Strain identifier

BacDive ID: 2045

Type strain: Yes

Species: Cupriavidus respiraculi

Strain Designation: AU3313

Strain history: CIP <- 2003, CCUG <- LMG <- J.J. LiPuma, Ann Arbor, MI, USA: strain AU3313

NCBI tax ID(s): 195930 (species)

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General

@ref: 6934

BacDive-ID: 2045

DSM-Number: 17358

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped, human pathogen

description: Cupriavidus respiraculi AU3313 is an aerobe, mesophilic, Gram-negative human pathogen that was isolated from respiratory tract of patient with cystic fibrosis.

NCBI tax id

  • NCBI tax id: 195930
  • Matching level: species

strain history

@refhistory
6934<- CCUG <- LMG, Gent <- J. J. LiPuma, Ann Arbor, Mi, USA; AU3313
122164CIP <- 2003, CCUG <- LMG <- J.J. LiPuma, Ann Arbor, MI, USA: strain AU3313

doi: 10.13145/bacdive2045.20230509.8.1

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 respiraculi
  • full scientific name: Cupriavidus respiraculi (Coenye et al. 2003) Vandamme and Coenye 2004

  • synonyms

    @refsynonym
    20215Wautersia respiraculi
    20215Ralstonia respiraculi

@ref: 6934

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Cupriavidus

species: Cupriavidus respiraculi

full scientific name: Cupriavidus respiraculi (Coenye et al. 2003) Vandamme and Coenye 2004

strain designation: AU3313

type strain: yes

Morphology

cell morphology

  • @ref: 122164
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6934CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
38257MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
122164CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6
122164CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
6934positivegrowth30mesophilic
38257positivegrowth37mesophilic
57356positivegrowth30-41
122164positivegrowth25-41
122164nogrowth5psychrophilic
122164nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
57356aerobe
122164obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
122164NaClpositivegrowth0-4 %
122164NaClnogrowth6 %
122164NaClnogrowth8 %
122164NaClnogrowth10 %

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
12216416947citrate-carbon source
1221644853esculin-hydrolysis
12216417632nitrate-reduction
12216416301nitrite-reduction
12216417632nitrate-respiration

antibiotic resistance

  • @ref: 122164
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12216435581indoleno

metabolite tests

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

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
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
122164oxidase+
122164beta-galactosidase-3.2.1.23
122164alcohol dehydrogenase-1.1.1.1
122164gelatinase-
122164amylase-
122164DNase-
122164caseinase-3.4.21.50
122164catalase+1.11.1.6
122164tween esterase-
122164lysine decarboxylase-4.1.1.18
122164ornithine decarboxylase-4.1.1.17
122164tryptophan deaminase-
122164urease-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
122164--++-+-----+--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
6934--------------++++-++
6934--------------++++--+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122164-------------------------------+--------------++-+--+-----+-++-----------+-+++-++++----++++++++-+++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling date
6934respiratory tract of patient with cystic fibrosisUSAUSANorth America
57356Human respiratory tract,cystic fibrosisUSAUSANorth America2001
122164Human, Respiratory tractUnited States of AmericaUSANorth America

isolation source categories

Cat1Cat2Cat3
#Infection#Disease#Cystic fibrosis
#Infection#Patient
#Host Body-Site#Oral cavity and airways#Airways

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
6934yes, in single cases1Risk group (German classification)
1221641Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6934
  • description: Ralstonia sp. AU3313 16S ribosomal RNA gene, partial sequence
  • accession: AF500583
  • length: 1457
  • database: ena
  • NCBI tax ID: 195930

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cupriavidus respiraculi LMG 21510GCA_914271545contigncbi195930
66792Cupriavidus respiraculi strain LMG 21510195930.4wgspatric195930
66792Cupriavidus respiraculi strain LMG 21510195930.10wgspatric195930
66792Cupriavidus respiraculi strain LMG 21510195930.6wgspatric195930
66792Cupriavidus respiraculi strain LMG 21510195930.8wgspatric195930

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes88.432no
gram-positiveno98.52no
anaerobicno98.343no
aerobicyes91.993no
halophileno93.38no
spore-formingno94.716no
glucose-utilno55.998no
flagellatedyes52.615no
thermophileno98.816yes
glucose-fermentno91.472no

External links

@ref: 6934

culture collection no.: DSM 17358, CCM 7175, CCUG 46809, CIP 108131, LMG 21510

straininfo link

  • @ref: 71692
  • straininfo: 94684

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny13130016Ralstonia respiraculi sp. nov., isolated from the respiratory tract of cystic fibrosis patients.Coenye T, Vandamme P, LiPuma JJInt J Syst Evol Microbiol10.1099/ijs.0.02440-02003Cystic Fibrosis/complications/*microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Genes, Bacterial, Gram-Negative Bacterial Infections/complications/microbiology, Humans, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Ralstonia/classification/genetics/*isolation & purification/metabolism, Respiratory System/*microbiologyPathogenicity
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

Reference

@idauthorscataloguedoi/urltitle
6934Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17358)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17358
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
38257Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5720
57356Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 46809)https://www.ccug.se/strain?id=46809
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)
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
71692Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID94684.1StrainInfo: A central database for resolving microbial strain identifiers
122164Curators of the CIPCollection of Institut Pasteur (CIP 108131)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108131