Strain identifier

BacDive ID: 16572

Type strain: Yes

Species: Nonomuraea soli

Strain history: S.-K. Tang and Y.-R. Cao YIM 120770.

NCBI tax ID(s): 1032476 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 17533

BacDive-ID: 16572

DSM-Number: 45533

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

description: Nonomuraea soli DSM 45533 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 1032476
  • Matching level: species

strain history

@refhistory
17533<- S.-K. Tang, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM 120770 <- Y.-R. Cao
67770S.-K. Tang and Y.-R. Cao YIM 120770.

doi: 10.13145/bacdive16572.20230509.8.1

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 soli
  • full scientific name: Nonomuraea soli Cao et al. 2012

@ref: 17533

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptosporangiaceae

genus: Nonomuraea

species: Nonomuraea soli

full scientific name: Nonomuraea soli Cao et al. 2012

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no95.679
69480100positive

colony morphology

@refcolony colormedium used
69402Beige red (3012), Salmon orange (2012)ISP 7
69402Beige red (3012), Salmon orange (2012)suter with tyrosine
69402Beige red (3012), Salmon orange (2012)suter without tyrosine
69402Beige red (3012)ISP 5
69402Beige red (3012), Fawn brown (8007)ISP 3
69402Mahogany brown (8016)ISP 2
69402Salmon orange (2010)ISP 4
69402Sand yellow (1002)ISP 6

multicellular morphology

@refforms multicellular complexcomplex namemedium namecomplex color
69402noAerial myceliumISP 2
69402yesAerial myceliumISP 3Traffic white (9016), grey white (9002)
69402noAerial myceliumISP 4
69402yesAerial myceliumISP 5Traffic white (9016), light pink (3015)
69402noAerial myceliumISP 6
69402yesAerial myceliumISP 7Traffic white (9016), light pink (3015)
69402yesAerial myceliumsuter with tyrosineTraffic white (9016), light pink (3015)
69402yesAerial myceliumsuter without tyrosineTraffic white (9016), light pink (3015)

pigmentation

@refproductionnamecolor
30383no
69402noMelanin
69402yessoluble pigmentOchre brown (8001), olive brown (8008)

multimedia

@refmultimedia contentcaptionintellectual property rights
69402DSM_45533_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69402DSM_45533_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17533ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf
17533GPHF-MEDIUM (DSMZ Medium 553)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium553.pdf
17533GYM 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

culture temp

@refgrowthtypetemperaturerange
17533positivegrowth28mesophilic
30383positivegrowth15-37
30383positiveoptimum28mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepH
30383positivegrowth07-08
30383positiveoptimum7

Physiology and metabolism

spore formation

@refspore formationconfidence
30383yes
69481yes92
69480yes100

halophily

@refsaltgrowthtested relationconcentration
30383NaClpositivegrowth0-3 %
69402NaClpositivegrowth0 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H6), MK-9(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6940222599arabinose+growth
3038317234glucose+carbon source
3038317754glycerol+carbon source
3038317306maltose+carbon source
3038329864mannitol+carbon source
3038337684mannose+carbon source
3038316634raffinose+carbon source
3038326546rhamnose+carbon source
3038330911sorbitol+carbon source
3038330031succinate+carbon source
3038317151xylitol+carbon source
3038318222xylose+carbon source
3038317632nitrate+reduction
6940262968cellulose+/-growth
6940228757fructose+growth
6940217234glucose+growth
6940217268inositol+growth
6940237684mannose+growth
6940216634raffinose+/-growth
6940226546rhamnose+growth
6940217992sucrose+growth
6940218222xylose+growth
6837917632nitrate+reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin+hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
30383catalase+1.11.1.6
30383cytochrome oxidase+1.9.3.1
68379gelatinase+
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase+3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
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
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69402+--+-++---+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69402+++/-+/-++--+/-++++-+++--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17533soilYunnan, Weibao MountainChinaCHNAsia
67770SoilWeibao Mountain, south-west ChinaChinaCHNAsia

isolation source categories

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

Safety information

risk assessment

  • @ref: 17533
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17533
  • description: Nonomuraea soli strain YIM 120770 16S ribosomal RNA gene, partial sequence
  • accession: JF742631
  • length: 1524
  • database: ena
  • NCBI tax ID: 1032476

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nonomuraea soli DSM 45533GCA_013761175scaffoldncbi1032476
66792Nonomuraea soli strain DSM 455331032476.3wgspatric1032476
66792Nonomuraea soli DSM 455332861178129draftimg1032476

GC content

@refGC-contentmethod
1753366.4high performance liquid chromatography (HPLC)
3038366.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes92no
motileno91.521no
flagellatedno97.041no
gram-positiveyes83.59no
anaerobicno98.931no
aerobicyes89.096no
halophileno92.357yes
spore-formingyes94.252no
thermophileno98.331yes
glucose-utilyes88.02yes
glucose-fermentno91.752yes

External links

@ref: 17533

culture collection no.: DSM 45533, JCM 17347, YIM 120770

straininfo link

  • @ref: 85599
  • straininfo: 63335

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21890732Nonomuraea soli sp. nov., an actinomycete isolated from soil.Cao YR, Jin RX, Jiang Y, He WX, Jiang CLInt J Syst Evol Microbiol10.1099/ijs.0.034751-02011Actinomycetales/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Hydrogen-Ion Concentration, Microscopy, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil Microbiology, Spores, Bacterial/cytology, TemperatureGenetics
Phylogeny30792520Nonomuraea suaedae sp. nov., isolated from rhizosphere soil of Suaeda maritima (L.) Dumort.Lipun K, Teo WFA, Tongpan J, Matsumoto A, Duangmal KJ Antibiot (Tokyo)10.1038/s41429-019-0159-y2019Actinomycetales/classification/isolation & purification/*metabolism, Bacterial Typing Techniques, Chenopodiaceae/*microbiology, Classification, DNA, Bacterial/genetics/isolation & purification, Fatty Acids/metabolism, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Soil Microbiology, ThailandEnzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17533Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45533)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45533
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
30383Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2672228776041
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/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69402Wink, J.https://cdn.dsmz.de/wink/DSM%2045533.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
85599Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID63335.1StrainInfo: A central database for resolving microbial strain identifiers