Strain identifier

BacDive ID: 14197

Type strain: Yes

Species: Sphingobium qiguonii

Strain Designation: X23

Strain history: <- Q. Hong, Key Lab. of Microbiological Engineering of Agricultural Environment, Nanjing Agric. Univ.; X23 <- Q.-X. Yan, the same

NCBI tax ID(s): 463825 (species)

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General

@ref: 15777

BacDive-ID: 14197

DSM-Number: 21541

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

description: Sphingobium qiguonii X23 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from wastewater treatment system of a pesticide manufacturing company.

NCBI tax id

  • NCBI tax id: 463825
  • Matching level: species

strain history

  • @ref: 15777
  • history: <- Q. Hong, Key Lab. of Microbiological Engineering of Agricultural Environment, Nanjing Agric. Univ.; X23 <- Q.-X. Yan, the same

doi: 10.13145/bacdive14197.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 15777

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Sphingobium

species: Sphingobium qiguonii

full scientific name: Sphingobium qiguonii Yan et al. 2010

strain designation: X23

type strain: yes

Morphology

cell morphology

  • @ref: 29764
  • gram stain: negative
  • cell length: 1-1.2 µm
  • cell width: 0.6-0.8 µm
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 29764
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 15777
  • name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/381
  • composition: Name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) Composition: Agar 20.0 g/l NaCl 10.0 g/l Tryptone 10.0 g/l Yeast extract 5.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
15777positivegrowth28mesophilic
29764positivegrowth04-42
29764positiveoptimum28mesophilic

culture pH

@refabilitytypepH
29764positivegrowth05-08
29764positiveoptimum06-07

Physiology and metabolism

oxygen tolerance

  • @ref: 29764
  • oxygen tolerance: aerobe

spore formation

  • @ref: 29764
  • spore formation: no

observation

  • @ref: 29764
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2976430089acetate+carbon source
2976416449alanine+carbon source
2976422599arabinose+carbon source
2976435391aspartate+carbon source
2976416947citrate+carbon source
2976423652dextrin+carbon source
2976428757fructose+carbon source
2976424265gluconate+carbon source
2976417234glucose+carbon source
2976424996lactate+carbon source
2976417306maltose+carbon source
2976451850methyl pyruvate+carbon source
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
29764catalase+1.11.1.6
29764cytochrome 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
15777--------++-----+----+

Isolation, sampling and environmental information

isolation

  • @ref: 15777
  • sample type: wastewater treatment system of a pesticide manufacturing company
  • geographic location: Jiangsu province, Xuzhou
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Engineered#Waste#Wastewater
#Engineered#Waste#Water treatment plant

taxonmaps

  • @ref: 69479
  • File name: preview.99_51450.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_3077;97_22454;98_36944;99_51450&stattab=map
  • Last taxonomy: Sphingobium qiguonii
  • 16S sequence: EU095328
  • Sequence Identity:
  • Total samples: 471
  • soil counts: 30
  • aquatic counts: 251
  • animal counts: 183
  • plant counts: 7

Safety information

risk assessment

  • @ref: 15777
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15777
  • description: Sphingobium qiguonii strain X23 16S ribosomal RNA gene, partial sequence
  • accession: EU095328
  • length: 1454
  • database: ena
  • NCBI tax ID: 463825

GC content

@refGC-contentmethod
1577762.7thermal denaturation, midpoint method (Tm)
2976462.7

External links

@ref: 15777

culture collection no.: DSM 21541, CCTCC AB 208221

straininfo link

  • @ref: 83356
  • straininfo: 397421

literature

  • topic: Phylogeny
  • Pubmed-ID: 20061498
  • title: Sphingobium qiguonii sp. nov., a carbaryl-degrading bacterium isolated from a wastewater treatment system.
  • authors: Yan QX, Wang YX, Li SP, Li WJ, Hong Q
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.020362-0
  • year: 2010
  • mesh: Bacterial Typing Techniques, Base Composition, Carbaryl/*metabolism, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spermidine/chemistry, Sphingomonadaceae/*classification/genetics/isolation & purification, Ubiquinone/chemistry, Waste Disposal, Fluid, Waste Water/chemistry/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15777Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21541)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21541
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
29764Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2614528776041
68369Automatically annotated from API 20NE
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
83356Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID397421.1StrainInfo: A central database for resolving microbial strain identifiers