Strain identifier

BacDive ID: 18

Type strain: Yes

Species: Acetobacter indonesiensis

Strain Designation: 5H-1

Strain history: NRIC 0313 <-- P. Lisdiyanti 5H-1.

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General

@ref: 5998

BacDive-ID: 18

DSM-Number: 15552

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

description: Acetobacter indonesiensis 5H-1 is a mesophilic, Gram-negative bacterium that was isolated from rotten zirzak .

NCBI tax id

NCBI tax idMatching level
1307908strain
104101species

strain history

@refhistory
5998<- IFO
67770NRIC 0313 <-- P. Lisdiyanti 5H-1.

doi: 10.13145/bacdive18.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Acetobacteraceae
  • genus: Acetobacter
  • species: Acetobacter indonesiensis
  • full scientific name: Acetobacter indonesiensis Lisdiyanti et al. 2001

@ref: 5998

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Acetobacteraceae

genus: Acetobacter

species: Acetobacter indonesiensis

full scientific name: Acetobacter indonesiensis Lisdiyanti et al. 2001

strain designation: 5H-1

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.995

Culture and growth conditions

culture medium

  • @ref: 5998
  • name: ACETIC ACID BACTERIUM MEDIUM (DSMZ Medium 989)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/989
  • composition: Name: ACETIC ACID BACTERIUM MEDIUM (DSMZ Medium 989) Composition: Agar 15.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Bacto peptone 5.0 g/l MgSO4 x 7 H2O 1.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
5998positivegrowth30mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.999

observation

  • @ref: 67770
  • observation: quinones: Q-9

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
5998rotten zirzak (fruit)IndonesiaIDNAsia
67770ZirzakIndonesiaIDNAsiaYogyakarta

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Decomposing plant
#Host Body-Site#Plant#Fruit (Seed)

taxonmaps

  • @ref: 69479
  • File name: preview.99_3671.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_152;97_827;98_961;99_3671&stattab=map
  • Last taxonomy: Acetobacter
  • 16S sequence: AB681067
  • Sequence Identity:
  • Total samples: 233
  • soil counts: 39
  • aquatic counts: 55
  • animal counts: 77
  • plant counts: 62

Safety information

risk assessment

  • @ref: 5998
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Acetobacter indonesiensis gene for 16S rRNA, partial sequence, strain: NBRC 16471AB6810671415ena104101
5998Acetobacter indonesiensis gene for 16S rRNA, partial sequence, strain: NRIC 0313AB0323561454ena104101

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acetobacter indonesiensis 5H-11231340.3wgspatric1307908
66792Acetobacter indonesiensis strain NBRC 16471104101.10wgspatric104101
66792Acetobacter indonesiensis 5H-12899141447draftimg104101
67770Acetobacter indonesiensis 5H-1GCA_000963945scaffoldncbi104101
67770Acetobacter indonesiensis NBRC 16471GCA_007991075contigncbi104101

GC content

  • @ref: 67770
  • GC-content: 53.7
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno63.366no
gram-positiveno95.773no
anaerobicno99.177no
aerobicyes91.656no
halophileno92.229no
spore-formingno95.336no
thermophileno98.697yes
glucose-utilyes80.485no
flagellatedno95.751no
glucose-fermentno90.067no

External links

@ref: 5998

culture collection no.: DSM 15552, IFO 16471, JCM 10948, NBRC 16471, NRIC 0313, BCRC 17167, LMG 19824

straininfo link

  • @ref: 69702
  • straininfo: 14619

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5998Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15552)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15552
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
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
69702Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID14619.1StrainInfo: A central database for resolving microbial strain identifiers