Strain identifier

BacDive ID: 3914

Type strain: Yes

Species: Brachybacterium muris

Strain Designation: C3H-21, C3H 21-2

Strain history: CIP <- 2003, CCM <- H.J. Busse, Vienna Univ., Vienna, Austria <- S. Buczolits: strain C3H 21-2

NCBI tax ID(s): 219301 (species)

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General

@ref: 5937

BacDive-ID: 3914

DSM-Number: 15460

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

description: Brachybacterium muris C3H-21 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from liver of mice.

NCBI tax id

  • NCBI tax id: 219301
  • Matching level: species

strain history

@refhistory
5937<- H.-J. Busse; C3H-21 <- S. Buczolits
67770CCM 7047 <-- H.-J. Busse C3H-21 <-- S. Buczolits.
121199CIP <- 2003, CCM <- H.J. Busse, Vienna Univ., Vienna, Austria <- S. Buczolits: strain C3H 21-2

doi: 10.13145/bacdive3914.20230509.8.1

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 muris
  • full scientific name: Brachybacterium muris Buczolits et al. 2003

@ref: 5937

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Dermabacteraceae

genus: Brachybacterium

species: Brachybacterium muris

full scientific name: Brachybacterium muris Buczolits et al. 2003

strain designation: C3H-21, C3H 21-2

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
121199positivecoccus-shapedno

colony morphology

  • @ref: 121199

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5937TRYPTICASE 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
5937COLUMBIA 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
33912MEDIUM 328- for nutrient agaryesDistilled water make up to (1000.000 ml);Agar (15.000 g);Peptone (5.000g);Beef extract (3.000 g)
121199CIP Medium 328yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=328

culture temp

@refgrowthtypetemperaturerange
5937positivegrowth28mesophilic
33912positivegrowth37mesophilic
67770positivegrowth37mesophilic
121199positivegrowth25-37mesophilic
121199nogrowth10psychrophilic
121199nogrowth41thermophilic
121199nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 121199
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.933

halophily

@refsaltgrowthtested relationconcentration
121199NaClpositivegrowth0-6 %
121199NaClnogrowth8 %
121199NaClnogrowth10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12119916947citrate-carbon source
1211994853esculin+hydrolysis
121199606565hippurate-hydrolysis
12119917632nitrate-reduction
12119916301nitrite-reduction
12119917632nitrate-respiration

antibiotic resistance

  • @ref: 121199
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 121199
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12119915688acetoin-
12119917234glucose-

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-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
121199oxidase-
121199beta-galactosidase-3.2.1.23
121199alcohol dehydrogenase-1.1.1.1
121199gelatinase+/-
121199amylase+
121199DNase-
121199caseinase-3.4.21.50
121199catalase+1.11.1.6
121199tween esterase-
121199gamma-glutamyltransferase-2.3.2.2
121199lecithinase-
121199lipase-
121199lysine decarboxylase-4.1.1.18
121199ornithine decarboxylase-4.1.1.17
121199phenylalanine ammonia-lyase-4.3.1.24
121199tryptophan deaminase-
121199urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121199--++-+--+----+--+++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
5937liver of miceViennaAustriaAUTEurope
67770Liver of a laboratory mouse strain
121199Animal, Mouse, liverViennaAustriaAUTEurope2000

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Muridae (Mouse/Rat)
#Host Body-Site#Organ#Liver

taxonmaps

  • @ref: 69479
  • File name: preview.99_3507.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_1217;97_2190;98_2688;99_3507&stattab=map
  • Last taxonomy: Brachybacterium muris subclade
  • 16S sequence: AJ537574
  • Sequence Identity:
  • Total samples: 7251
  • soil counts: 300
  • aquatic counts: 730
  • animal counts: 6075
  • plant counts: 146

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
59371Risk group (German classification)
1211991Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5937
  • description: Brachybacterium sp. C3H-21 partial 16S rRNA gene, strain C3H-21
  • accession: AJ537574
  • length: 1429
  • database: ena
  • NCBI tax ID: 219301

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Brachybacterium muris DSM 15460GCA_016907455contigncbi219301
66792Brachybacterium muris strain DSM 15460219301.5wgspatric219301
66792Brachybacterium muris DSM 154602893575648draftimg219301

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno85no
motileno94.232no
gram-positiveyes92.251no
anaerobicno99.124no
aerobicyes82.34no
halophileno61.286no
spore-formingno93.962no
glucose-utilyes88.857no
flagellatedno97.884no
thermophileno98.575yes
glucose-fermentno71.579no

External links

@ref: 5937

culture collection no.: DSM 15460, CCM 7047, JCM 14117, CCUG 50159, CCUG 50352, CIP 108210, DSM 14560

straininfo link

  • @ref: 73424
  • straininfo: 127984

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
Phylogeny17978239Brachybacterium phenoliresistens sp. nov., isolated from oil-contaminated coastal sand.Chou JH, Lin KY, Lin MC, Sheu SY, Wei YH, Arun AB, Young CC, Chen WMInt J Syst Evol Microbiol10.1099/ijs.0.65019-02007Actinomycetales/chemistry/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Genotype, Geologic Sediments/*microbiology, Molecular Sequence Data, *Petroleum, Phenols/pharmacology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Pollutants, Species Specificity, TaiwanGenetics
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
Genetics23516213Draft genome sequence of an Actinobacterium, Brachybacterium muris strain UCD-AY4.Lo JR, Lang JM, Darling AE, Eisen JA, Coil DAGenome Announc10.1128/genomeA.00086-132013

Reference

@idauthorscataloguedoi/urltitle
5937Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15460)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15460
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
33912Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5808
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/
68382Automatically annotated from API zym
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
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)
73424Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID127984.1StrainInfo: A central database for resolving microbial strain identifiers
121199Curators of the CIPCollection of Institut Pasteur (CIP 108210)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108210