Strain identifier

BacDive ID: 1838

Type strain: Yes

Species: Brevibacterium epidermidis

Strain Designation: C705

Strain history: CIP <- 1986, DSM <- NCDO <- 1980, M.D. Collins: strain C705

NCBI tax ID(s): 1349751 (strain), 1698 (species)

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General

@ref: 8880

BacDive-ID: 1838

DSM-Number: 20660

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

description: Brevibacterium epidermidis C705 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from human skin.

NCBI tax id

NCBI tax idMatching level
1698species
1349751strain

strain history

@refhistory
8880<- NCDO <- D.G. Pitcher
67770NCDO 2286 <-- D. G. Pitcher P159.
119090CIP <- 1986, DSM <- NCDO <- 1980, M.D. Collins: strain C705

doi: 10.13145/bacdive1838.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Brevibacteriaceae
  • genus: Brevibacterium
  • species: Brevibacterium epidermidis
  • full scientific name: Brevibacterium epidermidis Collins et al. 1983

@ref: 8880

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Brevibacteriaceae

genus: Brevibacterium

species: Brevibacterium epidermidis

full scientific name: Brevibacterium epidermidis Collins et al. 1983 emend. Nouioui et al. 2018

strain designation: C705

type strain: yes

Morphology

cell morphology

  • @ref: 119090
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
18768Oyster white10-14 daysISP 2
18768Oyster white10-14 daysISP 3
18768Oyster white10-14 daysISP 4
18768Oyster white10-14 daysISP 5
18768Ivory10-14 daysISP 6
119090

multicellular morphology

@refforms multicellular complexmedium name
18768noISP 2
18768noISP 3
18768noISP 4
18768noISP 5
18768noISP 6

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
18768ISP 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
18768ISP 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:
18768ISP 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
18768ISP 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
18768ISP 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
8880CORYNEBACTERIUM AGAR (DSMZ Medium 53)yesName: CORYNEBACTERIUM AGAR (DSMZ Medium 53) Composition: Agar 15.0 g/l Casein peptone 10.0 g/l NaCl 5.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/53
40309MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
119090CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
18768positiveoptimum28mesophilic
8880positivegrowth30mesophilic
40309positivegrowth30mesophilic
67770positivegrowth30mesophilic
119090positivegrowth10-37
119090nogrowth41thermophilic
119090nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119090
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
18768NaClpositivemaximum7.5 %
119090NaClpositivegrowth0-10 %

murein

  • @ref: 8880
  • murein short key: A31
  • type: A1gamma m-Dpm-direct

observation

  • @ref: 67770
  • observation: quinones: MK-8(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1876862968cellulose-
1876816634raffinose+
1876826546rhamnose-
1876828757fructose-
1876829864mannitol-
1876817268myo-inositol+
1876818222xylose+
1876817992sucrose+
1876822599arabinose+
1876817234glucose+
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
11909016947citrate+carbon source
1190904853esculin-hydrolysis
119090606565hippurate+hydrolysis
11909017632nitrate+reduction
11909016301nitrite-reduction
11909035020tributyrin-hydrolysis
11909017632nitrate-respiration
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea+hydrolysis
683795291gelatin+hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose+fermentation
6837928087glycogen-fermentation

antibiotic resistance

  • @ref: 119090
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
11909035581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole-
11909015688acetoin-
11909017234glucose-

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
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)+
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
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23
119090oxidase-
119090beta-galactosidase-3.2.1.23
119090alcohol dehydrogenase-1.1.1.1
119090gelatinase+/-
119090amylase-
119090DNase+
119090caseinase+3.4.21.50
119090catalase+1.11.1.6
119090tween esterase-
119090gamma-glutamyltransferase+2.3.2.2
119090lecithinase-
119090lipase-
119090lysine decarboxylase-4.1.1.18
119090ornithine decarboxylase-4.1.1.17
119090phenylalanine ammonia-lyase-4.3.1.24
119090protease-
119090tryptophan deaminase-
119090urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    50138C16:00.516
    50138C15:0 ANTEISO59.614.711
    50138C15:0 ISO8.514.621
    50138C16:0 iso3.315.626
    50138C17:0 anteiso24.616.722
    50138C17:0 iso1.116.629
    50138C17:1 ω9c ANTEISO2.316.525
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18768-+++++---++------+-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18768++++++---++--------
119090+++-++-+-++---------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18768----+----+-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119090+++-+--------------+------+----+-+-+----------+++++--+--+-+-++++--------++-+++++++++--+-+++++++++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
8880human skin
50138Skin
67770Human skin
119090Human, SkinUnited KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Organ#Skin, Nail, Hair

taxonmaps

  • @ref: 69479
  • File name: preview.99_903.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15817;96_81;97_619;98_713;99_903&stattab=map
  • Last taxonomy: Brevibacterium
  • 16S sequence: X76565
  • Sequence Identity:
  • Total samples: 2331
  • soil counts: 327
  • aquatic counts: 205
  • animal counts: 1757
  • plant counts: 42

Safety information

risk assessment

@refbiosafety levelbiosafety level commentpathogenicity human
187681+Hazard group
88801Risk group (German classification)yes, in single cases
1190901Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: B.epidermidis (NCDO 2286) gene for 16S ribosomal RNA
  • accession: X76565
  • length: 1482
  • database: ena
  • NCBI tax ID: 1698

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Brevibacterium epidermidis NBRC 148111349751.3wgspatric1349751
66792Brevibacterium epidermidis NBRC 148112731957605draftimg1349751
67770Brevibacterium epidermidis NBRC 14811GCA_001570805contigncbi1349751

GC content

@refGC-contentmethod
888063.5
6777064.3genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno92.627no
gram-positiveyes91.682no
anaerobicno99.553no
halophileyes78.266no
spore-formingno91.887no
glucose-utilyes89.987no
aerobicyes96.111no
flagellatedno97.36no
thermophileno98.766yes
glucose-fermentno90.051no

External links

@ref: 8880

culture collection no.: DSM 20660, ATCC 35514, NCDO 2286, CCUG 30540, NCTC 11083, JCM 2593, BCRC 12215, CCM 4098, CECT 4162, CGMCC 1.1929, CIP 102110, IFO 14811, IMET 10998, KCTC 3090, LMG 21455, NBRC 14811, NCIMB 702286, VKM Ac-2108, VTT E-032416

straininfo link

  • @ref: 71483
  • straininfo: 45993

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny8518510Chemotaxonomy and molecular taxonomy of some coryneform clinical isolates.Carlotti A, Meugnier H, Pommier MT, Villard J, Freney JZentralbl Bakteriol10.1016/s0934-8840(11)80276-81993Bacterial Typing Techniques, Brevibacterium/chemistry/*classification/genetics, Chromatography, DNA, Bacterial/*genetics
Phylogeny22523163Brevibacterium siliguriense sp. nov., a facultatively oligotrophic bacterium isolated from river water.Kumar A, Ince IA, Kati A, Chakraborty RInt J Syst Evol Microbiol10.1099/ijs.0.038281-02012Amino Acids, Diamino/analysis, Bacterial Typing Techniques, Base Composition, Brevibacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, India, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny23194737Brevibacterium casei sp. nov. and Brevibacterium epidermidis sp. nov.Collins MD, Farrow JA, Goodfellow M, Minnikin DESyst Appl Microbiol10.1016/S0723-2020(83)80023-X1983
Phylogeny27654846Brevibacterium sediminis sp. nov., isolated from deep-sea sediments from the Carlsberg and Southwest Indian Ridges.Chen P, Zhang L, Wang J, Ruan J, Han X, Huang YInt J Syst Evol Microbiol10.1099/ijsem.0.0015062016Bacterial Typing Techniques, Base Composition, Brevibacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/microbiology, Indian Ocean, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny30063198Brevibacterium hankyongi sp. nov., isolated from compost.Choi KD, Siddiqi MZ, Liu Q, Muhammad Shafi S, Durrani Y, Lee SY, Kang MS, Im WTInt J Syst Evol Microbiol10.1099/ijsem.0.0028862018Bacterial Typing Techniques, Base Composition, Brevibacterium/*classification/genetics/isolation & purification, *Composting, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phosphatidylglycerols/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil MicrobiologyTranscriptome
Phylogeny33649904Brevibacterium renqingii sp. nov., isolated from the Daqu of Baijiu.Yan Y, Xing X, Sun Z, Li J, Hao S, Xu JArch Microbiol10.1007/s00203-021-02212-x2021Bacterial Typing Techniques, Base Composition/genetics, *Brevibacterium/classification/genetics/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Fermentation, Fermented Foods/*microbiology, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8880Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20660)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20660
18768Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM20660.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
40309Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/13761
50138Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 30540)https://www.ccug.se/strain?id=30540
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/
68368Automatically annotated from API 20E
68379Automatically annotated from API Coryne
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
71483Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45993.1StrainInfo: A central database for resolving microbial strain identifiers
119090Curators of the CIPCollection of Institut Pasteur (CIP 102110)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102110