Strain identifier

BacDive ID: 16967

Type strain: Yes

Species: Actinomadura vinacea

Strain Designation: A-0325

Strain history: CIP <- 1998, JCM <- KCC: strain A-0325 <- N.S. Agre <- INA: strain 1682

NCBI tax ID(s): 115336 (species)

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General

@ref: 11053

BacDive-ID: 16967

DSM-Number: 43765

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

description: Actinomadura vinacea A-0325 is a mesophilic, Gram-positive, rod-shaped bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 115336
  • Matching level: species

strain history

@refhistory
11053<- N.S. Agre, INA
67770KCC A-0325 <-- N. S. Agre <-- INA 1682.
123842CIP <- 1998, JCM <- KCC: strain A-0325 <- N.S. Agre <- INA: strain 1682

doi: 10.13145/bacdive16967.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Thermomonosporaceae
  • genus: Actinomadura
  • species: Actinomadura vinacea
  • full scientific name: Actinomadura vinacea Lavrova and Preobrazhenskaya 1975 (Approved Lists 1980)

@ref: 11053

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Thermomonosporaceae

genus: Actinomadura

species: Actinomadura vinacea

full scientific name: Actinomadura vinacea Lavrova and Preobrazhenskaya 1975

strain designation: A-0325

type strain: yes

Morphology

cell morphology

  • @ref: 123842
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
19587Beige10-14 daysISP 2
19587Red10-14 daysISP 3
19587Red10-14 daysISP 4
19587Red10-14 daysISP 5
19587Beige10-14 daysISP 6
19587Red10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium namecomplex namecomplex color
19587noISP 2
19587noISP 3
19587yesISP 4Aerial MyceliumWhite
19587noISP 5
19587noISP 6
19587noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11053ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://mediadive.dsmz.de/medium/84Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water
19587ISP 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
19587ISP 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:
19587ISP 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
19587ISP 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
19587ISP 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
19587ISP 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
32727MEDIUM 271 - for Actinomadura vinacea and Actinomadura rubrobruneayesDistilled water make up to (1000.000 ml);Agar (18.000 g);Yeast extract (1.000 g);Oats (20.000 g);Trace salt solution - M00447 (1.000 ml)
123842CIP Medium 271yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=271
123842CIP Medium 272yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=272

culture temp

@refgrowthtypetemperaturerange
11053positivegrowth28mesophilic
19587positiveoptimum37mesophilic
32727positivegrowth30mesophilic
67770positivegrowth28mesophilic
123842positivegrowth22-37
123842nogrowth5psychrophilic
123842nogrowth15psychrophilic
123842nogrowth41thermophilic

Physiology and metabolism

observation

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

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
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-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
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
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-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
68371L-xylose-builds acid from65328
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
68368gelatin+hydrolysis5291
68368tryptophan-energy source27897
68368urea+hydrolysis16199
68368citrate-assimilation16947
68368ornithine+degradation18257
68368lysine+degradation25094
68368arginine+hydrolysis29016
123842esculin-hydrolysis4853
123842nitrate-reduction17632
123842nitrite-reduction16301

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
12384235581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin-
6836835581indole-
12384215688acetoin-
12384217234glucose-

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
123842oxidase-
123842alcohol dehydrogenase-1.1.1.1
123842gelatinase-
123842catalase+1.11.1.6
123842gamma-glutamyltransferase+2.3.2.2
123842lysine decarboxylase-4.1.1.18
123842ornithine decarboxylase-4.1.1.17
123842phenylalanine ammonia-lyase-4.3.1.24
123842tryptophan deaminase-
123842urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382lipase (C 14)-
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-glucuronidase-3.2.1.31
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
19587+----++++++-+-+-+--
123842+++-+-----+----+----

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19587-+++--+---+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123842--+/-+/-+/-+/--+/-------+/------------+/----+/-+/-----------+/------+/-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123842---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11053soil
123842Environment, SoilEnglandUnited KingdomGBREurope

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
110531Risk group (German classification)
195871Risk group (German classification)
1238421Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Actinomadura vinacea 16S ribosomal RNA gene, partial sequenceAF1340701441ena115336
20218Actinomadura vinacea 16S-23S ribosomal RNA intergenic spacer region, partial sequenceAF134107454ena115336
20218Actinomadura vinacea gene for 16S rRNA, partial sequence, strain: NBRC 14688AB3645961471ena115336

External links

@ref: 11053

culture collection no.: DSM 43765, ATCC 33581, IFO 14688, IMET 9574, IMET 9673, INA 1682, JCM 3325, KCC A-0325, NBRC 14688, CIP 105481, IMSNU 20018, KCTC 9344

straininfo link

  • @ref: 85971
  • straininfo: 40571

literature

  • topic: Phylogeny
  • Pubmed-ID: 26373415
  • title: Actinomadura jiaoheensis sp. nov. and Actinomadura sporangiiformans sp. nov., two novel actinomycetes isolated from muddy soil and emended description of the genus Actinomadura.
  • authors: Zhao J, Guo L, Sun P, Han C, Bai L, Liu C, Li Y, Xiang W, Wang X
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1007/s10482-015-0585-1
  • year: 2015
  • mesh: Actinobacteria/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11053Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43765)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43765
19587Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43765.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
32727Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17505
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
85971Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID40571.1StrainInfo: A central database for resolving microbial strain identifiers
123842Curators of the CIPCollection of Institut Pasteur (CIP 105481)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105481