Strain identifier

BacDive ID: 160439

Type strain: Yes

Species: Pseudonocardia yunnanensis

Strain Designation: Y-11981

Strain history: IFO 15681 <-- C. Jiang Y-11981.

NCBI tax ID(s): 58107 (species)

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General

@ref: 67347

BacDive-ID: 160439

DSM-Number: 112677

keywords: 16S sequence, Bacteria, mesophilic

description: Pseudonocardia yunnanensis Y-11981 is a mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 58107
  • Matching level: species

strain history

@refhistory
67347<- T. Lino, JCM; JCM 9330 <- IFO; NBRC 15681 <- C. Jiang; Y-11981
67770IFO 15681 <-- C. Jiang Y-11981.

doi: 10.13145/bacdive160439.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Pseudonocardia
  • species: Pseudonocardia yunnanensis
  • full scientific name: Pseudonocardia yunnanensis (Jiang et al. 1991) Huang et al. 2002

  • synonyms

    • @ref: 20215
    • synonym: Actinobispora yunnanensis

@ref: 67347

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Pseudonocardiales

family: Pseudonocardiaceae

genus: Pseudonocardia

species: Pseudonocardia yunnanensis

full scientific name: Pseudonocardia yunnanensis (Jiang et al. 1991) Huang et al. 2002

strain designation: Y-11981

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 67347
  • name: ISP2 MEDIUM (DSMZ Medium 987)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/987
  • composition: Name: ISP 2 MEDIUM (DSMZ Medium 987) Composition: Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
67347positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

observation

  • @ref: 67770
  • observation: quinones: MK-8(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate+assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose+assimilation
6836930849L-arabinose+assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
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
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 zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
67347-+---++/----+/-----+----

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
67347-----+-++++-+++--+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
67347soilWeixin, YunnanChinaCHNAsia
67770SoilWeixin, YunnanChinaCHNAsia

taxonmaps

  • @ref: 69479
  • File name: preview.99_24954.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_1626;97_1946;98_18760;99_24954&stattab=map
  • Last taxonomy: Pseudonocardia
  • 16S sequence: D85472
  • Sequence Identity:
  • Total samples: 3998
  • soil counts: 2822
  • aquatic counts: 175
  • animal counts: 266
  • plant counts: 735

Safety information

risk assessment

  • @ref: 67347
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
67770Actinobispora yunnanensis 16S ribosomal RNA gene, partial sequenceAF0567061555ena58107
67770Actinobispora yunnanensis 16S rRNA gene, strain IMSNU 22019TAJ2528221515ena58107
67770Pseudonocardia yunnanensis gene for 16S ribosomal RNA, partial sequenceD854721475ena58107
67770Pseudonocardia yunnanensis strain YIM 11981 16S ribosomal RNA gene, partial sequenceEU7225211514ena58107

GC content

@refGC-contentmethod
6777073.4thermal denaturation, midpoint method (Tm)
6777071thermal denaturation, midpoint method (Tm)

External links

@ref: 67347

culture collection no.: DSM 112677, JCM 9330, NBRC 15681, CCTCC M 90959, BCRC 16359, CGMCC 4.1333, CGMCC 4.1542, DSM 44253, IFO 15681, IMSNU 22019, VKM Ac-1991

straininfo link

  • @ref: 112686
  • straininfo: 88636

literature

  • topic: Phylogeny
  • Pubmed-ID: 20418406
  • title: Pseudonocardia mongoliensis sp. nov. and Pseudonocardia khuvsgulensis sp. nov., isolated from soil.
  • authors: Ara I, Tsetseg B, Daram D, Suto M, Ando K
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.019562-0
  • year: 2010
  • mesh: Actinomycetales/*classification/genetics/*isolation & purification, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, Cytoplasm/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Mongolia, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analysis
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
67347Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-112677Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 112677)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
112686Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID88636.1