Strain identifier

BacDive ID: 13362

Type strain: Yes

Species: Pseudonocardia compacta

Strain Designation: MB H-146

Strain history: <- A. Henssen, MB H-146

NCBI tax ID(s): 33911 (species)

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General

@ref: 11173

BacDive-ID: 13362

DSM-Number: 43592

keywords: 16S sequence, Bacteria, mesophilic

description: Pseudonocardia compacta MB H-146 is a mesophilic bacterium that was isolated from garden soil.

NCBI tax id

  • NCBI tax id: 33911
  • Matching level: species

strain history

  • @ref: 11173
  • history: <- A. Henssen, MB H-146

doi: 10.13145/bacdive13362.20230509.8.1

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 compacta
  • full scientific name: Pseudonocardia compacta Henssen et al. 1983

@ref: 11173

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Pseudonocardia

species: Pseudonocardia compacta

full scientific name: Pseudonocardia compacta Henssen et al. 1983

strain designation: MB H-146

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11173CZAPEK-DOX AGAR (DSMZ Medium 130)yeshttps://mediadive.dsmz.de/medium/130Name: CZAPEK-DOX AGAR (DSMZ Medium 130) Composition: Sucrose 30.0 g/l Agar 13.0 g/l NaNO3 3.0 g/l K2HPO4 1.0 g/l KCl 0.5 g/l MgSO4 x 7 H2O 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Distilled water
11173GYM+S MEDIUM (DSMZ Medium 214)yeshttps://mediadive.dsmz.de/medium/214Name: GYM+S MEDIUM (DSMZ Medium 214) Composition: Starch 20.0 g/l Agar 12.0 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
18496positiveoptimum30mesophilic
11173positivegrowth28mesophilic

Physiology and metabolism

halophily

  • @ref: 18496
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1849617234glucose+
1849622599arabinose-
1849617992sucrose+
1849618222xylose-
1849617268myo-inositol+
1849629864mannitol+
1849628757fructose+
1849626546rhamnose-
1849616634raffinose-
1849662968cellulose-
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

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
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
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+
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

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18496+-+-++-+-++---+----

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18496---------+-

Isolation, sampling and environmental information

isolation

  • @ref: 11173
  • sample type: garden soil

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Engineered#Agriculture#Garden

taxonmaps

  • @ref: 69479
  • File name: preview.99_32456.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_175;97_435;98_24033;99_32456&stattab=map
  • Last taxonomy: Pseudonocardia
  • 16S sequence: EU928971
  • Sequence Identity:
  • Total samples: 339
  • soil counts: 68
  • aquatic counts: 61
  • animal counts: 190
  • plant counts: 20

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
184961German classification
111731Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Pseudonocardia compacta 16S ribosomal RNA gene, partial sequenceEU9289711378ena33911
20218P.compacta (DSM 43592) 16S ribosomal RNA (partial)X769591260ena33911
20218Pseudonocardia compacta 16S rRNA gene, strain IMSNU 20111TAJ2528251510ena33911

External links

@ref: 11173

culture collection no.: DSM 43592, ATCC 35407, CBS 160.82, IFO 14343, JCM 7438, NBRC 14343

straininfo link

  • @ref: 82560
  • straininfo: 63637

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11173Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43592)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43592
18496Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43592.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
68368Automatically annotated from API 20E
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
82560Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID63637.1StrainInfo: A central database for resolving microbial strain identifiers