Strain identifier

BacDive ID: 3910

Type strain: Yes

Species: Brachybacterium tyrofermentans

Strain history: CIP <- 1996, K. Schubert, Inst. für Genetik und Mikrobiol., Munich Univ., Munich, Germany <- J.P. Accolas

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

@ref: 4034

BacDive-ID: 3910

DSM-Number: 10673

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, coccus-shaped

description: Brachybacterium tyrofermentans CCUG 50353 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from cheese, surface of Beaufort.

NCBI tax id

NCBI tax idMatching level
47848species
1255639strain

strain history

@refhistory
4034<- K. Schubert <- CNRZ <- J.-P. Accolas
67770CCM 4521 <-- K. Schubert CNRZ 926 <-- J.-P. Accolas.
123703CIP <- 1996, K. Schubert, Inst. für Genetik und Mikrobiol., Munich Univ., Munich, Germany <- J.P. Accolas

doi: 10.13145/bacdive3910.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Dermabacteraceae
  • genus: Brachybacterium
  • species: Brachybacterium tyrofermentans
  • full scientific name: Brachybacterium tyrofermentans Schubert et al. 1996

@ref: 4034

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Dermabacteraceae

genus: Brachybacterium

species: Brachybacterium tyrofermentans

full scientific name: Brachybacterium tyrofermentans Schubert et al. 1996

type strain: yes

Morphology

cell morphology

  • @ref: 123703
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
18432Sand yellow (1002)10-14 daysISP 2
18432Sand yellow (1002)10-14 daysISP 3
18432Beige (1001)10-14 daysISP 4
18432Colorless10-14 daysISP 5
18432Sand yellow (1002)10-14 daysISP 6
18432Colorless10-14 daysISP 7
123703

multicellular morphology

@refforms multicellular complexmedium name
18432noISP 2
18432noISP 3
18432noISP 4
18432noISP 5
18432noISP 6
18432noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4034TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92; with strain-specific modifications) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Tween 80 1.0 g/l Distilled water
18432ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
18432ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
18432ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
18432ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
18432ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
18432ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
35740MEDIUM 149 - for Brachybacterium alimentarium and Brachybacterium tyrofermentansyesDistilled water make up to (1000.000 ml);Sodium chloride (5.000 g);Agar(15.000 g);Glucose (2.500 g);Yeast extract (5.000 g);Tween 80 (1.000 ml);Tryptone (17.000 g);Di Potassium monohydrogenophosphate (2.500 g);Trypto casein soy broth (3.000 g)
123703CIP Medium 149yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=149

culture temp

@refgrowthtypetemperaturerange
18432positiveoptimum28mesophilic
4034positivegrowth30mesophilic
35740positivegrowth30mesophilic
58851positivegrowth30mesophilic
67770positivegrowth28mesophilic
123703positivegrowth10-30
123703nogrowth37mesophilic
123703nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
58851aerobe
123703facultative anaerobe

halophily

  • @ref: 123703
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

murein

  • @ref: 4034
  • murein short key: A31.03
  • type: A4gamma m-Dpm-D-Asp-D-Glu; alpha-carboxyl group of D-Glu substituted by glycine

observation

  • @ref: 67770
  • observation: quinones: MK-7, MK-8

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371inulin-builds acid from15443
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371galactitol-builds acid from16813
68371L-sorbose-builds acid from17266
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
123703citrate-carbon source16947
123703esculin+hydrolysis4853
123703hippurate+hydrolysis606565
123703nitrate-reduction17632
123703nitrite-reduction16301
123703nitrate-respiration17632
68379nitrate-reduction17632
68379esculin+hydrolysis4853
68379urea+hydrolysis16199
68379gelatin-hydrolysis5291
68379D-glucose-fermentation17634
68379D-ribose-fermentation16988
68379D-xylose-fermentation65327
68379D-mannitol-fermentation16899
68379maltose-fermentation17306
68379lactose-fermentation17716
68379sucrose-fermentation17992
68379glycogen-fermentation28087

antibiotic resistance

  • @ref: 123703
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 123703
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12370315688acetoin-
12370317234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase+3.2.1.51
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
68379gelatinase-
68379urease+3.5.1.5
68379beta-glucosidase+3.2.1.21
68379N-acetyl-beta-glucosaminidase+3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase+3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase+3.4.19.3
68379pyrazinamidase-3.5.1.B15
123703oxidase-
123703beta-galactosidase+3.2.1.23
123703alcohol dehydrogenase-1.1.1.1
123703gelatinase+/-
123703amylase-
123703DNase+
123703caseinase+3.4.21.50
123703catalase+1.11.1.6
123703tween esterase-
123703gamma-glutamyltransferase-2.3.2.2
123703lecithinase-
123703lipase-
123703lysine decarboxylase-4.1.1.18
123703ornithine decarboxylase-4.1.1.17
123703phenylalanine ammonia-lyase-4.3.1.24
123703protease+
123703tryptophan deaminase-
123703urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18432--+--+++++---------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18432-++-++-----++-+++++
123703-+--+-----+++-+++-+-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123703+/-+/-+/-+/-+/-+/---+/-+/-+/-+/-+/--+/--+/-+/-+/----+/-+/-+/-+/-+/-+/-+/-+/-+/-+/--+/-+/---+/-+/-+/-+/---+/-+/-----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123703+-----------------+----+----+----------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic locationisolation date
4034cheese, surface of BeaufortFranceFRAEurope
58851Cheese,Gruyère and BeaufortFranceFRAEurope
67770Surface of Beaufort cheeseFranceFRAEurope
123703Food, Surface rind of Beaufort, GruyèreFranceFRAEuropeJura1978

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Food production
  • Cat3: #Dairy product

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
184321German classification
40341Risk group (German classification)
1237031Risk group (French classification)

Sequence information

16S sequences

  • @ref: 4034
  • description: B.tyrofermentans 16S ribosomal RNA gene
  • accession: X91657
  • length: 1512
  • database: ena
  • NCBI tax ID: 47848

Genome sequences

  • @ref: 66792
  • description: Brachybacterium tyrofermentans DSM 10673
  • accession: 2893692521
  • assembly level: draft
  • database: img
  • NCBI tax ID: 47848

GC content

  • @ref: 4034
  • GC-content: 73
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 4034

culture collection no.: CCUG 50353, CCM 4521, DSM 10673, CNRZ 926, JCM 11610, ATCC 700068, CIP 104812, IAM 14579, IFO 16119, LMG 19552, NBRC 16119, NCIMB 13430

straininfo link

  • @ref: 73420
  • straininfo: 14503

literature

  • topic: Phylogeny
  • Pubmed-ID: 21216918
  • title: Brachybacterium saurashtrense sp. nov., a halotolerant root-associated bacterium with plant growth-promoting potential.
  • authors: Gontia I, Kavita K, Schmid M, Hartmann A, Jha B
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.023176-0
  • year: 2011
  • mesh: Actinomycetales/*classification/genetics/*isolation & purification/metabolism, Base Composition, Chenopodiaceae/growth & development/*microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sodium Chloride/*metabolism
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitle
4034Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10673)https://www.dsmz.de/collection/catalogue/details/culture/DSM-10673
18432Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM10673.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
35740Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16762
58851Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 50353)https://www.ccug.se/strain?id=50353
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/
68371Automatically annotated from API 50CH acid
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
73420Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID14503.1StrainInfo: A central database for resolving microbial strain identifiers
123703Curators of the CIPCollection of Institut Pasteur (CIP 104812)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104812