Strain identifier
BacDive ID: 7380
Type strain:
Species: Microbacterium liquefaciens
Strain Designation: Mbm 15
Strain history: CIP <- 1986, DSM <- NCIB <- K. Robinson: strain Mbm15, Microbacterium liquefaciens
NCBI tax ID(s): 33918 (species)
General
@ref: 8984
BacDive-ID: 7380
DSM-Number: 20638
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive
description: Microbacterium liquefaciens Mbm 15 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from milk.
NCBI tax id
- NCBI tax id: 33918
- Matching level: species
strain history
@ref | history |
---|---|
8984 | <- NCIB <- K. Robinson, Mbm 15 (Microbacterium liquefaciens) |
67770 | DSM 20638 <-- NCIB 11509 <-- K. Robinson Mbm 15. |
120624 | CIP <- 1986, DSM <- NCIB <- K. Robinson: strain Mbm15, Microbacterium liquefaciens |
doi: 10.13145/bacdive7380.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Microbacteriaceae
- genus: Microbacterium
- species: Microbacterium liquefaciens
- full scientific name: Microbacterium liquefaciens (Collins et al. 1983 ex Orla-Jensen 1919) Takeuchi and Hatano 1998
synonyms
- @ref: 20215
- synonym: Aureobacterium liquefaciens
@ref: 8984
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Microbacteriaceae
genus: Microbacterium
species: Microbacterium liquefaciens
full scientific name: Microbacterium liquefaciens (Collins et al. 1983) Takeuchi and Hatano 1998
strain designation: Mbm 15
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | positive | 100 | ||
120624 | positive | rod-shaped | no |
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
18766 | Golden yellow | 10-14 days | ISP 2 |
18766 | Sulfur white | 10-14 days | ISP 3 |
18766 | Light ivory | 10-14 days | ISP 4 |
18766 | 10-14 days | ISP 5 | |
18766 | Zinc yellow | 10-14 days | ISP 6 |
18766 | 10-14 days | ISP 7 | |
120624 |
multicellular morphology
@ref | forms multicellular complex | medium name |
---|---|---|
18766 | no | ISP 2 |
18766 | no | ISP 3 |
18766 | no | ISP 4 |
18766 | no | ISP 5 |
18766 | no | ISP 6 |
18766 | no | ISP 7 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8984 | CORYNEBACTERIUM AGAR (DSMZ Medium 53) | yes | https://mediadive.dsmz.de/medium/53 | Name: 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 water |
18766 | 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 | |
18766 | 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: | |
18766 | 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 | |
18766 | 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 | |
18766 | 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 | |
18766 | 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 | |
40416 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
120624 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 | |
120624 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
18766 | positive | optimum | 28 | mesophilic |
8984 | positive | growth | 30 | mesophilic |
40416 | positive | growth | 30 | mesophilic |
51372 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
120624 | positive | growth | 10-37 | |
120624 | no | growth | 41 | thermophilic |
120624 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
51372 | aerobe |
120624 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.983 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
18766 | NaCl | positive | maximum | 5 % |
120624 | NaCl | positive | growth | 0-4 % |
120624 | NaCl | no | growth | 6 % |
120624 | NaCl | no | growth | 8 % |
120624 | NaCl | no | growth | 10 % |
murein
- @ref: 8984
- murein short key: B06
- type: B2ß {Gly} [L-Hsr] D-Glu(Hyg)-Gly-D-Orn
observation
- @ref: 67770
- observation: quinones: MK-11, MK-12
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
18766 | 62968 | cellulose | - | |
18766 | 16634 | raffinose | - | |
18766 | 26546 | rhamnose | - | |
18766 | 28757 | fructose | + | |
18766 | 29864 | mannitol | - | |
18766 | 17268 | myo-inositol | - | |
18766 | 18222 | xylose | - | |
18766 | 17992 | sucrose | - | |
18766 | 22599 | arabinose | - | |
18766 | 17234 | glucose | - | |
68368 | 5291 | gelatin | - | hydrolysis |
68368 | 27897 | tryptophan | - | energy source |
68368 | 16199 | urea | - | hydrolysis |
68368 | 16947 | citrate | - | assimilation |
68368 | 18257 | ornithine | - | degradation |
68368 | 25094 | lysine | - | degradation |
68368 | 29016 | arginine | - | hydrolysis |
120624 | 16947 | citrate | - | carbon source |
120624 | 4853 | esculin | + | hydrolysis |
120624 | 606565 | hippurate | + | hydrolysis |
120624 | 17632 | nitrate | - | reduction |
120624 | 16301 | nitrite | - | reduction |
120624 | 17632 | nitrate | - | respiration |
68379 | 17632 | nitrate | + | reduction |
68379 | 4853 | esculin | - | hydrolysis |
68379 | 16199 | urea | + | hydrolysis |
68379 | 5291 | gelatin | - | hydrolysis |
68379 | 17634 | D-glucose | + | fermentation |
68379 | 16988 | D-ribose | + | fermentation |
68379 | 65327 | D-xylose | - | fermentation |
68379 | 16899 | D-mannitol | + | fermentation |
68379 | 17306 | maltose | + | fermentation |
68379 | 17716 | lactose | - | fermentation |
68379 | 17992 | sucrose | + | fermentation |
68379 | 28087 | glycogen | - | fermentation |
antibiotic resistance
- @ref: 120624
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: yes
- is resistant: no
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68368 | 15688 | acetoin | no |
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | no |
120624 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test | methylred-test |
---|---|---|---|---|---|
68368 | 15688 | acetoin | - | ||
68368 | 35581 | indole | - | ||
120624 | 15688 | acetoin | - | ||
120624 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | + | 3.2.1.24 |
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 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | + | 3.4.11.3 |
68382 | valine arylamidase | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
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 |
68368 | gelatinase | - | |
68368 | tryptophan deaminase | - | 4.1.99.1 |
68368 | urease | - | 3.5.1.5 |
68368 | ornithine decarboxylase | - | 4.1.1.17 |
68368 | lysine decarboxylase | - | 4.1.1.18 |
68368 | arginine dihydrolase | - | 3.5.3.6 |
68368 | beta-galactosidase | + | 3.2.1.23 |
120624 | oxidase | - | |
120624 | beta-galactosidase | + | 3.2.1.23 |
120624 | alcohol dehydrogenase | - | 1.1.1.1 |
120624 | gelatinase | + | |
120624 | amylase | - | |
120624 | DNase | + | |
120624 | caseinase | + | 3.4.21.50 |
120624 | catalase | + | 1.11.1.6 |
120624 | tween esterase | - | |
120624 | gamma-glutamyltransferase | - | 2.3.2.2 |
120624 | lecithinase | - | |
120624 | lipase | - | |
120624 | lysine decarboxylase | - | 4.1.1.18 |
120624 | ornithine decarboxylase | - | 4.1.1.17 |
120624 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
120624 | protease | + | |
120624 | tryptophan deaminase | - | |
120624 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
18766 | + | + | + | - | + | + | + | - | - | + | - | + | + | - | + | + | - | + | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
18766 | + | + | + | - | + | + | + | - | - | - | - | + | + | - | + | + | - | + | - | |
120624 | + | - | - | - | + | + | + | - | - | + | + | + | + | - | + | + | - | + | - | - |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL |
---|---|---|---|---|---|---|---|---|---|---|---|
18766 | + | - | - | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
120624 | + | + | + | - | + | - | - | - | - | + | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
8984 | milk |
51372 | Milk |
67770 | Milk |
120624 | Food, Milk |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host Body Product | #Fluids | #Milk |
#Engineered | #Food production | #Dairy product |
taxonmaps
- @ref: 69479
- File name: preview.99_191.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_137;97_148;98_165;99_191&stattab=map
- Last taxonomy: Microbacterium
- 16S sequence: X77444
- Sequence Identity:
- Total samples: 42253
- soil counts: 10113
- aquatic counts: 9581
- animal counts: 16954
- plant counts: 5605
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
8984 | 1 | Risk group (German classification) |
18766 | 1 | Risk group (German classification) |
120624 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 8984
- description: A.liquefaciens (DSM 20638) 16S rRNA gene
- accession: X77444
- length: 1474
- database: ena
- NCBI tax ID: 33918
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Microbacterium liquefaciens JCM 3879 | GCA_014648755 | scaffold | ncbi | 33918 |
66792 | Microbacterium liquefaciens strain JCM 3879 | 33918.5 | wgs | patric | 33918 |
66792 | Microbacterium liquefaciens strain NBRC 15037 | 33918.3 | wgs | patric | 33918 |
67770 | Microbacterium liquefaciens NBRC 15037 | GCA_006539765 | contig | ncbi | 33918 |
GC content
@ref | GC-content | method |
---|---|---|
8984 | 68.6 | |
67770 | 72.5 | thermal denaturation, midpoint method (Tm) |
67770 | 68.6 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 96.369 | no |
gram-positive | yes | 92.434 | no |
anaerobic | no | 99.396 | yes |
aerobic | yes | 94.734 | yes |
halophile | no | 83.442 | no |
spore-forming | no | 91.648 | no |
thermophile | no | 99.581 | yes |
glucose-util | yes | 79.766 | yes |
motile | no | 82.957 | no |
glucose-ferment | no | 92.198 | no |
External links
@ref: 8984
culture collection no.: DSM 20638, ATCC 43647, NCIB 11509, NRRL B-24237, CCUG 33091, JCM 3879, BCRC 14859, CGMCC 1.1934, CIP 102402, HAMBI 1895, IAM 15185, IFO 15037, IMSNU 21275, KCTC 9227, LMG 16342, NBRC 15037, NCIMB 11509, VKM Ac-1018
straininfo link
- @ref: 76829
- straininfo: 45479
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
8984 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20638) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20638 | |
18766 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM20638.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 | |
40416 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/14084 | ||
51372 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 33091) | https://www.ccug.se/strain?id=33091 | |
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/ | ||
68368 | Automatically annotated from API 20E | |||
68379 | Automatically annotated from API Coryne | |||
68382 | Automatically annotated from API zym | |||
69479 | João 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 | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
76829 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45479.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
120624 | Curators of the CIP | Collection of Institut Pasteur (CIP 102402) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102402 |