Strain identifier

BacDive ID: 7402

Type strain: Yes

Species: Microbacterium resistens

Strain history: CIP <- 2001, CCUG <- G. Funke, Univ. Zürich, Switzerland

NCBI tax ID(s): 1223505 (strain), 156977 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 4571

BacDive-ID: 7402

DSM-Number: 11986

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

description: Microbacterium resistens DSM 11986 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from corneal ulcer.

NCBI tax id

NCBI tax idMatching level
156977species
1223505strain

strain history

@refhistory
4571<- G. Funke, 1710
67770CCUG 38312 <-- G. Funke DMMZ 1710.
122163CIP <- 2001, CCUG <- G. Funke, Univ. Zürich, Switzerland

doi: 10.13145/bacdive7402.20230509.8.1

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 resistens
  • full scientific name: Microbacterium resistens (Funke et al. 1998) Behrendt et al. 2001

  • synonyms

    • @ref: 20215
    • synonym: Aureobacterium resistens

@ref: 4571

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Microbacterium

species: Microbacterium resistens

full scientific name: Microbacterium resistens (Funke et al. 1998) Behrendt et al. 2001 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

  • @ref: 122163
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
18362Ivory (1014)10-14 daysISP 2
18362Ivory (1014)10-14 daysISP 3
18362Ivory (1014)10-14 daysISP 4
18362Ivory (1014)10-14 daysISP 5
18362Ivory (1014)10-14 daysISP 6
18362Ivory (1014)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
18362noISP 2
18362noISP 3
18362noISP 4
18362noISP 5
18362noISP 6
18362noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4571TRYPTICASE 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
18362ISP 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
18362ISP 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:
18362ISP 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
18362ISP 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
18362ISP 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
18362ISP 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
38194MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122163CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
18362positiveoptimum28mesophilic
4571positivegrowth30mesophilic
38194positivegrowth30mesophilic
67770positivegrowth30mesophilic
122163positivegrowth25-45
122163nogrowth10psychrophilic
122163nogrowth15psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 122163
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
122163NaClpositivegrowth0-6 %
122163NaClnogrowth8 %
122163NaClnogrowth10 %

murein

  • @ref: 4571
  • murein short key: B09
  • type: B2alpha {Gly} [L-Orn] D-Glu-D-Orn

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
68371gentiobiose-builds acid from28066
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
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-sorbose-builds acid from17266
68371D-fructose-builds acid from15824
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
122163citrate-carbon source16947
122163esculin+hydrolysis4853
122163hippurate+hydrolysis606565
122163nitrate-reduction17632
122163nitrite-reduction16301
122163nitrate-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: 122163
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 122163
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12216315688acetoin-
12216317234glucose-

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-galactosidase-3.2.1.22
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
122163oxidase-
122163beta-galactosidase+3.2.1.23
122163alcohol dehydrogenase-1.1.1.1
122163gelatinase+/-
122163amylase-
122163DNase+
122163caseinase+3.4.21.50
122163catalase+1.11.1.6
122163tween esterase-
122163gamma-glutamyltransferase-2.3.2.2
122163lecithinase-
122163lipase-
122163lysine decarboxylase-4.1.1.18
122163ornithine decarboxylase-4.1.1.17
122163phenylalanine ammonia-lyase-4.3.1.24
122163protease+
122163tryptophan deaminase-
122163urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    54185C16:02.516
    54185C18:00.318
    54185C14:0 ISO0.713.618
    54185C15:0 ANTEISO34.914.711
    54185C15:0 ISO1.914.621
    54185C16:0 iso25.215.626
    54185C17:0 anteiso31.716.722
    54185C17:0 iso1.316.629
    54185C18:0 ISO0.317.632
    54185C18:2 ω6,9c/C18:0 ANTE117.724
    54185Unidentified0.213.736
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18362-----++-+++--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18362-++-++++-----+-++++
122163-++-++++-++-+-+++++-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122163+/----+/-----+/-+/--+/--+/---------++/-+/-+/-+/---+/-+/------+/--+/-+/---------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122163+++++--+-++----++-++---+----+--+---+---+----------+--+--++-++-+--+------+--+----------+--++-----++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
4571corneal ulcerZürichSwitzerlandCHEEurope
54185Human corneal ulcer,14-year-old femaleZürichSwitzerlandCHEEurope1995
67770Corneal ulcer of a 14 year-old female
122163Human, Corneal ulcerSwitzerlandCHEEurope1995

isolation source categories

Cat1Cat2Cat3
#Infection#Inflammation
#Host Body-Site#Organ#Eye

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
45712Risk group (German classification)
183622
1221631Risk group (French classification)

Sequence information

16S sequences

  • @ref: 4571
  • description: Aureobacterium resistens 16S rRNA gene
  • accession: Y14699
  • length: 1461
  • database: ena
  • NCBI tax ID: 156977

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Microbacterium resistens NBRC 1030781223505.3wgspatric1223505
66792Microbacterium resistens NBRC 1030782731957582draftimg1223505
67770Microbacterium resistens NBRC 103078GCA_001552355contigncbi1223505

GC content

  • @ref: 67770
  • GC-content: 71.2
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno92.601no
gram-positiveyes90.961no
anaerobicno99.657no
aerobicyes90.706no
halophileno89.407no
spore-formingno92.243no
thermophileno99.202no
glucose-utilyes86.235no
flagellatedno98.175no
glucose-fermentno89.691yes

External links

@ref: 4571

culture collection no.: DSM 11986, CCUG 38312, CCM 4912, CIP 107265, JCM 11686, DMMZ 1710, IAM 15192, IFM 10515, LMG 22202, NBRC 103078, NRRL B-24216

straininfo link

  • @ref: 76851
  • straininfo: 49218

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9453161Aureobacterium resistens sp. nov., exhibiting vancomycin resistance and teicoplanin susceptibility.Funke G, Lawson PA, Nolte FS, Weiss N, Collins MDFEMS Microbiol Lett10.1111/j.1574-6968.1998.tb12805.x1998Adult, Anti-Bacterial Agents/*pharmacology, *Drug Resistance, Microbial, Gram-Positive Asporogenous Rods/*drug effects, Humans, Male, Phylogeny, Teicoplanin/*pharmacology, Vancomycin/*pharmacologyPathogenicity
Phylogeny24729394Microbacterium kyungheense sp. nov. and Microbacterium jejuense sp. nov., isolated from salty soil.Kook M, Son HM, Yi THInt J Syst Evol Microbiol10.1099/ijs.0.054973-02014Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Ornithine/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Spermidine/chemistry, Vitamin K 2/chemistryGenetics
Phylogeny27506590Microbacterium aureliae sp. nov., a novel actinobacterium isolated from Aurelia aurita, the moon jellyfish.Kaur G, Mual P, Kumar N, Verma A, Kumar A, Krishnamurthi S, Mayilraj SInt J Syst Evol Microbiol10.1099/ijsem.0.0014072016Actinomycetales/*classification/genetics/isolation & purification, Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, India, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Scyphozoa/*microbiology, Sequence Analysis, DNA, Vitamin K 2/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitle
4571Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11986)https://www.dsmz.de/collection/catalogue/details/culture/DSM-11986
18362Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM11986.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
38194Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4681
54185Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 38312)https://www.ccug.se/strain?id=38312
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/
68371Automatically annotated from API 50CH acid
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
76851Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49218.1StrainInfo: A central database for resolving microbial strain identifiers
122163Curators of the CIPCollection of Institut Pasteur (CIP 107265)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107265