Strain identifier
BacDive ID: 18103
Type strain:
Species: Exiguobacterium acetylicum
Strain Designation: 1005
Strain history: CIP <- 1982, ATCC, Brevibacterium acetylicum <- M. Levine: strain 1005
NCBI tax ID(s): 1397697 (strain), 41170 (species)
General
@ref: 8801
BacDive-ID: 18103
DSM-Number: 20416
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Exiguobacterium acetylicum 1005 is a mesophilic bacterium that was isolated from creamery waste.
NCBI tax id
NCBI tax id | Matching level |
---|---|
41170 | species |
1397697 | strain |
strain history
@ref | history |
---|---|
8801 | <- H. Seiler <- ATCC <- M. Levine, 1005 |
67770 | ATCC 953 <-- M. Levine 1005. |
115992 | CIP <- 1982, ATCC, Brevibacterium acetylicum <- M. Levine: strain 1005 |
doi: 10.13145/bacdive18103.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Bacillaceae
- genus: Exiguobacterium
- species: Exiguobacterium acetylicum
- full scientific name: Exiguobacterium acetylicum (Levine and Soppeland 1926) Farrow et al. 1994
synonyms
@ref synonym 20215 Brevibacterium acetylicum 20215 Flavobacterium acetylicum
@ref: 8801
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Bacilli, not assigned to family
genus: Exiguobacterium
species: Exiguobacterium acetylicum
full scientific name: Exiguobacterium acetylicum (Levine and Soppeland 1926) Farrow et al. 1994
strain designation: 1005
type strain: yes
Morphology
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
18440 | Daffodil yellow (1007) | 10-14 days | ISP 2 |
18440 | Daffodil yellow (1007) | 10-14 days | ISP 3 |
18440 | beige | 10-14 days | ISP 4 |
18440 | beige | 10-14 days | ISP 5 |
18440 | beige | 10-14 days | ISP 6 |
18440 | beige | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | medium name |
---|---|---|
18440 | no | ISP 2 |
18440 | no | ISP 3 |
18440 | no | ISP 4 |
18440 | no | ISP 5 |
18440 | no | ISP 6 |
18440 | no | ISP 7 |
Culture and growth conditions
culture medium
@ref | name | growth | composition | link |
---|---|---|---|---|
18440 | 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 | |
18440 | 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: | |
18440 | 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 | |
18440 | 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 | |
18440 | 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 | |
18440 | 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 | |
8801 | CORYNEBACTERIUM AGAR (DSMZ Medium 53) | yes | 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 | https://mediadive.dsmz.de/medium/53 |
34012 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
115992 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
18440 | positive | optimum | 28 | mesophilic |
8801 | positive | growth | 30 | mesophilic |
34012 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
murein
- @ref: 8801
- murein short key: A11.01
- type: A3alpha L-Lys-Gly
observation
- @ref: 67770
- observation: quinones: MK-7
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
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 |
enzymes
@ref | value | activity | ec |
---|---|---|---|
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 |
68382 | alkaline phosphatase | - | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | - | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | - | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | - | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
18440 | - | - | - | - | - | + | + | - | + | - | - | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
18440 | - | + | + | - | - | - | - | - | - | - | - | - | + | - | + | + | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
8801 | creamery waste |
67770 | Creamy waste |
115992 | Food, Milk skimmed |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Food production | #Dairy product |
#Engineered | #Industrial | #Industrial production |
#Engineered | #Waste | #Industrial waste |
taxonmaps
- @ref: 69479
- File name: preview.99_656.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_130;96_390;97_439;98_501;99_656&stattab=map
- Last taxonomy: Exiguobacterium
- 16S sequence: DQ019167
- Sequence Identity:
- Total samples: 63843
- soil counts: 9088
- aquatic counts: 18655
- animal counts: 28214
- plant counts: 7886
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
18440 | 1 | German classification |
8801 | 1 | Risk group (German classification) |
115992 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Exiguobacterium acetylicum strain DSM 20416 16S ribosomal RNA gene, partial sequence | DQ019167 | 1550 | ena | 41170 |
20218 | Exiguobacterium acetylicum 16S rRNA gene, partial sequence | D55730 | 1482 | ena | 41170 |
20218 | Exiguobacterium acetylicum gene for 16S rRNA, partial sequence, strain: NBRC 12146 | AB680246 | 1487 | ena | 41170 |
20218 | B.acetylicum (NCIMB 9889) 16S rRNA | X70313 | 1473 | ena | 41170 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Exiguobacterium acetylicum DSM 20416 | 1397697.3 | wgs | patric | 1397697 |
66792 | Exiguobacterium acetylicum DSM 20416 | 2562617000 | draft | img | 1397697 |
67770 | Exiguobacterium acetylicum DSM 20416 | GCA_000702605 | contig | ncbi | 1397697 |
GC content
@ref | GC-content | method |
---|---|---|
8801 | 46.6 | |
67770 | 46.6 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 89.261 | no |
gram-positive | yes | 86.789 | no |
anaerobic | no | 98.467 | no |
halophile | yes | 74.89 | no |
spore-forming | no | 75.958 | no |
glucose-util | yes | 89.628 | no |
thermophile | no | 99.527 | no |
aerobic | yes | 89.657 | no |
flagellated | yes | 72.524 | no |
glucose-ferment | no | 77.802 | yes |
External links
@ref: 8801
culture collection no.: DSM 20416, ATCC 953, NCIB 9889, CCUG 32630, JCM 1968, BCRC 10378, BCRC 17390, CGMCC 1.1917, CIP 82.109, HAMBI 2009, IAM 1790, IFO 12146, IMET 11072, KCTC 3255, NBRC 12146, NCCB 70030, NCIMB 9889
straininfo link
- @ref: 87091
- straininfo: 45045
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Enzymology | 9357959 | Characterization of guanosine kinase from Brevibacterium acetylicum ATCC 953. | Usuda Y, Kawasaki H, Shimaoka M, Utagawa T | Biochim Biophys Acta | 10.1016/s0167-4838(97)00080-0 | 1997 | Adenosine Triphosphate/metabolism, Brevibacterium/*enzymology, Cations, Divalent/pharmacology, Dimerization, Electrophoresis, Polyacrylamide Gel, Enzyme Activation/drug effects, Enzyme Inhibitors/chemistry/pharmacology, Hydrogen-Ion Concentration, Kinetics, Molecular Weight, Nucleotides/pharmacology, Phosphotransferases (Alcohol Group Acceptor)/chemistry/*isolation & purification/*metabolism, Substrate Specificity, Temperature | Metabolism |
Enzymology | 9371440 | Molecular cloning and transcriptional analysis of a guanosine kinase gene of Brevibacterium acetylicum ATCC 953. | Usuda Y, Kawasaki H, Shimaoka M, Utagawa T | J Bacteriol | 10.1128/jb.179.22.6959-6964.1997 | 1997 | Amino Acid Sequence, Base Sequence, Blotting, Northern, Brevibacterium/*enzymology/*genetics/metabolism, Cloning, Molecular, DNA, Bacterial/analysis/genetics, Escherichia coli/genetics, Gene Expression, Molecular Sequence Data, Nucleic Acid Hybridization, Open Reading Frames, Phosphotransferases (Alcohol Group Acceptor)/*genetics/metabolism, Plasmids, Promoter Regions, Genetic, Recombination, Genetic, Sequence Alignment, Sequence Analysis, DNA, Sequence Homology, Amino Acid, Transcription, Genetic | Metabolism |
Metabolism | 10830490 | Development of an improved assay for purine nucleoside kinase activity in cell extracts and detection of inosine kinase activity in Brevibacterium acetylicum ATCC 953, related species, and Corynebacterium flaccumfaciens ATCC 6887. | Kawasaki H, Usuda Y, Shimaoka M, Utagawa T | Biosci Biotechnol Biochem | 10.1271/bbb.64.761 | 2000 | Adenosine Triphosphate/metabolism, Brevibacterium/*enzymology, Corynebacterium/*enzymology, Magnesium, Pentosyltransferases/*metabolism, Phosphorylation, Phosphotransferases/*metabolism, Phosphotransferases (Alcohol Group Acceptor)/*metabolism | Enzymology |
Phylogeny | 12148624 | Exiguobacterium undae sp. nov. and Exiguobacterium antarcticum sp. nov. | Fruhling A, Schumann P, Hippe H, Straubler B, Stackebrandt E | Int J Syst Evol Microbiol | 10.1099/00207713-52-4-1171 | 2002 | Bacillaceae/chemistry/*classification/genetics/physiology, Bacterial Typing Techniques, DNA, Ribosomal, Fresh Water/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Pigments, Biological/metabolism, RNA, Ribosomal, 16S, Ribotyping, Sequence Analysis, DNA, Spectroscopy, Fourier Transform Infrared | Genetics |
Phylogeny | 17158975 | Exiguobacterium indicum sp. nov., a psychrophilic bacterium from the Hamta glacier of the Himalayan mountain ranges of India. | Chaturvedi P, Shivaji S | Int J Syst Evol Microbiol | 10.1099/ijs.0.64508-0 | 2006 | Bacillaceae/chemistry/*classification/genetics/isolation & purification, Bacterial Typing Techniques, *Cold Temperature, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Ice Cover/*microbiology, India, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
Phylogeny | 18842873 | Exiguobacterium soli sp. nov., a psychrophilic bacterium from the McMurdo Dry Valleys, Antarctica. | Chaturvedi P, Prabahar V, Manorama R, Pindi PK, Bhadra B, Begum Z, Shivaji S | Int J Syst Evol Microbiol | 10.1099/ijs.0.2008/000067-0 | 2008 | Antarctic Regions, Bacillaceae/chemistry/*classification/*genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Genes, rRNA, Geologic Sediments/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology | Genetics |
Phylogeny | 25716950 | Exiguobacterium enclense sp. nov., isolated from sediment. | Dastager SG, Mawlankar R, Sonalkar VV, Thorat MN, Mual P, Verma A, Krishnamurthi S, Tang SK, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.000149 | 2015 | Bacillaceae/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, India, Islands, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phenotype, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8801 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20416) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20416 | |||
18440 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM20416.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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
34012 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/11386 | ||||
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/ | ||||
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 | |||
87091 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45045.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
115992 | Curators of the CIP | Collection of Institut Pasteur (CIP 82.109) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2082.109 |