Strain identifier

BacDive ID: 3909

Type strain: Yes

Species: Brachybacterium alimentarium

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

NCBI tax ID(s): 1255638 (strain), 47845 (species)

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General

@ref: 4033

BacDive-ID: 3909

DSM-Number: 10672

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

description: Brachybacterium alimentarium DSM 10672 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from cheese, surface of Gruyère.

NCBI tax id

NCBI tax idMatching level
1255638strain
47845species

strain history

@refhistory
4033<- K. Schubert <- CNRZ <- J.-P. Accolas
67770CCM 4520 <-- K. Schubert CNRZ 925 <-- J.-P. Accolas.
116235CIP <- 1996, K. Schubert, Institut für Genetik und Mikrobiologie, Munich Univ., Munich, Germany <- J.P. Accolas

doi: 10.13145/bacdive3909.20230509.8.1

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 alimentarium
  • full scientific name: Brachybacterium alimentarium Schubert et al. 1996

@ref: 4033

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Dermabacteraceae

genus: Brachybacterium

species: Brachybacterium alimentarium

full scientific name: Brachybacterium alimentarium Schubert et al. 1996

type strain: yes

Morphology

cell morphology

  • @ref: 116235
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
18431Beige (1001)10-14 daysISP 2
18431Beige (1001)10-14 daysISP 3
18431Beige (1001)10-14 daysISP 4
18431Beige (1001)10-14 daysISP 5
18431Beige (1001)10-14 daysISP 6
18431Beige (1001)10-14 daysISP 7
116235

multicellular morphology

@refforms multicellular complexmedium name
18431noISP 2
18431noISP 3
18431noISP 4
18431noISP 5
18431noISP 6
18431noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4033TRYPTICASE 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
18431ISP 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
18431ISP 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:
18431ISP 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
18431ISP 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
18431ISP 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
18431ISP 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
41316MEDIUM 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)
116235CIP Medium 149yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=149

culture temp

@refgrowthtypetemperaturerange
18431positiveoptimum28mesophilic
4033positivegrowth30mesophilic
41316positivegrowth30mesophilic
58849positivegrowth30mesophilic
67770positivegrowth28mesophilic
116235positivegrowth22-30
116235nogrowth10psychrophilic
116235nogrowth37mesophilic
116235nogrowth41thermophilic
116235nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
58849aerobe
116235obligate aerobe

halophily

  • @ref: 116235
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

murein

  • @ref: 4033
  • 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
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371inulin-builds acid from15443
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371methyl beta-D-xylopyranoside-builds acid from74863
68371L-xylose-builds acid from65328
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
116235citrate-carbon source16947
116235esculin+hydrolysis4853
116235hippurate-hydrolysis606565
116235nitrate+reduction17632
116235nitrite-reduction16301
116235nitrate-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: 116235
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 116235
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11623515688acetoin-
11623517234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase+3.2.1.51
68382alpha-mannosidase+3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-galactosidase+3.2.1.23
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
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
116235oxidase-
116235beta-galactosidase+3.2.1.23
116235alcohol dehydrogenase-1.1.1.1
116235gelatinase+/-
116235amylase-
116235DNase-
116235caseinase-3.4.21.50
116235catalase+1.11.1.6
116235tween esterase-
116235gamma-glutamyltransferase-2.3.2.2
116235lecithinase-
116235lipase-
116235lysine decarboxylase-4.1.1.18
116235ornithine decarboxylase-4.1.1.17
116235phenylalanine ammonia-lyase-4.3.1.24
116235protease+
116235tryptophan deaminase-
116235urease+3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18431--++-++-++-------+-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18431+++-++---+-++++++++
116235-++-+++-----+-+++++-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116235+/-+/----+/--+/--+/-+/-+/-+/----+/-+/-+/---+/-+/-+/-+/-+/-+/-+/-+/-+/-+/-+/--+/----+/-+/-+/-----+/-----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116235+++++-+++++++++++++-+++-+++++--+++++++--+---------+-+-+++--++--------------+--+---+---+---+-----+--

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic locationisolation date
4033cheese, surface of GruyèreFranceFRAEurope
58849Cheese,Gruyère and BeaufortFranceFRAEurope
67770Surface of Gruyère cheeseFranceFRAEurope
116235Food, Surface of Beaufort, GruyèreFranceFRAEuropeJura1978

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
184311German classification
40331Risk group (German classification)
1162351Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Brachybacterium alimentarium partial 16S rRNA gene, type strain CNRZ 925TAM412522174ena47845
4033B.alimentarium 16S ribosomal RNA geneX910311512ena47845

GC content

  • @ref: 4033
  • GC-content: 73
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 4033

culture collection no.: DSM 10672, CNRZ 925, CCUG 50349, CCM 4520, ATCC 700067, LMG 19551, CIP 104811, JCM 11607, IAM 14578, IFO 16118, NBRC 16118, NCIMB 13431

straininfo link

  • @ref: 73419
  • straininfo: 13202

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny14657129Brachybacterium muris sp. nov., isolated from the liver of a laboratory mouse strain.Buczolits S, Schumann P, Weidler G, Radax C, Busse HJInt J Syst Evol Microbiol10.1099/ijs.0.02728-02003Animals, Animals, Laboratory/microbiology, DNA, Ribosomal/genetics, Liver/*microbiology, Mice/*microbiology, Micrococcaceae/*classification/genetics/growth & development/isolation & purification, Molecular Sequence Data, Phenotype, *Phylogeny, Polymerase Chain Reaction, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny21216918Brachybacterium saurashtrense sp. nov., a halotolerant root-associated bacterium with plant growth-promoting potential.Gontia I, Kavita K, Schmid M, Hartmann A, Jha BInt J Syst Evol Microbiol10.1099/ijs.0.023176-02011Actinomycetales/*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/*metabolismMetabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4033Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10672)https://www.dsmz.de/collection/catalogue/details/culture/DSM-10672
18431Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM10672.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
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
41316Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16761
58849Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 50349)https://www.ccug.se/strain?id=50349
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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
73419Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13202.1StrainInfo: A central database for resolving microbial strain identifiers
116235Curators of the CIPCollection of Institut Pasteur (CIP 104811)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104811