Strain identifier

BacDive ID: 7404

Type strain: Yes

Species: Microbacterium aurantiacum

Strain history: CIP <- 1998, IFO <- NCFB <- M.D. Collins, Leicester Univ. <- Dias & Bhat

NCBI tax ID(s): 162393 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 4752

BacDive-ID: 7404

DSM-Number: 12506

keywords: 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-positive, rod-shaped

description: Microbacterium aurantiacum DSM 12506 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from sewage.

NCBI tax id

  • NCBI tax id: 162393
  • Matching level: species

strain history

@refhistory
4752<- IFO <- NCFB (Microbacterium laevaniformans) <- M.D. Collins, C820 <- Dias & Bhat, 8-3-56 (Corynebacterium laevaniformans)
67770IFO 15234 <-- NCFB 2288 (Microbacterium laevaniformans) <-- M. D. Collins C820 <-- F. F. Dias and J. V. Bhat.
116558CIP <- 1998, IFO <- NCFB <- M.D. Collins, Leicester Univ. <- Dias & Bhat

doi: 10.13145/bacdive7404.20230509.8.1

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 aurantiacum
  • full scientific name: Microbacterium aurantiacum Takeuchi and Hatano 1998

@ref: 4752

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Microbacterium

species: Microbacterium aurantiacum

full scientific name: Microbacterium aurantiacum Takeuchi and Hatano 1998

type strain: yes

Morphology

cell morphology

  • @ref: 116558
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
18364Melon yellow (1028)10-14 daysISP 2
18364Melon yellow (1028)10-14 daysISP 3
18364Melon yellow (1028)10-14 daysISP 4
18364Melon yellow (1028)10-14 daysISP 5
18364Melon yellow (1028)10-14 daysISP 6
18364Melon yellow (1028)10-14 daysISP 7
116558

multicellular morphology

@refforms multicellular complexmedium name
18364noISP 2
18364noISP 3
18364noISP 4
18364noISP 5
18364noISP 6
18364noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4752TRYPTICASE 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
18364ISP 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
18364ISP 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:
18364ISP 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
18364ISP 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
18364ISP 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
18364ISP 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
39348MEDIUM 119 - for Azotobacter vinelandiiyesDistilled water make up to (1000.000 ml);Magnesium sulphate heptahydrate (1.000 g);Agar (15.000 g);Yeast extract (2.000 g);Peptone (5.000 g);Tryptone (5.000 g)
116558CIP Medium 1yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=1

culture temp

@refgrowthtypetemperaturerange
18364positiveoptimum28mesophilic
4752positivegrowth30mesophilic
39348positivegrowth30mesophilic
67770positivegrowth30mesophilic
116558positivegrowth15-37
116558nogrowth10psychrophilic
116558nogrowth41thermophilic
116558nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116558
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
116558NaClpositivegrowth0-8 %
116558NaClnogrowth10 %

murein

  • @ref: 4752
  • murein short key: B06
  • type: B2ß {Gly} [L-Hsr] D-Glu(Hyg)-Gly-D-Orn

observation

  • @ref: 67770
  • observation: quinones: MK-12

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate+builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch+builds acid from28017
68371raffinose+builds acid from16634
68371melezitose+builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol+builds acid from17754
116558citrate-carbon source16947
116558esculin+hydrolysis4853
116558hippurate+hydrolysis606565
116558nitrate-reduction17632
116558nitrite-reduction16301
116558nitrate-respiration17632

metabolite production

  • @ref: 116558
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11655815688acetoin-
11655817234glucose-

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-galactosidase+3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382alkaline phosphatase+3.1.3.1
116558oxidase-
116558beta-galactosidase+3.2.1.23
116558alcohol dehydrogenase-1.1.1.1
116558gelatinase+/-
116558amylase+
116558DNase-
116558caseinase-3.4.21.50
116558catalase+1.11.1.6
116558tween esterase-
116558gamma-glutamyltransferase-2.3.2.2
116558lecithinase-
116558lipase-
116558lysine decarboxylase-4.1.1.18
116558ornithine decarboxylase-4.1.1.17
116558phenylalanine ammonia-lyase-4.3.1.24
116558protease-
116558tryptophan deaminase-
116558urease-3.5.1.5

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18364+-+-++++++++++++---
116558+++-+----++++-++----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116558+--+-+--+/-++++----+/-----+/-+/-+/-+++--++-++++--+--------+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116558+++++--++++----+--+--++--+-----+-+-+---------------------+--+--+--------+--+-----------------------

Isolation, sampling and environmental information

isolation

@refsample type
4752sewage
67770Sewage
116558Environment, Sewage

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Wastewater

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
47521Risk group (German classification)
1165581Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Microbacterium aurantiacum partial 16S rRNA gene, type strain DSM 12506AM1821591356ena162393
4752Microbacterium aurantiacum gene for 16S rRNA, partial sequenceAB0047261482ena162393

GC content

@refGC-contentmethod
475270.3
6777070.3high performance liquid chromatography (HPLC)

External links

@ref: 4752

culture collection no.: DSM 12506, ATCC 49090, IFO 15234, NBRC 15234, NCFB 2288, NRRL B-24217, JCM 9177, CIP 105730, IAM 15208, NCIMB 702288, VKM Ac-2075

straininfo link

  • @ref: 76853
  • straininfo: 42284

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
Phylogeny29458489Microbacterium telephonicum sp. nov., isolated from the screen of a cellular phone.Rahi P, Kurli R, Pansare AN, Khairnar M, Jagtap S, Patel NB, Dastager SG, Lawson PA, Shouche YSInt J Syst Evol Microbiol10.1099/ijsem.0.0026222018Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, *Cell Phone, DNA, Bacterial/genetics, Fatty Acids/chemistry, India, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4752Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12506)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12506
18364Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM12506.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
39348Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17782
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
76853Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42284.1StrainInfo: A central database for resolving microbial strain identifiers
116558Curators of the CIPCollection of Institut Pasteur (CIP 105730)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105730