Strain identifier

BacDive ID: 7798

Type strain: Yes

Species: Actinoplanes auranticolor

Strain Designation: UNCC 253

Strain history: KCC A-0038 <-- H. A. Lechevalier <-- ATCC 15330 <-- J. N. Couch UNCC 253 <-- C. E. Miller.

NCBI tax ID(s): 47988 (species)

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General

@ref: 10701

BacDive-ID: 7798

DSM-Number: 43031

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive

description: Actinoplanes auranticolor UNCC 253 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from pasture soil.

NCBI tax id

  • NCBI tax id: 47988
  • Matching level: species

strain history

@refhistory
10701<- KCC <- H. Lechevalier <- ATCC <- J.N. Couch, UNCC, 253
67770KCC A-0038 <-- H. A. Lechevalier <-- ATCC 15330 <-- J. N. Couch UNCC 253 <-- C. E. Miller.

doi: 10.13145/bacdive7798.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micromonosporales
  • family: Micromonosporaceae
  • genus: Actinoplanes
  • species: Actinoplanes auranticolor
  • full scientific name: Actinoplanes auranticolor (Couch 1963) Stackebrandt and Kroppenstedt 1988

  • synonyms

    • @ref: 20215
    • synonym: Amorphosporangium auranticolor

@ref: 10701

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Actinoplanes

species: Actinoplanes auranticolor

full scientific name: Actinoplanes auranticolor (Couch 1963) Stackebrandt and Kroppenstedt 1988

strain designation: UNCC 253

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

colony morphology

@refcolony colorincubation periodmedium used
19538Dahlia yellow10-14 daysISP 2
19538Dahlia yellow10-14 daysISP 3
19538Orange yellow10-14 daysISP 4
19538Orange yellow10-14 daysISP 5
19538Orange yellow10-14 daysISP 6
19538Orange yellow10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19538noISP 2
19538noISP 3
19538noISP 4
19538noISP 5
19538noISP 6
19538noISP 7

multimedia

  • @ref: 10701
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_43031.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
19538ISP 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
19538ISP 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:
19538ISP 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
19538ISP 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
19538ISP 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
19538ISP 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
10701BHI-GLUCOSE MEDIUM (DSMZ Medium 82)yesName: BHI-GLUCOSE MEDIUM (DSMZ Medium 82) Composition: Brain heart infusion 18.5 g/l Agar 12.0 g/l Glucose 5.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/82
10701GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yesName: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/65

culture temp

@refgrowthtypetemperaturerange
19538positiveoptimum28mesophilic
10701positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore descriptiontype of sporespore formationconfidence
19538spore surface: smooth, sporangia: +sporeyes
69481yes95
69480yes100

halophily

  • @ref: 19538
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H6)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1953817234glucose+
1953822599arabinose+
1953817992sucrose+
1953818222xylose-
1953817268myo-inositol-
1953829864mannitol+
1953828757fructose+
1953826546rhamnose+
1953816634raffinose-
1953862968cellulose-
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole-

enzymes

@refvalueactivityec
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

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19538+---------+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
10701pasture soilNevada, near DunphyUSAUSANorth America
67770SoilNVUSAUSANorth America

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Engineered#Agriculture#Meadow
#Environmental#Terrestrial#Grassland

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
107011Risk group (German classification)
195381Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Actinoplanes auranticolor gene for 16S ribosomal RNA, partial sequence, strain: IFO12245D854711469ena47988
20218Actinoplanes auranticolor 16S ribosomal RNA gene sequenceU585261411ena47988

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinoplanes auranticolor NBRC 12245GCA_018332655contigncbi47988
66792Actinoplanes auranticolor strain NBRC 1224547988.3wgspatric47988

GC content

  • @ref: 67770
  • GC-content: 71.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes95no
gram-positiveyes89.147no
anaerobicno99.079no
halophileno93.954no
spore-formingyes94.063yes
glucose-utilyes88.814no
aerobicyes92.95no
motileyes64.56no
flagellatedno89.601no
thermophileno98.874yes
glucose-fermentno90.643no

External links

@ref: 10701

culture collection no.: DSM 43031, ATCC 15330, CBS 189.64, IFO 12245, KCC A-0038, NBRC 12245, JCM 3038, BCRC 13631, HAMBI 1975, IFM 1138, IFM 1290, IMET 9034, IMSNU 20021, KCTC 9117, NCIMB 10172, NRRL B-3343, RIA 819, VKM Ac-648, VKM Ac-675

straininfo link

  • @ref: 77240
  • straininfo: 36336

literature

  • topic: Phylogeny
  • Pubmed-ID: 23114571
  • title: Actinoplanes hulinensis sp. nov., a novel actinomycete isolated from soybean root (Glycine max (L.) Merr).
  • authors: Shen Y, Liu C, Wang X, Zhao J, Jia F, Zhang Y, Wang L, Yang D, Xiang W
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1007/s10482-012-9809-9
  • year: 2012
  • mesh: Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Micromonosporaceae/*classification/genetics/*isolation & purification/physiology, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soybeans/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
10701Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43031)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43031
19538Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43031.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
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
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
77240Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID36336.1StrainInfo: A central database for resolving microbial strain identifiers