Strain identifier

BacDive ID: 7371

Type strain: Yes

Species: Microbacterium imperiale

Strain Designation: 72

Strain history: CIP <- 1982, ATCC <- E.A. Steinhaus: strain 72

NCBI tax ID(s): 33884 (species)

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General

@ref: 8897

BacDive-ID: 7371

DSM-Number: 20530

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

description: Microbacterium imperiale 72 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from alimentary tract of imperial moth .

NCBI tax id

  • NCBI tax id: 33884
  • Matching level: species

strain history

@refhistory
8897<- IAM <- ATCC <- E. A. Steinhaus, 72
67770ATCC 8365 <-- E. A. Steinhaus 72.
120058CIP <- 1982, ATCC <- E.A. Steinhaus: strain 72

doi: 10.13145/bacdive7371.20230509.8.1

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 imperiale
  • full scientific name: Microbacterium imperiale (Steinhaus 1941) Collins et al. 1983

  • synonyms

    @refsynonym
    20215Brevibacterium imperiale
    20215Bacterium imperiale

@ref: 8897

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Microbacterium

species: Microbacterium imperiale

full scientific name: Microbacterium imperiale (Steinhaus 1941) Collins et al. 1983

strain designation: 72

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
120058positiverod-shapedyes

colony morphology

@refcolony colorincubation periodmedium used
18753Pastel orange10-14 daysISP 2
18753Deep orange10-14 daysISP 3
18753Pastel orange10-14 daysISP 4
18753Pastel orange10-14 daysISP 5
1875310-14 daysISP 6
18753Pastel orange10-14 daysISP 7
120058

multicellular morphology

@refforms multicellular complexmedium name
18753noISP 2
18753noISP 3
18753noISP 4
18753noISP 5
18753noISP 6
18753noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8897CORYNEBACTERIUM AGAR (DSMZ Medium 53)yeshttps://mediadive.dsmz.de/medium/53Name: 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
18753ISP 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
18753ISP 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:
18753ISP 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
18753ISP 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
18753ISP 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
18753ISP 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
37727MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
120058CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
18753positiveoptimum28mesophilic
8897positivegrowth30mesophilic
37727positivegrowth30mesophilic
67770positivegrowth30mesophilic
120058positivegrowth15-41
120058nogrowth10psychrophilic
120058nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120058
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.984

halophily

@refsaltgrowthtested relationconcentration
18753NaClpositivemaximum7.5 %
120058NaClpositivegrowth0-8 %
120058NaClnogrowth10 %

murein

  • @ref: 8897
  • murein short key: B02
  • type: B1ß {Gly} [L-Hsr] D-Glu(Hyg)-Gly2-L-Lys

observation

  • @ref: 67770
  • observation: quinones: MK-12 (MK-11)

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
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
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
68371methyl beta-D-xylopyranoside-builds acid from74863
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
68368gelatin-hydrolysis5291
68368tryptophan-energy source27897
68368urea-hydrolysis16199
68368citrate-assimilation16947
68368ornithine-degradation18257
68368lysine-degradation25094
68368arginine-hydrolysis29016
120058citrate-carbon source16947
120058esculin+hydrolysis4853
120058hippurate+hydrolysis606565
120058nitrate-reduction17632
120058nitrite-reduction16301
120058nitrate-respiration17632
68379nitrate+reduction17632
68379esculin-hydrolysis4853
68379urea+hydrolysis16199
68379gelatin-hydrolysis5291
68379D-glucose+fermentation17634
68379D-ribose+fermentation16988
68379D-xylose-fermentation65327
68379D-mannitol+fermentation16899
68379maltose+fermentation17306
68379lactose+fermentation17716
68379sucrose+fermentation17992
68379glycogen-fermentation28087

antibiotic resistance

  • @ref: 120058
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
12005835581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole-
12005815688acetoin-
12005817234glucose+

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
68382acid phosphatase+3.1.3.2
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
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23
120058oxidase-
120058beta-galactosidase+3.2.1.23
120058alcohol dehydrogenase-1.1.1.1
120058gelatinase+/-
120058amylase+
120058DNase+
120058caseinase-3.4.21.50
120058catalase+1.11.1.6
120058tween esterase-
120058gamma-glutamyltransferase-2.3.2.2
120058lecithinase-
120058lipase-
120058lysine decarboxylase-4.1.1.18
120058ornithine decarboxylase-4.1.1.17
120058phenylalanine ammonia-lyase-4.3.1.24
120058protease-
120058tryptophan deaminase-
120058urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18753+++-+++--+-++-++++-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18753+++-++++-+-++-++++-
120058+++-+++++++++-++++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18753+--------+-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120058-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120058++-++-+++++++--++++-+-++-------+-+-+---------------------+-++-----------+--+--+-------+------------

Isolation, sampling and environmental information

isolation

@refsample typehost species
8897alimentary tract of imperial moth (Eacles imperialis)Eacles imperialis
67770Alimentary tract of imperial moth (Eacles imperialis)Eacles imperialis
120058Alimentary tract, imperial moth

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body-Site#Gastrointestinal tract

taxonmaps

  • @ref: 69479
  • File name: preview.99_1873.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_417;97_472;98_543;99_1873&stattab=map
  • Last taxonomy: Microbacterium
  • 16S sequence: X77442
  • Sequence Identity:
  • Total samples: 1235
  • soil counts: 345
  • aquatic counts: 131
  • animal counts: 721
  • plant counts: 38

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
88971Risk group (German classification)
187531Risk group (German classification)
1200581Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
8897M.imperiale (DSM 20530) 16S rRNA geneX774421470ena33884
67770Microbacterium imperiale gene for 16S rRNA, partial sequenceAB0074141456ena33884
67770Microbacterium imperiale 16S rRNA geneD213421344ena33884

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Microbacterium imperiale DSM 20530GCA_017876655contigncbi33884
66792Microbacterium imperiale strain DSM 2053033884.3wgspatric33884
66792Microbacterium imperiale DSM 205302918394494draftimg33884

GC content

@refGC-contentmethod
889771.2
6777069.8thermal denaturation, midpoint method (Tm)
6777075.4thermal denaturation, midpoint method (Tm)
6777071.2thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveyes91.702no
anaerobicno99.034no
halophileno79.754no
spore-formingno91.78no
glucose-utilyes83.375no
motileyes65.626no
flagellatedno91.399no
aerobicyes89.963no
thermophileno99.491yes
glucose-fermentno83.632yes

External links

@ref: 8897

culture collection no.: DSM 20530, ATCC 8365, IAM 1654, NCIB 9888, NRRL B-24235, JCM 1378, BCRC 11226, CGMCC 1.1910, CIP 82.108, HAMBI 117, HAMBI 1891, IFO 12610, IMET 10714, KCTC 9229, NBRC 12610, NCCB 71040, NCFB 2269, NCIMB 9888, VKM Ac-1447, VKM B-1204

straininfo link

  • @ref: 76820
  • straininfo: 34949

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16514023Microbacterium paludicola sp. nov., a novel xylanolytic bacterium isolated from swamp forest.Park HY, Kim KK, Jin L, Lee STInt J Syst Evol Microbiol10.1099/ijs.0.63945-02006Actinomycetales/*classification/genetics/isolation & purification/physiology, DNA, Ribosomal/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Trees, Xylans/*metabolismTranscriptome
Phylogeny18218944Microbacterium ginsengisoli sp. nov., a beta-glucosidase-producing bacterium isolated from soil of a ginseng field.Park MJ, Kim MK, Kim HB, Im WT, Yi TH, Kim SY, Soung NK, Yang DCInt J Syst Evol Microbiol10.1099/ijs.0.65226-02008Actinomycetales/*classification/*enzymology/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Panax/*growth & development, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species Specificity, beta-Glucosidase/*biosynthesisEnzymology
Phylogeny20061506Microbacterium radiodurans sp. nov., a UV radiation-resistant bacterium isolated from soil.Zhang W, Zhu HH, Yuan M, Yao Q, Tang R, Lin M, Yang SZ, Li ZK, Chen MInt J Syst Evol Microbiol10.1099/ijs.0.017400-02010Actinomycetales/*classification/genetics/*isolation & purification/radiation effects, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Ultraviolet RaysGenetics

Reference

@idauthorscataloguedoi/urltitle
8897Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20530)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20530
18753Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM20530.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
37727Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/11385
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/
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
76820Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID34949.1StrainInfo: A central database for resolving microbial strain identifiers
120058Curators of the CIPCollection of Institut Pasteur (CIP 82.108)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2082.108