Strain identifier

BacDive ID: 14287

Type strain: Yes

Species: Sphingopyxis bauzanensis

Strain Designation: BZ30

Strain history: <- R. Margesin, Inst. Microbiology, Univ. Innsbruck, Austria; BZ30

NCBI tax ID(s): 651663 (species)

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General

@ref: 16247

BacDive-ID: 14287

DSM-Number: 22271

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

description: Sphingopyxis bauzanensis BZ30 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from hydrocarbon-contaminated soil.

NCBI tax id

  • NCBI tax id: 651663
  • Matching level: species

strain history

  • @ref: 16247
  • history: <- R. Margesin, Inst. Microbiology, Univ. Innsbruck, Austria; BZ30

doi: 10.13145/bacdive14287.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Sphingomonadaceae
  • genus: Sphingopyxis
  • species: Sphingopyxis bauzanensis
  • full scientific name: Sphingopyxis bauzanensis Zhang et al. 2010

@ref: 16247

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Sphingopyxis

species: Sphingopyxis bauzanensis

full scientific name: Sphingopyxis bauzanensis Zhang et al. 2010

strain designation: BZ30

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29663negative0.8-1.1 µm0.4-0.6 µmrod-shapedyes
69480negative99.985

pigmentation

  • @ref: 29663
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 16247
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16247positivegrowth28mesophilic
29663positivegrowth01-30
29663positivegrowth01-05psychrophilic

culture pH

@refabilitytypepH
29663positivegrowth06-08
29663positiveoptimum06-08

Physiology and metabolism

oxygen tolerance

  • @ref: 29663
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no96
69480no99.984

halophily

@refsaltgrowthtested relationconcentration
29663NaClpositivegrowth0-3 %
29663NaClpositiveoptimum0-3 %

observation

  • @ref: 29663
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2966317234glucose+carbon source
2966325115malate+carbon source
2966317306maltose+carbon source
296634853esculin+hydrolysis
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
29663acid phosphatase+3.1.3.2
29663alkaline phosphatase+3.1.3.1
29663catalase+1.11.1.6
29663cytochrome oxidase+1.9.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
16247-----+--+----+--++--+

Isolation, sampling and environmental information

isolation

  • @ref: 16247
  • sample type: hydrocarbon-contaminated soil
  • geographic location: South Tyrol, Bozen
  • country: Italy
  • origin.country: ITA
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination
#Environmental#Terrestrial#Soil

Safety information

risk assessment

  • @ref: 16247
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16247
  • description: Sphingopyxis bauzanensis strain BZ30 16S ribosomal RNA gene, partial sequence
  • accession: GQ131578
  • length: 1481
  • database: ena
  • NCBI tax ID: 651663

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Sphingopyxis bauzanensis DSM 22271GCA_002205675scaffoldncbi651663
66792Sphingopyxis bauzanensis CGMCC 1.8959GCA_014645635scaffoldncbi651663
66792Sphingopyxis bauzanensis strain CGMCC 1.8959651663.8wgspatric651663
66792Sphingopyxis bauzanensis strain DSM 22271651663.3wgspatric651663

GC content

@refGC-contentmethod
1624764.4thermal denaturation, midpoint method (Tm)
2966364.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno96no
flagellatedno84.18no
gram-positiveno96.543yes
anaerobicno99.604no
aerobicyes96.185yes
halophileno93.153no
spore-formingno94.149no
thermophileno98.88yes
glucose-utilyes85.485yes
motileyes66.264no
glucose-fermentno93.369yes

External links

@ref: 16247

culture collection no.: DSM 22271, CGMCC 1.8959, CIP 110136

straininfo link

  • @ref: 83441
  • straininfo: 371120

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20023054Sphingopyxis bauzanensis sp. nov., a psychrophilic bacterium isolated from soil.Zhang DC, Liu HC, Xin YH, Zhou YG, Schinner F, Margesin RInt J Syst Evol Microbiol10.1099/ijs.0.018218-02009Cold Temperature, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Sphingomonadaceae/*classification/genetics/*isolation & purification/metabolismMetabolism
Phylogeny23264504Sphingopyxis italica sp. nov., isolated from Roman catacombs.Alias-Villegas C, Jurado V, Laiz L, Saiz-Jimenez CInt J Syst Evol Microbiol10.1099/ijs.0.046573-02012Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rome, Sequence Analysis, DNA, *Soil Microbiology, Sphingomonadaceae/*classification/genetics/isolation & purification, Ubiquinone/analogs & derivatives/analysisGenetics
Genetics28912333Draft Genome Sequence of the Type Strain Sphingopyxis bauzanensis DSM 22271.Kaminski MA, Furmanczyk EM, Dziembowski A, Sobczak A, Lipinski LGenome Announc10.1128/genomeA.01014-172017
Enzymology30391237Distribution and characterization of N-acylhomoserine lactone (AHL)-degrading activity and AHL lactonase gene (qsdS) in Sphingopyxis.Morohoshi T, Kamimura Y, Sato N, Iizumi TJ Biosci Bioeng10.1016/j.jbiosc.2018.10.0052018Amino Acid Sequence, Base Sequence, Biofilms/growth & development, *Carboxylic Ester Hydrolases/analysis/genetics/metabolism, Chromosome Mapping, Cloning, Molecular, Genome, Bacterial, Lactones/*metabolism, Phylogeny, Pseudomonas aeruginosa/enzymology/genetics, Quorum Sensing/genetics, Sequence Analysis, DNA, Sphingomonadaceae/*enzymology/*genetics/physiology, Sphingomonas/enzymology/geneticsMetabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16247Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22271)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22271
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
29663Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2605128776041
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
83441Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID371120.1StrainInfo: A central database for resolving microbial strain identifiers