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Strain identifier

BacDive ID: 7409

Type strain: Yes

Species: Microbacterium maritypicum

Strain Designation: 319, 572, MDB 319

Strain history: LMG 8374 <-- NCIMB 559 <-- C. E. ZoBell 572.

NCBI tax ID(s): 300020 (species)

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General

@ref: 4757

BacDive-ID: 7409

DSM-Number: 12512

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Microbacterium maritypicum 319 is a mesophilic bacterium that was isolated from sea water and marine mud.

NCBI tax id

  • NCBI tax id: 300020
  • Matching level: species

strain history

doi: 10.13145/bacdive7409.20221219.7.1

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

    @refsynonym
    20215Flavobacterium marinotypicum
    20215Microbacterium 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: 69480
  • gram stain: positive
  • confidence: 95.614

colony morphology

@refcolony colorincubation periodmedium used
18368Lemon yellow (1012)10-14 daysISP 2
18368Lemon yellow (1012)10-14 daysISP 3
18368Lemon yellow (1012)10-14 daysISP 4
18368Lemon yellow (1012)10-14 daysISP 5
18368Lemon yellow (1012)10-14 daysISP 6
18368Lemon yellow (1012)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
18368noISP 2
18368noISP 3
18368noISP 4
18368noISP 5
18368noISP 6
18368noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4757TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: 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
18368ISP 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
18368ISP 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:
18368ISP 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
18368ISP 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
18368ISP 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
18368ISP 7yesName: 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
41714Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)

culture temp

@refgrowthtypetemperaturerange
18368positiveoptimum28mesophilic
4757positivegrowth28mesophilic
41714positivegrowth30mesophilic
67770positivegrowth18psychrophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 97.675

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 97.941

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

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837928087glycogen-fermentation
6837917992sucrose-fermentation
6837917716lactose-fermentation
6837917306maltose-fermentation
6837916899D-mannitol-fermentation
6837965327D-xylose-fermentation
6837916988D-ribose-fermentation
6837917634D-glucose-fermentation
683795291gelatin+hydrolysis
6837916199urea+hydrolysis
683794853esculin+hydrolysis
6837917632nitrate-reduction

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
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
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

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18368-----++-+++--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18368-++-+----+-++-++-++

Isolation, sampling and environmental information

isolation

@refsample type
4757sea water and marine mud
67770Seawater and marine mud

isolation source categories

Cat1Cat2Cat3
#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

@refbiosafety levelbiosafety level comment
183681German classification
47571Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Microbacterium maritypicum partial 16S rRNA gene, strain DSM 12512TAJ8539101437ena300020
20218Microbacterium maritypicum partial 16S rRNA gene, type strain DSM 12512AM1815061345ena300020

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Microbacterium maritypicum strain DSM 12512300020.7wgspatric300020
67770Microbacterium maritypicum DSM 12512GCA_008868125contigncbi300020
66792uncultured bacterium MTG243_bin.61.faGCA_934875675scaffoldpatric77133

GC content

  • @ref: 4757
  • GC-content: 71.6

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

@refpassport
20218http://www.straininfo.net/strains/163240
20218http://www.straininfo.net/strains/40298
20218http://www.straininfo.net/strains/40299
20218http://www.straininfo.net/strains/337261
20218http://www.straininfo.net/strains/163241
20218http://www.straininfo.net/strains/684862

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9734054Proposal 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 KInt J Syst Bacteriol10.1099/00207713-48-3-9731998Actinomycetales/chemistry/*classification/genetics, DNA, Bacterial/analysis, Flavobacterium/*classification, Nucleic Acid Hybridization
Genetics10217728A novel monoacyldiglycosyl-monoacylglycerol from Flavobacterium marinotypicum.Yagi H, Maruyama AJ Nat Prod10.1021/np98042801999Carbohydrate Sequence, Flavobacterium/*chemistry, Glycolipids/*chemistry, Magnetic Resonance Spectroscopy, Molecular Sequence Data, Spectrometry, Mass, Fast Atom Bombardment
Phylogeny33263510Microbacterium algeriense sp. nov., a novel actinobacterium isolated from Algerian oil production waters.Lenchi N, Anzil A, Servais P, Kebbouche-Gana S, Gana ML, Lliros MInt J Syst Evol Microbiol10.1099/ijsem.0.0044342020Algeria, 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, WaterTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4757Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12512)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12512
18368Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM12512.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
41714Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17785
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/
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)