Strain identifier

BacDive ID: 23298

Type strain: Yes

Species: Streptococcus danieliae

Strain Designation: ERD01G

Strain history: <- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; ERD01G

NCBI tax ID(s): 747656 (species)

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General

@ref: 19213

BacDive-ID: 23298

DSM-Number: 22233

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

description: Streptococcus danieliae ERD01G is a microaerophile, mesophilic bacterium that was isolated from cecal content of a male TNFdelta ARE mouse.

NCBI tax id

  • NCBI tax id: 747656
  • Matching level: species

strain history

  • @ref: 19213
  • history: <- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; ERD01G

doi: 10.13145/bacdive23298.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Streptococcaceae
  • genus: Streptococcus
  • species: Streptococcus danieliae
  • full scientific name: Streptococcus danieliae Clavel et al. 2013

@ref: 19213

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Streptococcaceae

genus: Streptococcus

species: Streptococcus danieliae

full scientific name: Streptococcus danieliae Clavel et al. 2013

strain designation: ERD01G

type strain: yes

Morphology

cell morphology

  • @ref: 125438
  • motility: no
  • confidence: 93

colony morphology

@refincubation periodtype of hemolysishemolysis ability
192133-7 days
614041 day
68370beta1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
19213TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
19213COLUMBIA 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

@refgrowthtypetemperature
19213positivegrowth37
61404positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
19213microaerophile
61404microaerophile

spore formation

  • @ref: 125438
  • spore formation: no
  • confidence: 90.941

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838116199urea-hydrolysis
6838116443D-tagatose-builds acid from
68381320055methyl beta-D-glucopyranoside-builds acid from
6838128053melibiose-builds acid from
6838128087glycogen-builds acid from
6838140585alpha-cyclodextrin-builds acid from
68381606565hippurate-hydrolysis
6838118333D-arabitol-builds acid from
6838130849L-arabinose-builds acid from
6838116634raffinose-builds acid from
6838127082trehalose+builds acid from
6838117716lactose-builds acid from
6838130911sorbitol-builds acid from
6838116899D-mannitol-builds acid from
6838116988D-ribose-builds acid from
6838129016arginine-hydrolysis
683816731melezitose-builds acid from
6837028087glycogen-builds acid from
6837028017starch-builds acid from
6837016634raffinose-builds acid from
6837015443inulin-builds acid from
6837027082trehalose-builds acid from
6837017716lactose-builds acid from
6837017924D-sorbitol-builds acid from
6837016899D-mannitol-builds acid from
6837030849L-arabinose-builds acid from
6837016988D-ribose-builds acid from
6837029016arginine-hydrolysis
683704853esculin-hydrolysis
68370606565hippurate-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6838115688acetoinno
6837015688acetoinno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6838115688acetoin-
6837015688acetoin-

enzymes

@refvalueactivityec
68381beta-mannosidase-3.2.1.25
68381urease-3.5.1.5
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381beta-galactosidase-3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase-
68381alkaline phosphatase-3.1.3.1
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase-3.2.1.31
68381arginine dihydrolase-3.5.3.6
68370arginine dihydrolase-3.5.3.6
68370leucine arylamidase+3.4.11.1
68370alkaline phosphatase+3.1.3.1
68381pyrrolidonyl arylamidase-3.4.19.3
68381beta-glucosidase-3.2.1.21
68370beta-galactosidase-3.2.1.23
68370beta-glucuronidase-3.2.1.31
68370alpha-galactosidase-3.2.1.22
68370pyrrolidonyl arylamidase-3.4.19.3
68370beta-glucosidase-3.2.1.21

API 20STR

@refVPHIPESCPYRAalpha GALbeta GURbeta GALPALLAPADHRIBARAMANSORLACTREINURAFAMDGLYGbeta HEM
19213-------++-----------+

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
19213----------+---------------------
19213----------+-+--------+--+/-+------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling dategeographic location
19213cecal content of a male TNFdelta ARE mouseGermanyDEUEurope
61404Mouse caecum,male TNFdeltaAREGermanyDEUEurope2008-10-27Freising-Weihenstephan

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Muridae (Mouse/Rat)
#Host Body Product#Gastrointestinal tract#Caecal content

taxonmaps

  • @ref: 69479
  • File name: preview.99_14158.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_4;96_7276;97_8724;98_10694;99_14158&stattab=map
  • Last taxonomy: Streptococcus
  • 16S sequence: GQ456229
  • Sequence Identity:
  • Total samples: 32893
  • soil counts: 358
  • aquatic counts: 392
  • animal counts: 32049
  • plant counts: 94

Safety information

risk assessment

  • @ref: 19213
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 19213
  • description: Streptococcus danieliae strain ERD01G 16S ribosomal RNA gene, partial sequence
  • accession: GQ456229
  • length: 1419
  • database: nuccore
  • NCBI tax ID: 747656

Genome sequences

  • @ref: 66792
  • description: Streptococcus danieliae DSM 22233
  • accession: GCA_025447695
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 747656

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes87.906no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no88.971no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no97.623yes
125438spore-formingspore-formingAbility to form endo- or exosporesno90.941no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno96.6yes
125438motile2+flagellatedAbility to perform flagellated movementno93no

External links

@ref: 19213

culture collection no.: DSM 22233, CCUG 57647

straininfo link

  • @ref: 87517
  • straininfo: 402639

literature

  • topic: Phylogeny
  • Pubmed-ID: 23052149
  • title: Streptococcus danieliae sp. nov., a novel bacterium isolated from the caecum of a mouse.
  • authors: Clavel T, Charrier C, Haller D
  • journal: Arch Microbiol
  • DOI: 10.1007/s00203-012-0846-6
  • year: 2012
  • mesh: Animals, Base Sequence, Cecum/*microbiology, DNA, Bacterial/genetics, Genotype, Male, Mice, Mice, Inbred C57BL, Microscopy, Phase-Contrast, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Species Specificity, Streptococcus/*classification/cytology/genetics/isolation & purification, Urease/genetics, alpha-Galactosidase/genetics
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
19213Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22233)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22233
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
61404Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 57647)https://www.ccug.se/strain?id=57647
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)
68370Automatically annotated from API 20STR
68381Automatically annotated from API rID32STR
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
87517Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID402639.1StrainInfo: A central database for resolving microbial strain identifiers
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets