Strain identifier

BacDive ID: 7841

Type strain: Yes

Species: Actinoplanes couchii

Strain Designation: GW8-1761

Strain history: CIP <- 2006, P. Kämpfer, J. Liebig Univ., Giessen, Germany: strain GW8-1761

NCBI tax ID(s): 403638 (species)

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General

@ref: 12299

BacDive-ID: 7841

DSM-Number: 45050

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

description: Actinoplanes couchii GW8-1761 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 403638
  • Matching level: species

strain history

@refhistory
12299<- P. Kämpfer; GW8-1761 <- I. Grün-Wollny
67770DSM 45050 <-- P. Kämpfer GW8-1761 <-- I. Grün-Wollny.
118770CIP <- 2006, P. Kämpfer, J. Liebig Univ., Giessen, Germany: strain GW8-1761

doi: 10.13145/bacdive7841.20230509.8.1

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 couchii
  • full scientific name: Actinoplanes couchii Kämpfer et al. 2007

@ref: 12299

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Actinoplanes

species: Actinoplanes couchii

full scientific name: Actinoplanes couchii Kämpfer et al. 2007

strain designation: GW8-1761

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shape
32009positive
69480positive100
118770positiverod-shaped

colony morphology

@refcolony colorincubation periodmedium usedhemolysis ability
19906Yellow orange10-14 daysISP 2
19906Yellow orange10-14 daysISP 3
19906Yellow orange10-14 daysISP 4
19906Yellow orange10-14 daysISP 5
19906Yellow orange10-14 daysISP 6
19906Yellow orange10-14 daysISP 7
598923 days
1187701

multicellular morphology

@refforms multicellular complexmedium name
19906noISP 2
19906noISP 3
19906noISP 4
19906noISP 5
19906noISP 6
19906noISP 7

pigmentation

  • @ref: 32009
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12299GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: 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 water
12299TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf
19906ISP 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
19906ISP 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:
19906ISP 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
19906ISP 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
19906ISP 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
19906ISP 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
37509MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulumyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g)
118770CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57

culture temp

@refgrowthtypetemperaturerange
12299positivegrowth28mesophilic
32009positivegrowth25-30mesophilic
32009positiveoptimum27.5mesophilic
37509positivegrowth30mesophilic
59892positivegrowth30mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
59892aerobe
118770obligate aerobe

spore formation

@refspore formationconfidence
32009yes
69481yes100
69480yes100

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3200935391aspartate+carbon source
3200925115malate+carbon source
3200926271proline+carbon source
3200915361pyruvate+carbon source
3200917814salicin+carbon source
3200917822serine+carbon source
3200917992sucrose+carbon source
68371Potassium 2-ketogluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837132528turanose-builds acid from
6837117151xylitol-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose+builds acid from
6837117306maltose-builds acid from
683714853esculin+builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose+builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose+builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
11877017632nitrate+reduction
11877016301nitrite-reduction

metabolite production

  • @ref: 118770
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
118770oxidase-
118770catalase+1.11.1.6
118770urease+3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382leucine arylamidase+3.4.11.1
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase+3.1.3.2
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19906+++++++++++++++++--
118770+++-+--+++----++----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
118770--+/-+-+/----++++-+-+/-+/------+/-++/-+/--+------+/-+/--+/--+/---+/---+/--+/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12299soilTerni, near waterfalItalyITAEurope
59892Soil (heated for 1 min. at 100°C)Terni,near to the Marmory FallItalyITAEurope
67770Soil near to the Marmore WaterfallsTerniItalyITAEurope
118770Environment, SoilThe Marmore waterfalls, TerniItalyITAEurope

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
122991Risk group (German classification)
199061Risk group (German classification)
1187701Risk group (French classification)

Sequence information

16S sequences

  • @ref: 12299
  • description: Actinoplanes couchii partial 16S rRNA gene, type strain GW8-1761T
  • accession: AM400230
  • length: 1371
  • database: ena
  • NCBI tax ID: 403638

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinoplanes couchii NBRC 106145GCA_016862075contigncbi403638
66792Actinoplanes couchii strain NBRC 106145403638.3wgspatric403638
66792Actinoplanes couchii DSM 450502917960780draftimg403638

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes89.402yes
anaerobicno99.004yes
halophileno94.212no
spore-formingyes91.941yes
glucose-utilyes88.836no
aerobicyes93.637yes
flagellatedno88.901no
thermophileno99.662no
motileyes65.355no
glucose-fermentno89.453no

External links

@ref: 12299

culture collection no.: CCUG 53409, DSM 45050, CIP 109316, JCM 15999, NBRC 106145

straininfo link

  • @ref: 77278
  • straininfo: 297509

literature

  • topic: Phylogeny
  • Pubmed-ID: 17392194
  • title: Actinoplanes couchii sp. nov.
  • authors: Kampfer P, Huber B, Thummes K, Grun-Wollny I, Busse HJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64805-0
  • year: 2007
  • mesh: DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Italy, Micromonosporaceae/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
12299Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45050)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45050
19906Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM45050.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
32009Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2826328776041
37509Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7044
59892Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 53409)https://www.ccug.se/strain?id=53409
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
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)
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
77278Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297509.1StrainInfo: A central database for resolving microbial strain identifiers
118770Curators of the CIPCollection of Institut Pasteur (CIP 109316)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109316