Strain identifier

BacDive ID: 36

Type strain: Yes

Species: Asaia platycodi

Strain Designation: T-683

Strain history: TUA 1328B <-- T. Uchimura T-683.

NCBI tax ID(s): 1236525 (strain), 610243 (species)

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General

@ref: 16659

BacDive-ID: 36

DSM-Number: 23029

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

description: Asaia platycodi T-683 is a mesophilic, Gram-negative bacterium that was isolated from balloon flower Platycodon grandiflorum.

NCBI tax id

NCBI tax idMatching level
1236525strain
610243species

strain history

@refhistory
16659<- T. Uchimura, Dept. Applied Biology and Chemistry, Tokyo Univ. Agriculture, Setagaya-ku, Japan; T-683 <- R. Suzuki
67770TUA 1328B <-- T. Uchimura T-683.

doi: 10.13145/bacdive36.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Acetobacteraceae
  • genus: Asaia
  • species: Asaia platycodi
  • full scientific name: Asaia platycodi Suzuki et al. 2012

@ref: 16659

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Acetobacteraceae

genus: Asaia

species: Asaia platycodi

full scientific name: Asaia platycodi Suzuki et al. 2012

strain designation: T-683

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.998

Culture and growth conditions

culture medium

  • @ref: 16659
  • name: ASAIA GYP MEDIUM (DSMZ Medium 1330)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1330
  • composition: Name: ASAIA GYP MEDIUM (DSMZ Medium 1330) Composition: Agar 15.0 g/l Peptone 10.0 g/l Glycerol 10.0 g/l Glucose 10.0 g/l CaCO3 7.0 g/l Yeast extract 5.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16659positivegrowth28mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.999

observation

  • @ref: 67770
  • observation: quinones: Q-10

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
16659balloon flower Platycodon grandiflorumPlatycodon grandiflorumAkitaJapanJPNAsia
67770Balloon flower (Platycodon grandiflorum)Platycodon grandiflorumAkitaJapanJPNAsia

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_4348.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_661;97_765;98_3270;99_4348&stattab=map
  • Last taxonomy: Asaia
  • 16S sequence: AB485739
  • Sequence Identity:
  • Total samples: 21825
  • soil counts: 6137
  • aquatic counts: 4167
  • animal counts: 6615
  • plant counts: 4906

Safety information

risk assessment

  • @ref: 16659
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16659
  • description: Asaia platycodi gene for 16S rRNA, partial sequence, strain: T-683
  • accession: AB485739
  • length: 1434
  • database: ena
  • NCBI tax ID: 1236525

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Asaia platycodi JCM 254141236525.5wgspatric1236525
66792Asaia platycodi JCM 254142585427932draftimg1236525
67770Asaia platycodi JCM 25414GCA_000614545contigncbi1236525

GC content

@refGC-contentmethod
1665960.0high performance liquid chromatography (HPLC)
6777060high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno84.448no
gram-positiveno96.766no
anaerobicno99.396no
aerobicyes93.325no
halophileno89.064no
spore-formingno95.771no
glucose-utilyes91.903no
flagellatedno94.848no
thermophileno98.157yes
glucose-fermentno86.723no

External links

@ref: 16659

culture collection no.: DSM 23029, JCM 25414

straininfo link

  • @ref: 69721
  • straininfo: 404601

Reference

@idauthorscataloguedoi/urltitle
16659Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23029)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23029
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)
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.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
69721Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID404601.1StrainInfo: A central database for resolving microbial strain identifiers