Strain identifier

BacDive ID: 16569

Type strain: Yes

Species: Nonomuraea wenchangensis

Strain Designation: 210417

Strain history: CGMCC 4.5598 <-- F. Wang et al. 210417.

NCBI tax ID(s): 568860 (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: 17275

BacDive-ID: 16569

DSM-Number: 45477

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

description: Nonomuraea wenchangensis 210417 is a spore-forming, mesophilic, Gram-positive bacterium that builds an aerial mycelium and was isolated from rhizosphere soil of the mangrove Bruguiera sexangula.

NCBI tax id

  • NCBI tax id: 568860
  • Matching level: species

strain history

@refhistory
17275<- K. Hong, Chinese Acad. Tropical Agricult. Sci., Haikou, China; 210417 <- X. Xu
67770CGMCC 4.5598 <-- F. Wang et al. 210417.

doi: 10.13145/bacdive16569.20230509.8.1

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 wenchangensis
  • full scientific name: Nonomuraea wenchangensis Wang et al. 2011

@ref: 17275

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptosporangiaceae

genus: Nonomuraea

species: Nonomuraea wenchangensis

full scientific name: Nonomuraea wenchangensis Wang et al. 2011

strain designation: 210417

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

colony morphology

@refcolony colormedium used
69398Ivory (1014)ISP 7
69398Ivory (1014)suter with tyrosine
69398Light ivory (1015)ISP 5
69398Light ivory (1015)suter without tyrosine
69398Red orange (2001)ISP 2
69398Salmon pink (3022)ISP 3
69398Sand yellow (1002)ISP 4
69398Signal orange (2010)ISP 6

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
69398yesAerial myceliumSignal white (9003)ISP 2
69398yesAerial myceliumPure white (9010)ISP 3
69398noAerial myceliumISP 4
69398noAerial myceliumISP 5
69398noAerial myceliumISP 6
69398yesAerial myceliumISP 7
69398noAerial myceliumsuter with tyrosine
69398noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69398noMelanin
69398yessoluble pigmentLight ivory (1015)

multimedia

@refmultimedia contentcaptionintellectual property rights
69398DSM_45477_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69398DSM_45477_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17275GYM 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
17275TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf
17275GPHF-MEDIUM (DSMZ Medium 553)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium553.pdf

culture temp

@refgrowthtypetemperaturerange
17275positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

  • @ref: 69398
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-2.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H6), MK-9(H2), MK-9(H0)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6939822599arabinose+growth
6939862968cellulose+growth
6939828757fructose+growth
6939817234glucose+growth
6939817268inositol+growth
6939837684mannose+growth
6939816634raffinose+growth
6939826546rhamnose+growth
6939817992sucrose+growth
6939818222xylose+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
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)+
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
68382naphthol-AS-BI-phosphohydrolase+
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
69398+--+------+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69398+++/--++/---++++/---+----

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
17275rhizosphere soil of the mangrove Bruguiera sexangulaBruguiera sexangulaWenchang, Hainan provinceChinaCHNAsia
67770Mangrove rhizosphere soil from WenchangHainanChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Mangrove
#Environmental#Terrestrial#Soil
#Host#Plants#Shrub (Scrub)
#Host Body-Site#Plant#Rhizosphere

taxonmaps

  • @ref: 69479
  • File name: preview.99_6245.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_2032;97_2449;98_4626;99_6245&stattab=map
  • Last taxonomy: Nonomuraea
  • 16S sequence: FJ261959
  • Sequence Identity:
  • Total samples: 343
  • soil counts: 206
  • aquatic counts: 3
  • animal counts: 12
  • plant counts: 122

Safety information

risk assessment

  • @ref: 17275
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17275
  • description: Nonomuraea wenchangensis strain 210417 16S ribosomal RNA gene, partial sequence
  • accession: FJ261959
  • length: 1484
  • database: ena
  • NCBI tax ID: 568860

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nonomuraea wenchangensis strain CGMCC 4.5598568860.3wgspatric568860
66792Nonomuraea wenchangensis CGMCC 4.55982675903060draftimg568860
67770Nonomuraea wenchangensis CGMCC 4.5598GCA_900111685scaffoldncbi568860

GC content

  • @ref: 17275
  • GC-content: 72
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes87.263no
anaerobicno98.373no
halophileno92.307no
spore-formingyes94.281no
glucose-utilyes89.183yes
thermophileno98.536yes
flagellatedno97.677no
motileno91.725no
aerobicyes89.523no
glucose-fermentno92.198yes

External links

@ref: 17275

culture collection no.: DSM 45477, CGMCC 4.5598, JCM 18322

straininfo link

  • @ref: 85596
  • straininfo: 404648

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20639224Nonomuraea wenchangensis sp. nov., isolated from mangrove rhizosphere soil.Wang F, Xu XX, Qu Z, Wang C, Lin HP, Xie QY, Ruan JS, Sun M, Hong KInt J Syst Evol Microbiol10.1099/ijs.0.025742-02010Actinomycetales/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Muramic Acids/analysis, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizophoraceae/growth & development, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analysisGenetics
Phylogeny23203622Nonomuraea solani sp. nov., an actinomycete isolated from eggplant root (Solanum melongena L.).Wang X, Zhao J, Liu C, Wang J, Shen Y, Jia F, Wang L, Zhang J, Yu C, Xiang WInt J Syst Evol Microbiol10.1099/ijs.0.045617-02012Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, *Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Solanum melongena/*microbiologyGenetics
Phylogeny24368692Nonomuraea fuscirosea sp. nov., an actinomycete isolated from the rhizosphere soil of rehmannia (Rehmannia glutinosa Libosch).Zhang X, Zhang Y, Zhao J, Liu C, Wang S, Yang L, He H, Xiang W, Wang XInt J Syst Evol Microbiol10.1099/ijs.0.057877-02013Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rehmannia/*microbiology, *Rhizosphere, Sequence Analysis, DNA, Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17275Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45477)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45477
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
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69398Wink, J.https://cdn.dsmz.de/wink/DSM%2045477.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
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
85596Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID404648.1StrainInfo: A central database for resolving microbial strain identifiers