Strain identifier

BacDive ID: 24180

Type strain: Yes

Species: Hansschlegelia beijingensis

Strain Designation: PG04

Strain history: <- J. L. Gao, Beijing Academy of Agriculture and Forestry Science; PG04 <- X. Zou

NCBI tax ID(s): 1133344 (species)

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General

@ref: 21207

BacDive-ID: 24180

DSM-Number: 25481

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

description: Hansschlegelia beijingensis PG04 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from rhizosphere soil of watermelon.

NCBI tax id

  • NCBI tax id: 1133344
  • Matching level: species

strain history

  • @ref: 21207
  • history: <- J. L. Gao, Beijing Academy of Agriculture and Forestry Science; PG04 <- X. Zou

doi: 10.13145/bacdive24180.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Methylocystaceae
  • genus: Hansschlegelia
  • species: Hansschlegelia beijingensis
  • full scientific name: Hansschlegelia beijingensis Zou et al. 2013

@ref: 21207

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Methylocystaceae

genus: Hansschlegelia

species: Hansschlegelia beijingensis

full scientific name: Hansschlegelia beijingensis Zou et al. 2013

strain designation: PG04

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapeconfidence
31108negative1.15 µm0.7 µmrod-shaped
69480negative99.995

pigmentation

  • @ref: 31108
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 21207
  • name: YTC MEDIUM (DSMZ Medium 1384)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1384
  • composition: Name: YTC MEDIUM (DSMZ Medium 1384) Composition: Tryptone 5.0 g/l Yeast extract 0.1 g/l CaCl2 x 2 H2O 0.01 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
21207positivegrowth28mesophilic
31108positivegrowth25-40
31108positiveoptimum30mesophilic

culture pH

@refabilitytypepHPH range
31108positivegrowth6.0-9.0alkaliphile
31108positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 31108
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.983

observation

  • @ref: 31108
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3110815740formate+carbon source
3110828757fructose+carbon source
3110832323glucuronamide+carbon source
3110817632nitrate+reduction

enzymes

@refvalueactivityec
31108acid phosphatase+3.1.3.2
31108alkaline phosphatase+3.1.3.1
31108catalase+1.11.1.6
31108cytochrome oxidase+1.9.3.1
31108urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 21207
  • sample type: rhizosphere soil of watermelon
  • geographic location: Daxing district of Beijing
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_185425.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_1101;97_1289;98_120629;99_185425&stattab=map
  • Last taxonomy: Hansschlegelia beijingensis subclade
  • 16S sequence: JQ034346
  • Sequence Identity:
  • Total samples: 77
  • soil counts: 49
  • aquatic counts: 5
  • animal counts: 21
  • plant counts: 2

Safety information

risk assessment

  • @ref: 21207
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21207
  • description: Hansschlegelia beijingensis strain PG04 16S ribosomal RNA gene, partial sequence
  • accession: JQ034346
  • length: 1459
  • database: ena
  • NCBI tax ID: 1133344

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Hansschlegelia beijingensis DSM 25481GCA_014196425scaffoldncbi1133344
66792Hansschlegelia beijingensis strain DSM 254811133344.3wgspatric1133344
66792Hansschlegelia beijingensis DSM 254812829890163draftimg1133344

GC content

@refGC-contentmethod
2120764.4thermal denaturation, midpoint method (Tm)
3110864.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno86.308no
gram-positiveno97.921no
anaerobicno98.534yes
aerobicyes91.948no
halophileno88.451no
spore-formingno95.23no
glucose-utilyes77.181no
thermophileno95.447no
motileyes76.101no
glucose-fermentno91.505no

External links

@ref: 21207

culture collection no.: DSM 25481, ACCC 05759

straininfo link

  • @ref: 88133
  • straininfo: 397879

literature

  • topic: Phylogeny
  • Pubmed-ID: 23625265
  • title: Hansschlegelia beijingensis sp. nov., an aerobic, pink-pigmented, facultatively methylotrophic bacterium isolated from watermelon rhizosphere soil.
  • authors: Zou XL, Li XA, Wang XM, Chen Q, Gao M, Qiu TL, Sun JG, Gao JL
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.052308-0
  • year: 2013
  • mesh: Bacterial Typing Techniques, Base Composition, China, Citrullus/*microbiology, DNA, Bacterial/genetics, Fatty Acids/analysis, Methylocystaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analysis
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
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
21207Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-25481Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25481)
31108Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172743728776041
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
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88133Reimer, 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-ID397879.1