Strain identifier

BacDive ID: 16547

Type strain: Yes

Species: Nonomuraea angiospora

Strain Designation: 3479, LIA-0443, 0443 (R.A Zhukova 3479/30)

Strain history: CIP <- 2002, JCM <- 1983, KCC <- LIA: strain 0443 (R.A Zhukova 3479/30)

NCBI tax ID(s): 46172 (species)

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General

@ref: 10841

BacDive-ID: 16547

DSM-Number: 43173

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

description: Nonomuraea angiospora 3479 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil, a vineyard in the Georgian.

NCBI tax id

  • NCBI tax id: 46172
  • Matching level: species

strain history

@refhistory
10841<- KCC (Actinomadura angiospora) <- Yu.E. Konev, LIA <- R. A. Zhukova, 3479/30
67770KCC A-0109 <-- LIA 0443 (R. A. Zhukova 3479/30).
116385CIP <- 2002, JCM <- 1983, KCC <- LIA: strain 0443 (R.A Zhukova 3479/30)

doi: 10.13145/bacdive16547.20230509.8.1

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 angiospora
  • full scientific name: Nonomuraea angiospora corrig. (Zhukova et al. 1968) Zhang et al. 1998

  • synonyms

    @refsynonym
    20215Actinomadura angiospora
    20215Micropolyspora angiospora
    20215Nonomuria angiospora
    20215Microtetraspora angiospora

@ref: 10841

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptosporangiaceae

genus: Nonomuraea

species: Nonomuraea angiospora

full scientific name: Nonomuraea angiospora (Zhukova et al. 1968) Zhang et al. 1998

strain designation: 3479, LIA-0443, 0443 (R.A Zhukova 3479/30)

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no93.595
69480100positive
116385nopositiverod-shaped

colony morphology

@refcolony colorincubation periodmedium used
19944Beige (1001)10-14 daysISP 2
19944Colorless10-14 daysISP 3
19944Lemon yellow (1012)10-14 daysISP 4
19944Lemon yellow (1012)10-14 daysISP 5
19944Beige (1001)10-14 daysISP 6
19944Green brown (8000)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19944yesAerial MyceliumSparse/ whiteISP 2
19944yesAerial MyceliumWhiteISP 3
19944yesAerial MyceliumWhiteISP 4
19944noISP 5
19944noISP 6
19944noISP 7

multimedia

  • @ref: 10841
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_43173.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10841GYM 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
19944ISP 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
19944ISP 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:
19944ISP 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
19944ISP 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
19944ISP 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
19944ISP 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
33114MEDIUM 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)
10841CZAPEK 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
116385CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57

culture temp

@refgrowthtypetemperaturerange
19944positiveoptimum37mesophilic
10841positivegrowth28mesophilic
33114positivegrowth30mesophilic
67770positivegrowth28mesophilic
116385positivegrowth22-41
116385nogrowth5psychrophilic
116385nogrowth15psychrophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
19944NaClpositivemaximum2.5 %
116385NaClpositivegrowth0-2 %
116385NaClnogrowth4 %
116385NaClnogrowth6 %
116385NaClnogrowth8 %
116385NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H2), MK-9, MK-9(III,VIII-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-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
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-fructose-builds acid from15824
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
68371D-ribose-builds acid from16988
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
116385citrate-carbon source16947
116385esculin-hydrolysis4853
116385nitrate-reduction17632
116385nitrite-reduction16301
116385nitrate-respiration17632

antibiotic resistance

  • @ref: 116385
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
11638535581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin-
6836835581indole-
11638515688acetoin-
11638517234glucose-

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
116385oxidase+
116385alcohol dehydrogenase-1.1.1.1
116385gelatinase+/-
116385amylase-
116385DNase-
116385caseinase-3.4.21.50
116385catalase+1.11.1.6
116385tween esterase-
116385gamma-glutamyltransferase+2.3.2.2
116385lecithinase-
116385lipase-
116385lysine decarboxylase-4.1.1.18
116385ornithine decarboxylase-4.1.1.17
116385phenylalanine ammonia-lyase-4.3.1.24
116385protease+
116385tryptophan deaminase-
116385urease+3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382cystine arylamidase-3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase-3.1.3.2
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
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
19944+-+-+--++-++--+-+--
116385++--++-++---+-++----

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19944-+++--+---+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116385------------------------+/------------------------+/-

Isolation, sampling and environmental information

isolation

@refsample typecountrycontinentorigin.country
10841soil, a vineyard in the GeorgianUSSRAsia
67770Soil at vineyardGeorgiaAsiaGEO
116385Environment, SoilGeorgiaAsiaGEO

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Vineyard
#Environmental#Terrestrial#Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
108411Risk group (German classification)
199441German classification
1163851Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Microtetraspora angiospora 16S rRNA gene
  • accession: U48843
  • length: 1411
  • database: ena
  • NCBI tax ID: 46172

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nonomuraea angiospora DSM 43173GCA_014873145contigncbi46172
66792Nonomuraea angiospora strain DSM 4317346172.3wgspatric46172
66792Nonomuraea angiospora DSM 431732873472684draftimg46172

GC content

  • @ref: 67770
  • GC-content: 66
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes85.19no
anaerobicno98.827no
halophileno90.74no
spore-formingyes94.307no
glucose-utilyes88.965no
aerobicyes91.718no
flagellatedno98.074no
thermophileno98.092yes
motileno91.544no
glucose-fermentno91.567no

External links

@ref: 10841

culture collection no.: DSM 43173, IFO 13155, KCC A-0109, NBRC 13155, JCM 3109, BCRC 13334, CGMCC 4.1229, CIP 107357, IMSNU 20088, IMSNU 22183, KCTC 9191, KCTC 9261, MTCC 1545, NBIMCC 1594, NRRL B-3905, CCRC 13334, KCC A-109, AS 4.1229

straininfo link

  • @ref: 85577
  • straininfo: 92982

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22389281Nonomuraea jabiensis sp. nov., isolated from arid soil.Camas M, Sazak A, Sproer C, Klenk HP, Cetin D, Guven K, Sahin NInt J Syst Evol Microbiol10.1099/ijs.0.039362-02012Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nigeria, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny26944798Classification of Nonomuraea sp. ATCC 39727, an actinomycete that produces the glycopeptide antibiotic A40926, as Nonomuraea gerenzanensis sp. nov.Dalmastri C, Gastaldo L, Marcone GL, Binda E, Congiu T, Marinelli FInt J Syst Evol Microbiol10.1099/ijsem.0.0008102016Actinomycetales/*classification/genetics/isolation & purification, Anti-Bacterial Agents/biosynthesis, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, India, Muramic Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Teicoplanin/*analogs & derivatives/biosynthesis, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny28853687Nonomuraea stahlianthi sp. nov., an endophytic actinomycete isolated from the stem of Stahlianthus campanulatus.Niemhom N, Chutrakul C, Suriyachadkun C, Thawai CInt J Syst Evol Microbiol10.1099/ijsem.0.0020452017Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Plant Stems/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/chemistry, Zingiberaceae/*microbiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
10841Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43173)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43173
19944Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43173.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
33114Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4784
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
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
85577Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92982.1StrainInfo: A central database for resolving microbial strain identifiers
116385Curators of the CIPCollection of Institut Pasteur (CIP 107357)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107357