Strain identifier

BacDive ID: 93

Type strain: Yes

Species: Komagataeibacter swingsii

Strain history: CIP <- 2007, F. Dellaglio, Verona Univ., Verona, Italy, strain: DST GL01

NCBI tax ID(s): 1307943 (strain), 215220 (species)

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General

@ref: 6410

BacDive-ID: 93

DSM-Number: 16373

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

description: Komagataeibacter swingsii DSM 16373 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from organic apple juice.

NCBI tax id

NCBI tax idMatching level
215220species
1307943strain

strain history

@refhistory
6410<- F. Dellaglio; DST GL01
398252007, F. Dellaglio, Verona Univ., Verona, Italy, strain: DST GL01
67770DSM 16373 <-- F. Dellaglio DST GL01.
123397CIP <- 2007, F. Dellaglio, Verona Univ., Verona, Italy, strain: DST GL01

doi: 10.13145/bacdive93.20230509.8.1

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

  • synonyms

    @refsynonym
    20215Komagatabacter swingsii
    20215Gluconacetobacter swingsii

@ref: 6410

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Acetobacteraceae

genus: Komagataeibacter

species: Komagataeibacter swingsii

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

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.991
123397negativerod-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6410GLUCONACETOBACTER 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
39825MEDIUM 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)
123397CIP Medium 1yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=1

culture temp

@refgrowthtypetemperaturerange
6410positivegrowth28mesophilic
39825positivegrowth30mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123397
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.994

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12339717632nitrate+reduction
12339716301nitrite-reduction

metabolite production

  • @ref: 123397
  • 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
123397oxidase-
123397catalase+1.11.1.6
123397urease-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
123397-+++-+--+-++----+---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
6410organic apple juiceSouth Tyrol Region, Val VenostaItalyITAEurope
67770Apple juice in South Tyrol regionItalyITAEurope
123397Food, 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: JF794011
  • 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
64101Risk group (German classification)
1233971Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Gluconacetobacter swingsii gene for 16S rRNA, partial sequence, strain: JCM 17123AB6457361411ena215220
20218Gluconacetobacter swingsii strain DSM 16373 16S ribosomal RNA gene, partial sequenceJF7940111353ena215220
6410Gluconacetobacter swingsii strain DST GL01 16S ribosomal RNA gene, partial sequenceAY1809601446ena215220

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Komagataeibacter swingsii strain LMG 22125215220.5wgspatric215220
66792Komagataeibacter swingsii LMG 221252846440919draftimg215220
67770Komagataeibacter swingsii LMG 22125GCA_003207895contigncbi215220

GC content

@refGC-contentmethod
641061.7
6777061.7high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno82.541no
gram-positiveno96.315no
anaerobicno97.901no
aerobicyes78.976no
halophileno92.83no
spore-formingno96.068no
glucose-utilyes91.245no
flagellatedno97.35no
thermophileno96.79no
glucose-fermentno84.148no

External links

@ref: 6410

culture collection no.: DSM 16373, BCC 36451, JCM 17123, LMG 22125, DST GL01, CIP 109760

straininfo link

  • @ref: 69776
  • straininfo: 128066

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
Phylogeny21841006Gluconacetobacter kakiaceti sp. nov., an acetic acid bacterium isolated from a traditional Japanese fruit vinegar.Iino T, Suzuki R, Tanaka N, Kosako Y, Ohkuma M, Komagata K, Uchimura TInt J Syst Evol Microbiol10.1099/ijs.0.031773-02011Acetic Acid/*metabolism, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Food Microbiology, Fruit, Gluconacetobacter/*classification/genetics/*isolation & purification, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNABiotechnology
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

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6410Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16373)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16373
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
39825Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7539
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
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
69776Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID128066.1StrainInfo: A central database for resolving microbial strain identifiers
123397Curators of the CIPCollection of Institut Pasteur (CIP 109760)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109760