Strain identifier
BacDive ID: 3910
Type strain:
Species: Brachybacterium tyrofermentans
Strain history: CIP <- 1996, K. Schubert, Inst. für Genetik und Mikrobiol., Munich Univ., Munich, Germany <- J.P. Accolas
NCBI tax ID(s): 1255639 (strain), 47848 (species)
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 id | Matching level |
---|---|
47848 | species |
1255639 | strain |
strain history
@ref | history |
---|---|
4034 | <- K. Schubert <- CNRZ <- J.-P. Accolas |
67770 | CCM 4521 <-- K. Schubert CNRZ 926 <-- J.-P. Accolas. |
123703 | CIP <- 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
@ref | colony color | incubation period | medium used |
---|---|---|---|
18432 | Sand yellow (1002) | 10-14 days | ISP 2 |
18432 | Sand yellow (1002) | 10-14 days | ISP 3 |
18432 | Beige (1001) | 10-14 days | ISP 4 |
18432 | Colorless | 10-14 days | ISP 5 |
18432 | Sand yellow (1002) | 10-14 days | ISP 6 |
18432 | Colorless | 10-14 days | ISP 7 |
123703 |
multicellular morphology
@ref | forms multicellular complex | medium name |
---|---|---|
18432 | no | ISP 2 |
18432 | no | ISP 3 |
18432 | no | ISP 4 |
18432 | no | ISP 5 |
18432 | no | ISP 6 |
18432 | no | ISP 7 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
4034 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://mediadive.dsmz.de/medium/92 | Name: 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 |
18432 | ISP 2 | yes | Name: 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 | |
18432 | ISP 3 | yes | Name: 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: | |
18432 | ISP 4 | yes | Name: 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 | |
18432 | ISP 5 | yes | Name: 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 | |
18432 | ISP 6 | yes | Name: 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 | |
18432 | ISP 7 | yes | Name: 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 | |
35740 | MEDIUM 149 - for Brachybacterium alimentarium and Brachybacterium tyrofermentans | yes | Distilled 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) | |
123703 | CIP Medium 149 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=149 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
18432 | positive | optimum | 28 | mesophilic |
4034 | positive | growth | 30 | mesophilic |
35740 | positive | growth | 30 | mesophilic |
58851 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
123703 | positive | growth | 10-30 | |
123703 | no | growth | 37 | mesophilic |
123703 | no | growth | 41 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
58851 | aerobe |
123703 | facultative 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
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | inulin | - | builds acid from | 15443 |
68371 | N-acetylglucosamine | - | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
123703 | citrate | - | carbon source | 16947 |
123703 | esculin | + | hydrolysis | 4853 |
123703 | hippurate | + | hydrolysis | 606565 |
123703 | nitrate | - | reduction | 17632 |
123703 | nitrite | - | reduction | 16301 |
123703 | nitrate | - | respiration | 17632 |
68379 | nitrate | - | reduction | 17632 |
68379 | esculin | + | hydrolysis | 4853 |
68379 | urea | + | hydrolysis | 16199 |
68379 | gelatin | - | hydrolysis | 5291 |
68379 | D-glucose | - | fermentation | 17634 |
68379 | D-ribose | - | fermentation | 16988 |
68379 | D-xylose | - | fermentation | 65327 |
68379 | D-mannitol | - | fermentation | 16899 |
68379 | maltose | - | fermentation | 17306 |
68379 | lactose | - | fermentation | 17716 |
68379 | sucrose | - | fermentation | 17992 |
68379 | glycogen | - | fermentation | 28087 |
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
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
123703 | 15688 | acetoin | - | |
123703 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | + | 3.2.1.51 |
68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | alpha-galactosidase | + | 3.2.1.22 |
68382 | acid phosphatase | - | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | - | 3.1.3.1 |
68379 | gelatinase | - | |
68379 | urease | + | 3.5.1.5 |
68379 | beta-glucosidase | + | 3.2.1.21 |
68379 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68379 | alpha-glucosidase | + | 3.2.1.20 |
68379 | beta-galactosidase | + | 3.2.1.23 |
68379 | beta-glucuronidase | - | 3.2.1.31 |
68379 | alkaline phosphatase | - | 3.1.3.1 |
68379 | pyrrolidonyl arylamidase | + | 3.4.19.3 |
68379 | pyrazinamidase | - | 3.5.1.B15 |
123703 | oxidase | - | |
123703 | beta-galactosidase | + | 3.2.1.23 |
123703 | alcohol dehydrogenase | - | 1.1.1.1 |
123703 | gelatinase | +/- | |
123703 | amylase | - | |
123703 | DNase | + | |
123703 | caseinase | + | 3.4.21.50 |
123703 | catalase | + | 1.11.1.6 |
123703 | tween esterase | - | |
123703 | gamma-glutamyltransferase | - | 2.3.2.2 |
123703 | lecithinase | - | |
123703 | lipase | - | |
123703 | lysine decarboxylase | - | 4.1.1.18 |
123703 | ornithine decarboxylase | - | 4.1.1.17 |
123703 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
123703 | protease | + | |
123703 | tryptophan deaminase | - | |
123703 | urease | - | 3.5.1.5 |
API coryne
@ref | NIT | PYZ | PYRA | PAL | beta GUR | beta GAL | alpha GLU | beta NAG | ESC | URE | GEL | GLU | RIB | XYL | MAN | MAL | LAC | SAC | GLYG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
18432 | - | - | + | - | - | + | + | + | + | + | - | - | - | - | - | - | - | - | - |
API zym
@ref | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase | Control |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
18432 | - | + | + | - | + | + | - | - | - | - | - | + | + | - | + | + | + | + | + | |
123703 | - | + | - | - | + | - | - | - | - | - | + | + | + | - | + | + | + | - | + | - |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123703 | +/- | +/- | +/- | +/- | +/- | +/- | - | - | +/- | +/- | +/- | +/- | +/- | - | +/- | - | +/- | +/- | +/- | - | - | - | +/- | +/- | +/- | +/- | +/- | +/- | +/- | +/- | +/- | +/- | - | +/- | +/- | - | - | +/- | +/- | +/- | +/- | - | - | +/- | +/- | - | - | - | - |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123703 | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | + | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | geographic location | isolation date |
---|---|---|---|---|---|---|
4034 | cheese, surface of Beaufort | France | FRA | Europe | ||
58851 | Cheese,Gruyère and Beaufort | France | FRA | Europe | ||
67770 | Surface of Beaufort cheese | France | FRA | Europe | ||
123703 | Food, Surface rind of Beaufort, Gruyère | France | FRA | Europe | Jura | 1978 |
isolation source categories
- Cat1: #Engineered
- Cat2: #Food production
- Cat3: #Dairy product
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
18432 | 1 | German classification |
4034 | 1 | Risk group (German classification) |
123703 | 1 | Risk 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
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
4034 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10673) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-10673 | |
18432 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM10673.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
35740 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/16762 | ||
58851 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 50353) | https://www.ccug.se/strain?id=50353 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
68371 | Automatically annotated from API 50CH acid | |||
68379 | Automatically annotated from API Coryne | |||
68382 | Automatically annotated from API zym | |||
73420 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID14503.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
123703 | Curators of the CIP | Collection of Institut Pasteur (CIP 104812) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104812 |