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)

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General

@ref: 4571

BacDive-ID: 7402

DSM-Number: 11986

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

description: Microbacterium resistens DSM 11986 is an obligate aerobe, 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/bacdive7402.20240916.9.1

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

@refgram staincell shapemotilityconfidence
122163positiverod-shapedno
69480positive91.592
69480no90.5

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

@refgrowthtypetemperature
18362positiveoptimum28
4571positivegrowth30
38194positivegrowth30
67770positivegrowth30
122163positivegrowth25-45
122163nogrowth10
122163nogrowth15

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: nuccore
  • 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

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes91.592no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no98.203no
69480spore-formingspore-formingAbility to form endo- or exosporesno70.566no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes89.147yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno97.842yes
69480flagellatedmotile2+Ability to perform flagellated movementno90.5no

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
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)
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