Strain identifier

BacDive ID: 2038

Type strain: Yes

Species: Cupriavidus metallidurans

Strain Designation: CH34

Strain history: CIP <- 2001, CCUG <- 1983, LMG <- 1982, M. Mergeay, Pseudomonas palleronii, strain: CH34

NCBI tax ID(s): 119219 (species)

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General

@ref: 1235

BacDive-ID: 2038

DSM-Number: 2839

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Cupriavidus metallidurans CH34 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from decantation tank of zink factory.

NCBI tax id

  • NCBI tax id: 119219
  • Matching level: species

strain history

@refhistory
1235<- H.G. Schlegel <- M. Mergeay, strain CH34 (Ralstonia eutropha)
120919CIP <- 2001, CCUG <- 1983, LMG <- 1982, M. Mergeay, Pseudomonas palleronii, strain: CH34

doi: 10.13145/bacdive2038.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Burkholderiaceae
  • genus: Cupriavidus
  • species: Cupriavidus metallidurans
  • full scientific name: Cupriavidus metallidurans (Goris et al. 2001) Vandamme and Coenye 2004

  • synonyms

    @refsynonym
    20215Wautersia metallidurans
    20215Ralstonia metallidurans

@ref: 1235

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Cupriavidus

species: Cupriavidus metallidurans

full scientific name: Cupriavidus metallidurans (Goris et al. 2001) Vandamme and Coenye 2004

strain designation: CH34

type strain: yes

Morphology

cell morphology

  • @ref: 120919
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1235MINERAL MEDIUM FOR CHEMOLITHOTROPHIC GROWTH (H-3) (DSMZ Medium 81)yeshttps://mediadive.dsmz.de/medium/81Name: MINERAL MEDIUM FOR CHEMOLITHOTROPHIC GROWTH (H-3) (DSMZ Medium 81) Composition: Agar 20.1005 g/l Na2HPO4 x 2 H2O 2.91457 g/l KH2PO4 2.31156 g/l NH4Cl 1.00503 g/l MgSO4 x 7 H2O 0.502512 g/l Ferric ammonium citrate 0.0502513 g/l CaCl2 x 2 H2O 0.0100503 g/l NaVO3 x H2O 0.00502512 g/l Calcium pantothenate 0.00251256 g/l Pyridoxine hydrochloride 0.00251256 g/l Nicotinic acid 0.00251256 g/l Thiamine-HCl x 2 H2O 0.00251256 g/l H3BO3 0.00150754 g/l CoCl2 x 6 H2O 0.00100503 g/l Riboflavin 0.000502513 g/l ZnSO4 x 7 H2O 0.000502513 g/l MnCl2 x 4 H2O 0.000150754 g/l Na2MoO4 x 2 H2O 0.000150754 g/l NiCl2 x 6 H2O 0.000100503 g/l CuCl2 x 2 H2O 5.02513e-05 g/l Vitamin B12 5.02513e-05 g/l Folic acid 1.00503e-05 g/l Biotin 5.02513e-06 g/l Distilled water
1235NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
40692MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120919CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
1235positivegrowth30mesophilic
40692positivegrowth30mesophilic
120919positivegrowth25-30mesophilic
120919nogrowth5psychrophilic
120919nogrowth10psychrophilic
120919nogrowth37mesophilic
120919nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120919
  • oxygen tolerance: facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
120919NaClpositivegrowth0-4 %
120919NaClnogrowth6 %
120919NaClnogrowth8 %
120919NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12091916947citrate+carbon source
1209194853esculin-hydrolysis
12091917632nitrate+reduction
12091916301nitrite+reduction
12091917632nitrate+respiration

antibiotic resistance

  • @ref: 120919
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 120919
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase-3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
120919oxidase+
120919beta-galactosidase-3.2.1.23
120919alcohol dehydrogenase+1.1.1.1
120919gelatinase-
120919amylase-
120919DNase-
120919caseinase-3.4.21.50
120919catalase+1.11.1.6
120919tween esterase+
120919lecithinase-
120919lipase-
120919lysine decarboxylase-4.1.1.18
120919ornithine decarboxylase+4.1.1.17
120919protease+
120919tryptophan deaminase-
120919urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120919-+++----------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120919-------------------------------+-----------++-+++++-++-----+++++-+-+-------+++-++++---+++++++++-++-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
1235decantation tank of zink factoryBelgiumBELEurope
120919Environment, Waste water, zinc factoryBelgiumBELEurope

isolation source categories

Cat1Cat2Cat3
#Engineered#Built environment#Container (Reservoir)
#Engineered#Industrial#Engineered product
#Engineered#Industrial#Plant (Factory)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
12351Risk group (German classification)
1209191Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Ralstonia sp. CH34 16S rRNA gene, strain CH34Y108241493ena266264
20218Cupriavidus metallidurans strain CIP 107179 16S ribosomal RNA gene, partial sequenceEU0241611315ena119219
20218Cupriavidus metallidurans gene for 16S ribosomal RNA, strain: DSM 2839D879991462ena119219
20218Cupriavidus metallidurans gene for 16S rRNA, partial sequence, strain: NBRC 102507AB6818411457ena119219

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cupriavidus metallidurans CH34GCA_000196015completencbi266264
66792Cupriavidus metallidurans CH34266264.41plasmidpatric266264
66792Cupriavidus metallidurans CH34266264.9completepatric266264
66792Cupriavidus metallidurans CH34266264.42plasmidpatric266264
66792Cupriavidus metallidurans CH34266264.43plasmidpatric266264
66792Cupriavidus metallidurans CH34266264.44plasmidpatric266264
66792Cupriavidus metallidurans CH34266264.40plasmidpatric266264
66792Cupriavidus metallidurans CH34637000230completeimg266264

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes87.591no
flagellatedyes50.629no
gram-positiveno98.616no
anaerobicno98.872no
aerobicyes87.217no
halophileno94.49no
spore-formingno94.844no
thermophileno99.132yes
glucose-utilno63.808no
glucose-fermentno92.147no

External links

@ref: 1235

culture collection no.: DSM 2839, LMG 1195, CIP 107179, CCUG 13724, ATCC 43123

straininfo link

  • @ref: 71685
  • straininfo: 694

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11594608Classification of metal-resistant bacteria from industrial biotopes as Ralstonia campinensis sp. nov., Ralstonia metallidurans sp. nov. and Ralstonia basilensis Steinle et al. 1998 emend.Goris J, De Vos P, Coenye T, Hoste B, Janssens D, Brim H, Diels L, Mergeay M, Kersters K, Vandamme PInt J Syst Evol Microbiol10.1099/00207713-51-5-17732001Bacterial Proteins/chemistry, Base Composition, Betaproteobacteria/*classification/*drug effects/metabolism, DNA, Ribosomal/analysis, *Drug Resistance, Bacterial, Electrophoresis, Polyacrylamide Gel, Fatty Acids/analysis, *Industrial Microbiology, Metals, Heavy/*pharmacology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAEnzymology
Phylogeny15545472Taxonomy of the genus Cupriavidus: a tale of lost and found.Vandamme P, Coenye TInt J Syst Evol Microbiol10.1099/ijs.0.63247-02004Bacterial Proteins/analysis/isolation & purification, Base Composition, Burkholderiaceae/*classification/genetics/physiology, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Genes, rRNA/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Proteome/analysis/isolation & purification, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAEnzymology
Metabolism17386670Methods for extracting biochemical information from bacterial Raman spectra: an explorative study on Cupriavidus metallidurans.De Gelder J, De Gussem K, Vandenabeele P, De Vos P, Moens LAnal Chim Acta10.1016/j.aca.2006.12.0502007Acetyl Coenzyme A/chemistry, Bacteria/*metabolism, Chemistry Techniques, Analytical/*methods, Citric Acid/chemistry, Citric Acid Cycle, Cupriavidus/*metabolism, Models, Chemical, Phenylalanine/chemistry, Spectrum Analysis, Raman/*methods, Tyrosine/chemistry

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1235Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2839)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2839
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
40692Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4586
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)
68382Automatically annotated from API zym
71685Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID694.1StrainInfo: A central database for resolving microbial strain identifiers
120919Curators of the CIPCollection of Institut Pasteur (CIP 107179)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107179