Strain identifier

BacDive ID: 94

Type strain: Yes

Species: Komagataeibacter rhaeticus

Strain history: CIP <- 2007, F. Dellaglio, Verona Univ., Verona, Italy, strain: DST GL02

NCBI tax ID(s): 1307939 (strain), 215221 (species)

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General

@ref: 6558

BacDive-ID: 94

DSM-Number: 16663

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

description: Komagataeibacter rhaeticus DSM 16663 is a mesophilic, Gram-negative, rod-shaped bacterium that was isolated from organic apple juice.

NCBI tax id

NCBI tax idMatching level
215221species
1307939strain

strain history

@refhistory
6558<- F. Dellaglio; DST GL02
330782007, F. Dellaglio, Verona Univ., Verona, Italy, strain: DST GL02
67770DSM 16663 <-- F. Dellaglio DST GL02.
122180CIP <- 2007, F. Dellaglio, Verona Univ., Verona, Italy, strain: DST GL02

doi: 10.13145/bacdive94.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Acetobacteraceae
  • genus: Komagataeibacter
  • species: Komagataeibacter rhaeticus
  • full scientific name: Komagataeibacter rhaeticus (Dellaglio et al. 2005) Yamada et al. 2013

  • synonyms

    @refsynonym
    20215Komagatabacter rhaeticus
    20215Gluconacetobacter rhaeticus

@ref: 6558

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Acetobacteraceae

genus: Komagataeibacter

species: Komagataeibacter rhaeticus

full scientific name: Komagataeibacter rhaeticus (Dellaglio et al. 2005) Yamada et al. 2013

type strain: yes

Morphology

cell morphology

  • @ref: 122180
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6558GLUCONACETOBACTER RHAETICUS MEDIUM (DSMZ Medium 1044)yeshttps://mediadive.dsmz.de/medium/1044Name: GLUCONACETOBACTER RHAETICUS MEDIUM (DSMZ Medium 1044) Composition: Glucose 50.0 g/l Agar 15.0 g/l Yeast extract 5.0 g/l Distilled water
33078MEDIUM 1 - for Acetobacter, Azotobacter, Gluconobacter, Gluconacetobacter, Mesorhizodium ciceri and Pseudomonas doudoroffiiyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Yeast extract (5.000 g);Peptone (3.000 g);Mannitol (25.000 g)
122180CIP Medium 1yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=1

culture temp

@refgrowthtypetemperaturerange
6558positivegrowth28mesophilic
33078positivegrowth30mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12218017632nitrate-reduction
12218016301nitrite-reduction

metabolite production

  • @ref: 122180
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
122180oxidase-
122180catalase+1.11.1.6
122180urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122180--++-++++-++---++---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
6558organic apple juiceSouth Tyrol, Val VenostaItalyITAEurope
67770Apple juice in South Tyrol regionItalyITAEurope
122180Food, Organic apple juiceVal Venosta, south TyrolItalyITAEurope2003

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Beverage
#Host Body Product#Plant#Juice (natural)

taxonmaps

  • @ref: 69479
  • File name: preview.99_79.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_64;97_67;98_72;99_79&stattab=map
  • Last taxonomy: Komagataeibacter
  • 16S sequence: JF794006
  • Sequence Identity:
  • Total samples: 4067
  • soil counts: 662
  • aquatic counts: 523
  • animal counts: 2327
  • plant counts: 555

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
65581Risk group (German classification)
1221801Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Gluconacetobacter rhaeticus gene for 16S rRNA, partial sequence, strain: JCM 17122AB6457321411ena215221
20218Gluconacetobacter rhaeticus strain DSM 16663 16S ribosomal RNA gene, partial sequenceJF7940061355ena215221
6558Gluconacetobacter rhaeticus strain DST GL02 16S ribosomal RNA gene, partial sequenceAY1809611336ena215221

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Komagataeibacter rhaeticus strain LMG 22126215221.10wgspatric215221
66792Komagataeibacter rhaeticus LMG 221262837601869draftimg215221
67770Komagataeibacter rhaeticus LMG 22126GCA_003207855contigncbi215221

GC content

@refGC-contentmethod
655863.4
6777063.4high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno84.226no
gram-positiveno96.198no
anaerobicno98.449no
aerobicyes85.806no
halophileno92.398no
spore-formingno96.035no
glucose-utilyes89.31no
flagellatedno96.808no
thermophileno96.453yes
glucose-fermentno86.277no

External links

@ref: 6558

culture collection no.: DSM 16663, BCC 36452, JCM 17122, LMG 22126, DST GL02, CIP 109761

straininfo link

  • @ref: 69777
  • straininfo: 128067

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16280498Description of Gluconacetobacter swingsii sp. nov. and Gluconacetobacter rhaeticus sp. nov., isolated from Italian apple fruit.Dellaglio F, Cleenwerck I, Felis GE, Engelbeen K, Janssens D, Marzotto MInt J Syst Evol Microbiol10.1099/ijs.0.63301-02005Fatty Acids/analysis/*chemistry, Gluconacetobacter/*classification/genetics/metabolism, Italy, Malus/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, RNA, Ribosomal, 16S/analysis/genetics, Sequence Analysis, DNAGenetics
Biotechnology31551945Set-Up of Bacterial Cellulose Production From the Genus Komagataeibacter and Its Use in a Gluten-Free Bakery Product as a Case Study.Vigentini I, Fabrizio V, Dellaca F, Rossi S, Azario I, Mondin C, Benaglia M, Foschino RFront Microbiol10.3389/fmicb.2019.019532019
Metabolism34044916Characterization of nanocellulose production by strains of Komagataeibacter sp. isolated from organic waste and Kombucha.Gupte Y, Kulkarni A, Raut B, Sarkar P, Choudhury R, Chawande A, Kumar GRK, Bhadra B, Satapathy A, Das G, Vishnupriya B, Dasgupta SCarbohydr Polym10.1016/j.carbpol.2021.1181762021Acetobacteraceae/metabolism, Cell Separation, Cellulose/*biosynthesis/chemistry, Fruit/*microbiology, Glucose/metabolism, Glycerol/metabolism, Kombucha Tea/*microbiology, Nanostructures/*chemistry, Solid WasteBiotechnology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6558Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16663)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16663
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
33078Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7540
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/
68382Automatically annotated from API zym
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
69777Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID128067.1StrainInfo: A central database for resolving microbial strain identifiers
122180Curators of the CIPCollection of Institut Pasteur (CIP 109761)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109761