Strain identifier

BacDive ID: 160686

Type strain: Yes

Species: Paenibacillus pini

Strain Designation: S22

Strain history: B.-C. Kim S22.

NCBI tax ID(s): 1236976 (strain), 669461 (species)

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General

@ref: 67596

BacDive-ID: 160686

DSM-Number: 112636

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

description: Paenibacillus pini S22 is a spore-forming, mesophilic, motile bacterium that was isolated from pin tree, rhizosphere.

NCBI tax id

NCBI tax idMatching level
669461species
1236976strain

strain history

@refhistory
67596<- J.-S. Lee, KCTC; KCTC 13694
67770B.-C. Kim S22.

doi: 10.13145/bacdive160686.20230509.8.1

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 pini
  • full scientific name: Paenibacillus pini Kim et al. 2011

@ref: 67596

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Caryophanales

family: Paenibacillaceae

genus: Paenibacillus

species: Paenibacillus pini

full scientific name: Paenibacillus pini Kim et al. 2011

strain designation: S22

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes93.738
69480100positive

Culture and growth conditions

culture medium

  • @ref: 67596
  • 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
67596positivegrowth25mesophilic
67770positivegrowth25mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69480yes100
69481yes100

observation

  • @ref: 67770
  • observation: quinones: MK-7

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
67596pin tree, rhizosphereDaejeonRepublic of KoreaKORAsia
67770Rhizosphere of a pine tree in DaejeonRepublic of KoreaKORAsia

taxonmaps

  • @ref: 69479
  • File name: preview.99_181495.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_67050;97_87087;98_118338;99_181495&stattab=map
  • Last taxonomy: Paenibacillus pini subclade
  • 16S sequence: GQ423056
  • Sequence Identity:
  • Total samples: 45
  • soil counts: 21
  • aquatic counts: 7
  • animal counts: 16
  • plant counts: 1

Safety information

risk assessment

  • @ref: 67596
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 67770
  • description: Paenibacillus pini strain S22 16S ribosomal RNA gene, partial sequence
  • accession: GQ423056
  • length: 1477
  • database: ena
  • NCBI tax ID: 1236976

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paenibacillus pini JCM 164181236976.4wgspatric1236976
66792Paenibacillus pini JCM 164181236976.3wgspatric1236976
66792Paenibacillus pini JCM 164182563366752draftimg1236976
67770Paenibacillus pini JCM 16418GCA_000576305contigncbi1236976
67770Paenibacillus pini JCM 16418GCA_001315125contigncbi1236976

GC content

  • @ref: 67770
  • GC-content: 43.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes90.718no
gram-positiveyes81.862no
anaerobicno98.646no
halophileno91.158no
spore-formingyes94.544no
thermophileno99.159no
glucose-utilyes86.557no
flagellatedyes82.312no
aerobicyes91.746no
glucose-fermentno85.499no

External links

@ref: 67596

culture collection no.: DSM 112636, JCM 16418, KCTC 13694, KACC 14198

straininfo link

  • @ref: 112914
  • straininfo: 374058

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20127462Paenibacillus pini sp. nov., a cellulolytic bacterium isolated from the rhizosphere of pine tree.Kim BC, Lee KH, Kim MN, Kim EM, Min SR, Kim HS, Shin KSJ Microbiol10.1007/s12275-009-0343-z2010Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, Cellulose/*metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Paenibacillus/*classification/genetics/isolation & purification/*metabolism, Phylogeny, Pinus/*microbiology, Plant Roots/*microbiology, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyMetabolism
Genetics24652984Draft Genome Sequence of Paenibacillus pini JCM 16418T, Isolated from the Rhizosphere of Pine Tree.Yuki M, Oshima K, Suda W, Oshida Y, Kitamura K, Iida T, Hattori M, Ohkuma MGenome Announc10.1128/genomeA.00210-142014Phylogeny

Reference

@idauthorstitledoi/urlcatalogue
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
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
67596Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-112636Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 112636)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
112914Reimer, 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-ID374058.1