Strain identifier

BacDive ID: 11662

Type strain: Yes

Species: Paenibacillus beijingensis

Strain Designation: 7188

Strain history: <- M. Gao, Agric. Cult. Coll. of China, Inst. Agric. Res. and Regional Planning, Chinese Academy of Agric. Sci., Beijing, PR China; strain 7188

NCBI tax ID(s): 1126833 (species)

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

@ref: 17816

BacDive-ID: 11662

DSM-Number: 24997

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, motile

description: Paenibacillus beijingensis 7188 is a spore-forming, mesophilic, motile bacterium that was isolated from rhizospere soil of jujube.

NCBI tax id

  • NCBI tax id: 1126833
  • Matching level: species

strain history

  • @ref: 17816
  • history: <- M. Gao, Agric. Cult. Coll. of China, Inst. Agric. Res. and Regional Planning, Chinese Academy of Agric. Sci., Beijing, PR China; strain 7188

doi: 10.13145/bacdive11662.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Paenibacillaceae
  • genus: Paenibacillus
  • species: Paenibacillus beijingensis
  • full scientific name: Paenibacillus beijingensis Gao et al. 2012

@ref: 17816

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Paenibacillus

species: Paenibacillus beijingensis

full scientific name: Paenibacillus beijingensis Gao et al. 2012

strain designation: 7188

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes96.287
69480100positive

Culture and growth conditions

culture medium

  • @ref: 17816
  • name: R2A MEDIUM (DSMZ Medium 830)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830
  • composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

culture temp

  • @ref: 17816
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

Isolation, sampling and environmental information

isolation

  • @ref: 17816
  • sample type: rhizospere soil of jujube
  • geographic location: Wangsiying, Beijing
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Tree
#Host Body-Site#Plant#Rhizosphere

taxonmaps

  • @ref: 69479
  • File name: preview.99_2813.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_1496;97_1785;98_2182;99_2813&stattab=map
  • Last taxonomy: Paenibacillus beijingensis subclade
  • 16S sequence: JN408292
  • Sequence Identity:
  • Total samples: 3416
  • soil counts: 2103
  • aquatic counts: 246
  • animal counts: 787
  • plant counts: 280

Sequence information

16S sequences

  • @ref: 17816
  • description: Paenibacillus beijingensis strain 7188 16S ribosomal RNA gene, partial sequence
  • accession: JN408292
  • length: 1515
  • database: ena
  • NCBI tax ID: 1126833

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paenibacillus beijingensis DSM 24997GCA_000961095completencbi1126833
66792Paenibacillus beijingensis strain DSM 249971126833.4completepatric1126833
66792Paenibacillus beijingensis DSM 249972627854173completeimg1126833

GC content

  • @ref: 17816
  • GC-content: 60.3

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes86.826no
flagellatedyes83.875no
gram-positiveyes91.35no
anaerobicno97.542no
aerobicyes87.116no
halophileno93.328no
spore-formingyes95.499no
glucose-utilyes90.438no
thermophileno99.401no
glucose-fermentno86.856no

External links

@ref: 17816

culture collection no.: DSM 24997, ACCC 03082

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22763811Paenibacillus beijingensis sp. nov., a novel nitrogen-fixing species isolated from jujube garden soil.Gao M, Xie LQ, Wang YX, Chen J, Xu J, Zhang XX, Sui XH, Gao JL, Sun JGAntonie Van Leeuwenhoek10.1007/s10482-012-9767-22012Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, *Nitrogen Fixation, Paenibacillus/classification/genetics/*isolation & purification/*metabolism, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/cytology, Temperature, Vitamin K 2/analysis, Ziziphus/*microbiologyGenetics
Genetics25937453Complete genome sequence of Paenibacillus beijingensis 7188(T) (=DSM 24997(T)), a novel rhizobacterium from jujube garden soil.Kwak Y, Shin JHJ Biotechnol10.1016/j.jbiotec.2015.04.0152015Genome, Bacterial/*genetics, Molecular Sequence Data, Paenibacillus/*genetics, Soil Microbiology
Enzymology28399167Characterization of the Paenibacillus beijingensis DSM 24997 GtfD and its glucan polymer products representing a new glycoside hydrolase 70 subfamily of 4,6-alpha-glucanotransferase enzymes.Gangoiti J, Lamothe L, van Leeuwen SS, Vafiadi C, Dijkhuizen LPLoS One10.1371/journal.pone.01726222017Amylose/metabolism, Animals, Azotobacter/enzymology/genetics, Bacterial Proteins/chemistry/genetics/isolation & purification/*metabolism, Chromatography, Escherichia coli, Evolution, Molecular, Glucans/*metabolism, Glycogen Debranching Enzyme System/chemistry/genetics/isolation & purification/*metabolism, Humans, Magnetic Resonance Spectroscopy, Methylation, Paenibacillus/*enzymology/genetics, Phylogeny, Protein Domains, Rats, Recombinant Proteins/metabolism, Substrate SpecificityMetabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17816Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24997)https://www.dsmz.de/collection/catalogue/details/culture/DSM-24997
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
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 updatesNucleic Acids Res. 49: D498-D508 202033211880
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