Strain identifier

BacDive ID: 7229

Type strain: Yes

Species: Hansschlegelia zhihuaiae

Strain Designation: S 113

Strain history: <- Y. Zhou, Nanjing Agric. Univ., China; S 113 <- Y. Zhou, X. Huang et al.

NCBI tax ID(s): 405005 (species)

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

@ref: 7815

BacDive-ID: 7229

DSM-Number: 18984

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

description: Hansschlegelia zhihuaiae S 113 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from polluted farmland soil.

NCBI tax id

  • NCBI tax id: 405005
  • Matching level: species

strain history

  • @ref: 7815
  • history: <- Y. Zhou, Nanjing Agric. Univ., China; S 113 <- Y. Zhou, X. Huang et al.

doi: 10.13145/bacdive7229.20230509.8.1

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 zhihuaiae
  • full scientific name: Hansschlegelia zhihuaiae Wen et al. 2011

@ref: 7815

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Methylocystaceae

genus: Hansschlegelia

species: Hansschlegelia zhihuaiae

full scientific name: Hansschlegelia zhihuaiae Wen et al. 2011

strain designation: S 113

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29807negative1.15 µm0.75 µmcoccus-shapedyes
69480negative99.999

Culture and growth conditions

culture medium

  • @ref: 7815
  • name: FLB MEDIUM (DSMZ Medium 1333)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1333
  • composition: Name: FLB MEDIUM (DSMZ Medium 1333) Composition: Agar 15.0 g/l Tryptone 5.0 g/l Yeast extract 3.0 g/l CaCl2 x 6 H2O 0.09 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
7815positivegrowth28mesophilic
29807positivegrowth25-30mesophilic
29807positiveoptimum27.5mesophilic

culture pH

@refabilitytypepH
29807positivegrowth6.5-7.5
29807positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 29807
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
29807no
69481no100
69480no99.997

halophily

@refsaltgrowthtested relationconcentration
29807NaClpositivegrowth<0.5 %
29807NaClpositiveoptimum0.25 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2980715963ribitol+carbon source
2980722599arabinose+carbon source
298075417glucosamine+carbon source
2980715361pyruvate+carbon source
2980717992sucrose+carbon source
2980717632nitrate+reduction

enzymes

@refvalueactivityec
29807cytochrome oxidase+1.9.3.1
29807urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 7815
  • sample type: polluted farmland soil
  • geographic location: Jiangsu Province
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2
#Engineered#Agriculture
#Engineered#Contamination

taxonmaps

  • @ref: 69479
  • File name: preview.99_157042.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_1101;97_1289;98_5709;99_157042&stattab=map
  • Last taxonomy: Hansschlegelia zhihuaiae
  • 16S sequence: DQ916067
  • Sequence Identity:
  • Total samples: 34
  • soil counts: 5
  • aquatic counts: 2
  • animal counts: 26
  • plant counts: 1

Safety information

risk assessment

  • @ref: 7815
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7815
  • description: Hansschlegelia zhihuaiae strain S 113 16S ribosomal RNA gene, partial sequence
  • accession: DQ916067
  • length: 1444
  • database: ena
  • NCBI tax ID: 405005

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Hansschlegelia zhihuaiae S 113GCA_004103825scaffoldncbi405005
66792Hansschlegelia zhihuaiae S 1132889485916draftimg405005

GC content

@refGC-contentmethod
781565.7high performance liquid chromatography (HPLC)
2980765.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes82.497yes
flagellatedno79.113no
gram-positiveno97.692no
anaerobicno97.826yes
aerobicyes91.016yes
halophileno92.453no
spore-formingno93.882no
glucose-utilyes86.429no
thermophileno95.467no
glucose-fermentno91.998no

External links

@ref: 7815

culture collection no.: DSM 18984, CCTCC AB 206143, KCTC 12880

straininfo link

  • @ref: 76681
  • straininfo: 402678

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20543155Hansschlegelia zhihuaiae sp. nov., isolated from a polluted farmland soil.Wen Y, Huang X, Zhou Y, Hong Q, Li SInt J Syst Evol Microbiol10.1099/ijs.0.021543-02010China, DNA, Bacterial/genetics, Fatty Acids/metabolism, Methylocystaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Soil Pollutants/metabolismMetabolism
Phylogeny23625265Hansschlegelia beijingensis sp. nov., an aerobic, pink-pigmented, facultatively methylotrophic bacterium isolated from watermelon rhizosphere soil.Zou XL, Li XA, Wang XM, Chen Q, Gao M, Qiu TL, Sun JG, Gao JLInt J Syst Evol Microbiol10.1099/ijs.0.052308-02013Bacterial 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/analysisGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
7815Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18984)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18984
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
29807Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2618428776041
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
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
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
76681Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID402678.1StrainInfo: A central database for resolving microbial strain identifiers