Strain identifier
BacDive ID: 7409
Type strain:
Species: Microbacterium maritypicum
Strain Designation: 319, 572, MDB 319
Strain history: CIP <- 1998, IFO <- ATCC <- NCIMB <- MDB: strain 319 <- C. ZoBell
NCBI tax ID(s): 300020 (species)
General
@ref: 4757
BacDive-ID: 7409
DSM-Number: 12512
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-positive
description: Microbacterium maritypicum 319 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from sea water and marine mud.
NCBI tax id
- NCBI tax id: 300020
- Matching level: species
strain history
@ref | history |
---|---|
4757 | <- IFO <- ATCC <- NCIMB <- MDB, 319 <- C. E. ZoBell, 572 |
67770 | LMG 8374 <-- NCIMB 559 <-- C. E. ZoBell 572. |
120840 | CIP <- 1998, IFO <- ATCC <- NCIMB <- MDB: strain 319 <- C. ZoBell |
doi: 10.13145/bacdive7409.20230509.8.1
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 maritypicum
- full scientific name: Microbacterium maritypicum corrig. (ZoBell and Upham 1944) Takeuchi and Hatano 1998
synonyms
@ref synonym 20215 Flavobacterium marinotypicum 20215 Microbacterium marinotypicum
@ref: 4757
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Microbacteriaceae
genus: Microbacterium
species: Microbacterium maritypicum
full scientific name: Microbacterium maritypicum (ZoBell and Upham 1944) Takeuchi and Hatano 1998
strain designation: 319, 572, MDB 319
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | positive | 100 | ||
120840 | negative | rod-shaped | yes |
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
18368 | Lemon yellow (1012) | 10-14 days | ISP 2 |
18368 | Lemon yellow (1012) | 10-14 days | ISP 3 |
18368 | Lemon yellow (1012) | 10-14 days | ISP 4 |
18368 | Lemon yellow (1012) | 10-14 days | ISP 5 |
18368 | Lemon yellow (1012) | 10-14 days | ISP 6 |
18368 | Lemon yellow (1012) | 10-14 days | ISP 7 |
120840 |
multicellular morphology
@ref | forms multicellular complex | medium name |
---|---|---|
18368 | no | ISP 2 |
18368 | no | ISP 3 |
18368 | no | ISP 4 |
18368 | no | ISP 5 |
18368 | no | ISP 6 |
18368 | no | ISP 7 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
4757 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://mediadive.dsmz.de/medium/92 | Name: 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 |
18368 | 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 | |
18368 | 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: | |
18368 | 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 | |
18368 | 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 | |
18368 | 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 | |
18368 | 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 | |
41714 | Marine agar (MA) | yes | Distilled water make up to (1000.000 ml);Marine agar (55.100 g) | |
120840 | CIP Medium 13 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
18368 | positive | optimum | 28 | mesophilic |
4757 | positive | growth | 28 | mesophilic |
41714 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 18 | psychrophilic |
120840 | positive | growth | 22-41 | |
120840 | no | growth | 10 | psychrophilic |
120840 | no | growth | 15 | psychrophilic |
120840 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 120840
- oxygen tolerance: obligate aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.915 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
120840 | NaCl | positive | growth | 0-6 % |
120840 | NaCl | no | growth | 8 % |
120840 | NaCl | no | growth | 10 % |
murein
- @ref: 4757
- murein short key: B06
- type: B2ß {Gly} [L-Hsr] D-Glu(Hyg)-Gly-D-Orn
observation
- @ref: 67770
- observation: quinones: MK-12
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
120840 | 16947 | citrate | - | carbon source |
120840 | 4853 | esculin | + | hydrolysis |
120840 | 606565 | hippurate | + | hydrolysis |
120840 | 17632 | nitrate | - | reduction |
120840 | 16301 | nitrite | - | reduction |
120840 | 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 |
metabolite production
- @ref: 120840
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
120840 | 15688 | acetoin | - | |
120840 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | + | 3.2.1.51 |
68382 | alpha-mannosidase | + | 3.2.1.24 |
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 lipase (C 8) | + | |
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 |
120840 | oxidase | - | |
120840 | beta-galactosidase | + | 3.2.1.23 |
120840 | alcohol dehydrogenase | - | 1.1.1.1 |
120840 | gelatinase | +/- | |
120840 | DNase | - | |
120840 | caseinase | + | 3.4.21.50 |
120840 | catalase | + | 1.11.1.6 |
120840 | tween esterase | - | |
120840 | gamma-glutamyltransferase | - | 2.3.2.2 |
120840 | lecithinase | - | |
120840 | lipase | - | |
120840 | lysine decarboxylase | - | 4.1.1.18 |
120840 | ornithine decarboxylase | - | 4.1.1.17 |
120840 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
120840 | protease | - | |
120840 | tryptophan deaminase | - | |
120840 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
18368 | - | - | - | - | - | + | + | - | + | + | + | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
18368 | - | + | + | - | + | - | - | - | - | + | - | + | + | - | + | + | - | + | + | |
120840 | - | + | + | - | + | + | - | - | - | + | + | + | + | - | + | + | + | + | + | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
120840 | + | + | + | + | + | - | - | + | + | + | + | - | - | - | - | + | + | + | + | + | - | - | + | - | + | + | - | - | - | - | - | + | - | + | + | + | - | - | - | - | - | + | - | - | - | - | - | - | + | + | - | - | - | + | - | - | + | - | + | + | + | + | - | - | - | - | - | - | - | - | - | - | + | - | - | + | - | + | + | + | + | - | - | - | + | - | + | - | + | + | + | + | - | + | + | - | + | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
4757 | sea water and marine mud |
67770 | Seawater and marine mud |
120840 | Environment, Sea water and marine mud |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Terrestrial | #Mud (Sludge) |
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: AM181506
- 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 |
---|---|---|
4757 | 1 | Risk group (German classification) |
18368 | 1 | German classification |
120840 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Microbacterium maritypicum partial 16S rRNA gene, strain DSM 12512T | AJ853910 | 1437 | ena | 300020 |
20218 | Microbacterium maritypicum partial 16S rRNA gene, type strain DSM 12512 | AM181506 | 1345 | ena | 300020 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Microbacterium maritypicum strain DSM 12512 | 300020.7 | wgs | patric | 300020 |
67770 | Microbacterium maritypicum DSM 12512 | GCA_008868125 | contig | ncbi | 300020 |
GC content
- @ref: 4757
- GC-content: 71.6
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
gram-positive | yes | 91.742 | no |
anaerobic | no | 99.44 | no |
halophile | no | 89.734 | no |
spore-forming | no | 90.851 | no |
glucose-util | yes | 81.428 | no |
motile | yes | 56.717 | no |
aerobic | yes | 94.96 | no |
flagellated | no | 91.9 | no |
thermophile | no | 99.617 | yes |
glucose-ferment | no | 91.927 | no |
External links
@ref: 4757
culture collection no.: DSM 12512, ATCC 19260, IFO 15779, NBRC 15779, NCIMB 1050, NRRL B-24223, JCM 11570, CECT 578, CIP 105733, IAM 15190, LMG 8374, NCIMB 559, NCMB 1050, NCMB 665, NCMB 689, VKM Ac-2079, VKM B-1170, VTT E-072693
straininfo link
- @ref: 76858
- straininfo: 14429
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 9734054 | Proposal of six new species in the genus Microbacterium and transfer of Flavobacterium marinotypicum ZoBell and Upham to the genus Microbacterium as Microbacterium maritypicum comb. nov. | Takeuchi M, Hatano K | Int J Syst Bacteriol | 10.1099/00207713-48-3-973 | 1998 | Actinomycetales/chemistry/*classification/genetics, DNA, Bacterial/analysis, Flavobacterium/*classification, Nucleic Acid Hybridization | |
Genetics | 10217728 | A novel monoacyldiglycosyl-monoacylglycerol from Flavobacterium marinotypicum. | Yagi H, Maruyama A | J Nat Prod | 10.1021/np9804280 | 1999 | Carbohydrate Sequence, Flavobacterium/*chemistry, Glycolipids/*chemistry, Magnetic Resonance Spectroscopy, Molecular Sequence Data, Spectrometry, Mass, Fast Atom Bombardment | |
Phylogeny | 33263510 | Microbacterium algeriense sp. nov., a novel actinobacterium isolated from Algerian oil production waters. | Lenchi N, Anzil A, Servais P, Kebbouche-Gana S, Gana ML, Lliros M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004434 | 2020 | Algeria, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Microbacterium/*classification/isolation & purification, Nucleic Acid Hybridization, Oil and Gas Fields/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/chemistry, Water | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
4757 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12512) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12512 | |||
18368 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM12512.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 | |
41714 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/17785 | ||||
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 | |||
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 | |||
76858 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID14429.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
120840 | Curators of the CIP | Collection of Institut Pasteur (CIP 105733) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105733 |