-forming, thermophilic, motile bacterium that was isolated from beet sugar extraction.

NCBI tax id

  • NCBI tax id: 29396
  • Matching level: species

strain history

  • @ref: 1752
  • history: <- CCM <- R. Nystrand; 657

doi: 10.13145/bacdive1390.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Saccharococcus
  • species: Saccharococcus thermophilus
  • full scientific name: Saccharococcus thermophilus Nystrand 1984

@ref: 1752

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Saccharococcus

species: Saccharococcus thermophilus

full scientific name: Saccharococcus thermophilus Nystrand 1984

strain designation: 657

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes94.662
69480100positive

Culture and growth conditions

culture medium

  • @ref: 1752
  • name: TS AGAR (DSMZ Medium 893)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/893
  • composition: Name: TS AGAR (DSMZ Medium 893) Composition: Agar 15.0 g/l Sucrose 5.0 g/l Tryptone 5.0 g/l Beef extract 3.0 g/l Glucose 1.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerangeconfidence
1752positivegrowth50thermophilic
69480thermophilic99.243

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes99.556

murein

  • @ref: 1752
  • murein short key: A31
  • type: A1gamma m-Dpm-direct

Isolation, sampling and environmental information

isolation

  • @ref: 1752
  • sample type: beet sugar extraction
  • country: Sweden
  • origin.country: SWE
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Food
#Engineered#Industrial#Industrial production

Safety information

risk assessment

  • @ref: 1752
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Saccharococcus thermophilus 16S ribosomal RNAL092271538ena29396
20218S.thermophilus gene for 16S ribosomal RNAX704301538ena29396

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Saccharococcus thermophilus DSM 4749GCA_011761475contigncbi29396
66792Saccharococcus thermophilus strain DSM 474929396.3wgspatric29396
66792Saccharococcus thermophilus DSM 47492824486690draftimg29396

GC content

  • @ref: 1752
  • GC-content: 47.8
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes86.261no
anaerobicno97.935no
halophileno93.655no
spore-formingyes95.03no
glucose-utilyes87.642no
motileyes85.857no
flagellatedyes71.055no
aerobicyes88.009no
thermophileyes99.998yes
glucose-fermentno93.539no

External links

@ref: 1752

culture collection no.: DSM 4749, ATCC 43125, CCM 3586

straininfo link

  • @ref: 71041
  • straininfo: 41663

literature

  • topic: Phylogeny
  • Pubmed-ID: 29931494
  • title: Anoxybacillus sediminis sp. nov., a novel moderately thermophilic bacterium isolated from a hot spring.
  • authors: Khan IU, Habib N, Xiao M, Devi AM, Habib M, Hejazi MS, Salam N, Zhi XY, Li WJ
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1007/s10482-018-1118-5
  • year: 2018
  • mesh: Anoxybacillus/classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Geologic Sediments/chemistry/*microbiology, Hot Springs/chemistry/*microbiology, Hot Temperature, Phylogeny, RNA, Ribosomal, 16S/genetics, Tibet
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1752Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4749)https://www.dsmz.de/collection/catalogue/details/culture/DSM-4749
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
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)
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
71041Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID41663.1StrainInfo: A central database for resolving microbial strain identifiers