Strain identifier

BacDive ID: 16557

Type strain: Yes

Species: Nonomuraea roseoviolacea

Strain Designation: A-5

Strain history: CIP <- 2001, CCM <- KCC, Actinomadura roseoviolacea, H. Nonomura: strain A-5

NCBI tax ID(s): 103837 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 10815

BacDive-ID: 16557

DSM-Number: 43144

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

description: Nonomuraea roseoviolacea A-5 is a spore-forming, mesophilic, Gram-positive bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 103837
  • Matching level: species

strain history

@refhistory
10815<- KCC <- H. Nonomura, FYU, A-5
67770KCC A-0145 <-- H. Nonomura A-5.
122261CIP <- 2001, CCM <- KCC, Actinomadura roseoviolacea, H. Nonomura: strain A-5

doi: 10.13145/bacdive16557.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Streptosporangiaceae
  • genus: Nonomuraea
  • species: Nonomuraea roseoviolacea
  • full scientific name: Nonomuraea roseoviolacea corrig. (Nonomura and Ohara 1971) Zhang et al. 1998
  • synonyms

    @refsynonym
    20215Actinomadura roseoviolacea
    20215Nonomuria roseoviolacea
    20215Microtetraspora roseoviolacea

@ref: 10815

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptosporangiaceae

genus: Nonomuraea

species: Nonomuraea roseoviolacea subsp. roseoviolacea

full scientific name: Nonomuraea roseoviolacea subsp. roseoviolacea (Nonomura and Ohara 1971) Gyobu and Miyadoh 2001

strain designation: A-5

type strain: yes

Morphology

cell morphology

  • @ref: 122261
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
19547Ruby red10-14 daysISP 2
19547Red10-14 daysISP 3
19547Red10-14 daysISP 4
19547Orange10-14 daysISP 5
19547Brown orange10-14 daysISP 6
19547Brown orange10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19547yesAerial MyceliumWhiteISP 2
19547yesAerial MyceliumWhiteISP 3
19547yesAerial MyceliumWhiteISP 4
19547noISP 5
19547noISP 6
19547noISP 7

multimedia

  • @ref: 10815
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_43144.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10815GYM 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
19547ISP 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
19547ISP 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:
19547ISP 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
19547ISP 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
19547ISP 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
19547ISP 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
40605MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
10815CZAPEK PEPTONE AGAR (DSMZ Medium 83)yeshttps://mediadive.dsmz.de/medium/83Name: CZAPEK PEPTONE AGAR (DSMZ Medium 83) Composition: Sucrose 30.0 g/l Agar 20.0 g/l Peptone 5.0 g/l NaNO3 3.0 g/l Yeast extract 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 0.5 g/l KCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Distilled water
122261CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
10815positivegrowth28mesophilic
19547positiveoptimum37mesophilic
40605positivegrowth37mesophilic
67770positivegrowth37mesophilic
122261positivegrowth5-41

Physiology and metabolism

spore formation

  • @ref: 19547
  • spore description: Formation of spore chains: closed spirals, spore surface: smooth, sporangia: pseudosporangia
  • type of spore: spore
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
19547NaClpositivemaximum2.5 %
122261NaClpositivegrowth0 %
122261NaClnogrowth2 %
122261NaClnogrowth4 %
122261NaClnogrowth6 %
122261NaClnogrowth8 %
122261NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H4), MK-9(H2), MK-9(III,VIII-H4)

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
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
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
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-rhamnose+builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
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
68371glycerol+builds acid from17754
68368gelatin+hydrolysis5291
68368tryptophan-energy source27897
68368urea+hydrolysis16199
68368citrate-assimilation16947
68368ornithine+degradation18257
68368lysine+degradation25094
68368arginine+hydrolysis29016
122261esculin-hydrolysis4853
122261nitrate+reduction17632
122261nitrite+reduction16301

antibiotic resistance

  • @ref: 122261
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6777049322anthracycline antibioticyes
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
12226135581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole-
12226115688acetoin-
12226117234glucose-

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
122261oxidase-
122261beta-galactosidase+3.2.1.23
122261alcohol dehydrogenase-1.1.1.1
122261gelatinase-
122261amylase-
122261DNase-
122261caseinase-3.4.21.50
122261catalase+1.11.1.6
122261tween esterase-
122261gamma-glutamyltransferase+2.3.2.2
122261lecithinase-
122261lipase-
122261lysine decarboxylase-4.1.1.18
122261ornithine decarboxylase-4.1.1.17
122261phenylalanine ammonia-lyase-4.3.1.24
122261protease-
122261tryptophan deaminase-
122261urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382leucine arylamidase+3.4.11.1
68382cystine arylamidase-3.4.11.3
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19547++++++-+-++++-+-+++
122261+---+----++---+-+---

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19547-+++--+--++

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122261+-+++/---+-+++/---+-----++---+++--++-----------+----+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
10815soil
67770Soil, dry-heatedYamanashi Pref.JapanJPNAsia
122261Environment, SoilJapanJPNAsia

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
108151Risk group (German classification)
195471Risk group (German classification)
1222611Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Nonomuraea roseoviolacea gene for 16S ribosomal RNA, partial sequence, strain:IFO 14098TAB0399591453ena103837
20218Nonomuraea roseoviolacea gene for 16S rRNA, partial sequenceAB0431011472ena103837

GC content

@refGC-contentmethod
6777068.5thermal denaturation, midpoint method (Tm)
6777068thermal denaturation, midpoint method (Tm)

External links

@ref: 10815

culture collection no.: DSM 43144, ATCC 27297, KCC A-0145, JCM 3145, BCRC 13406, CBS 260.72, CCM 3491, CGMCC 4.1072, CIP 106924, IFO 14098, IMET 9751, IMSNU 20098, KCTC 9251, KCTC 9283, MTCC 1396, NBRC 14098, NCIMB 11117, NRRL B-16127, VKM Ac-909, CCRC 13406, VKM Ac-90

straininfo link

  • @ref: 85585
  • straininfo: 38920

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11411710Proposal to transfer Actinomadura carminata to a new subspecies of the genus Nonomuraea as Nonomuraea roseoviolacea subsp. carminata comb. nov.Gyobu Y, Miyadoh SInt J Syst Evol Microbiol10.1099/00207713-51-3-8812001Actinomycetales/*classification/physiology/ultrastructure, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fermentation, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny24801152Nonomuraea muscovyensis sp. nov., isolated from soil.Ozdemir-Kocak F, Isik K, Veyisoglu A, Tatar D, Sahin NInt J Syst Evol Microbiol10.1099/ijs.0.061291-02014Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Russia, Sequence Analysis, DNA, *Soil Microbiology, Trees/*microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny33595432Nonomuraea montanisoli sp. nov., isolated from mountain forest soil.Chanama S, Suriyachadkun C, Chanama MInt J Syst Evol Microbiol10.1099/ijsem.0.0046952021

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
10815Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43144)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43144
19547Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43144.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
40605Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19108
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
85585Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID38920.1StrainInfo: A central database for resolving microbial strain identifiers
122261Curators of the CIPCollection of Institut Pasteur (CIP 106924)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106924