Strain identifier

BacDive ID: 131252

Type strain: Yes

Species: Cupriavidus alkaliphilus

Strain Designation: ASC-732

Strain history: CIP <- 2011, P. Estrada de los Santos, UNAM, Cuernavaca, Morelos, Mexico: strain ASC-732

NCBI tax ID(s): 942866 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 22479

BacDive-ID: 131252

DSM-Number: 28880

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, oval-shaped

description: Cupriavidus alkaliphilus ASC-732 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from agave rhizosphere.

NCBI tax id

  • NCBI tax id: 942866
  • Matching level: species

strain history

@refhistory
22479<- CIP <- P. Estrada-de los Santos, Centro de Ciencias Genómicas Universidad Nacional Autonoma de Mexico; ASC-732
116245CIP <- 2011, P. Estrada de los Santos, UNAM, Cuernavaca, Morelos, Mexico: strain ASC-732

doi: 10.13145/bacdive131252.20230509.8.1

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 alkaliphilus
  • full scientific name: Cupriavidus alkaliphilus Estrada-de Los Santos et al. 2012

@ref: 22479

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Cupriavidus

species: Cupriavidus alkaliphilus

full scientific name: Cupriavidus alkaliphilus Estrada-de Los Santos et al. 2012

strain designation: ASC-732

type strain: yes

Morphology

cell morphology

  • @ref: 116245
  • gram stain: negative
  • cell shape: oval-shaped
  • motility: no

multimedia

  • @ref: 22479
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_28880.jpg
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
39790MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
22479TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yesName: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/535
116245CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116245CIP Medium 368yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=368

culture temp

@refgrowthtypetemperaturerange
22479positivegrowth28mesophilic
39790positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116245
  • oxygen tolerance: obligate aerobe

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
6836830849L-arabinose-fermentation
6836827613amygdalin-fermentation
6836828053melibiose-fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol-fermentation
6836817634D-glucose-fermentation
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
11624517632nitrate+reduction
11624516301nitrite+reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
11624535581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-test
6836935581indole-
6836815688acetoin-
6836835581indole-

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68368cytochrome oxidase+1.9.3.1
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
116245oxidase+
116245catalase+1.11.1.6
116245urease-3.5.1.5
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

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116245-++--+----+---------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
22479--------------------+

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
22479+-------------++-+-++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
22479agave rhizosphereTamaulipas, San CarlosMexicoMEXNorth America
116245Environment, Agave rhizosphereSan Carlos, TamaulipasMexicoMEXNorth America2008

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Rhizosphere

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
224791Risk group (German classification)
1162451Risk group (French classification)

Sequence information

16S sequences

  • @ref: 22479
  • description: Cupriavidus alkaliphilus strain ASC-732 16S ribosomal RNA gene, partial sequence
  • accession: HQ438078
  • length: 1520
  • database: ena
  • NCBI tax ID: 942866

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cupriavidus alkaliphilus ASC-732GCA_900094595scaffoldncbi942866
66792Cupriavidus alkaliphilus ASC-7322671180232draftimg942866

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes87.54no
flagellatedno62.259no
gram-positiveno98.139no
anaerobicno99.046no
aerobicyes94.537no
halophileno94.011no
spore-formingno93.853no
glucose-fermentno90.644yes
thermophileno98.255yes
glucose-utilno69.17yes

External links

@ref: 22479

culture collection no.: DSM 28880, CIP 110330, LMG 26294

straininfo link

  • @ref: 89696
  • straininfo: 375958

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22738764Cupriavidus alkaliphilus sp. nov., a new species associated with agricultural plants that grow in alkaline soils.Estrada-de los Santos P, Martinez-Aguilar L, Lopez-Lara IM, Caballero-Mellado JSyst Appl Microbiol10.1016/j.syapm.2012.05.0052012Agriculture, Base Composition, Cupriavidus/*classification/genetics/*isolation & purification, Hydrogen-Ion Concentration, Mexico, Phylogeny, *Rhizosphere, Soil/chemistry, Soil MicrobiologyEnzymology
Phylogeny27001671Cupriavidus nantongensis sp. nov., a novel chlorpyrifos-degrading bacterium isolated from sludge.Sun LN, Wang DS, Yang ED, Fang LC, Chen YF, Tang XY, Hua RMInt J Syst Evol Microbiol10.1099/ijsem.0.0010342016Bacterial Typing Techniques, Base Composition, China, Chlorpyrifos/*metabolism, Cupriavidus/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Ubiquinone/chemistryTranscriptome
Genetics27660789Draft Genome Sequence of Heavy Metal-Resistant Cupriavidus alkaliphilus ASC-732T, Isolated from Agave Rhizosphere in the Northeast of Mexico.Rojas-Rojas FU, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Markowitz V, Ivanova N, Kyrpides N, Woyke T, Shapiro N, Ibarra JA, Estrada-de Los Santos PGenome Announc10.1128/genomeA.01013-162016Phylogeny
Phylogeny30317454Cupriavidus lacunae sp. nov., isolated from pond-side soil.Feng T, Kim KH, Oh J, Jeon COAntonie Van Leeuwenhoek10.1007/s10482-018-1187-52018Bacterial Typing Techniques, Base Composition, Cupriavidus/classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Ponds/*microbiology, RNA, Ribosomal, 16S/genetics, Republic of Korea, Soil/chemistry, *Soil MicrobiologyMetabolism
Metabolism31022352Comparative genome analysis of completely sequenced Cupriavidus genomes provides insights into the biosynthetic potential and versatile applications of Cupriavidus alkaliphilus ASC-732.Kutralam-Muniasamy G, Perez-Guevara FCan J Microbiol10.1139/cjm-2019-00272019Bacterial Proteins/genetics/metabolism, Cupriavidus/enzymology/*genetics/metabolism, *Genome, Bacterial, Mexico, Pentose Phosphate Pathway, Photosynthesis, Polyhydroxyalkanoates/biosynthesis, Polysaccharides, Bacterial/biosynthesis, RhizosphereGenetics

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
22479Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28880Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28880)
39790Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8177
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68368Automatically annotated from API 20E
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
89696Reimer, 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-ID375958.1
116245Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110330Collection of Institut Pasteur (CIP 110330)