Strain identifier

BacDive ID: 95

Type strain: Yes

Species: Komagataeibacter sucrofermentans

Strain history: CIP <- 1999, JCM <- T. Tsuchida: strain BPR2001

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 6212

BacDive-ID: 95

DSM-Number: 15973

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, polysaccharide production

description: Komagataeibacter sucrofermentans DSM 15973 is an obligate aerobe, mesophilic, Gram-negative bacterium that produces polysaccharides and was isolated from black cherry.

NCBI tax id

NCBI tax idMatching level
1053551species
1307942strain

strain history

@refhistory
6212<- JCM; JCM 9730 <- T. Tsuchida, Bio-Polymer Research Co., Ltd., Takatsu-ku, Kawasaki 213, Japan; BPR 2001
67770T. Tsuchida BPR2001.
123370CIP <- 1999, JCM <- T. Tsuchida: strain BPR2001

doi: 10.13145/bacdive95.20230509.8.1

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 sucrofermentans
  • full scientific name: Komagataeibacter sucrofermentans (Toyosaki et al. 1996) Yamada et al. 2013
  • synonyms

    @refsynonym
    20215Komagatabacter sucrofermentans
    20215Gluconacetobacter sucrofermentans
    20215Acetobacter xylinum subsp. sucrofermentans
    20215Acetobacter xylinus subsp. sucrofermentans

@ref: 6212

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Acetobacteraceae

genus: Komagataeibacter

species: Komagataeibacter sucrofermentans

full scientific name: Komagataeibacter sucrofermentans (Toyosaki et al. 1996) Yamada et al. 2013

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.965
123370negativerod-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6212GLUCONOBACTER OXYDANS MEDIUM (DSMZ Medium 105)yeshttps://mediadive.dsmz.de/medium/105Name: GLUCONOBACTER OXYDANS MEDIUM (DSMZ Medium 105; with strain-specific modifications) Composition: Glucose 100.0 g/l CaCO3 30.0 g/l Agar 15.0 g/l Yeast extract 10.0 g/l Distilled water
39824MEDIUM 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)
123370CIP Medium 314yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=314
123370CIP Medium 1yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=1

culture temp

@refgrowthtypetemperaturerange
6212positivegrowth28mesophilic
39824positivegrowth30mesophilic
67770positivegrowth28mesophilic
123370positivegrowth22-37
123370nogrowth10psychrophilic
123370nogrowth41thermophilic
123370nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123370
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.996

compound production

  • @ref: 6212
  • compound: cellulose

halophily

@refsaltgrowthtested relationconcentration
123370NaClpositivegrowth0 %
123370NaClnogrowth2 %
123370NaClnogrowth4 %
123370NaClnogrowth6 %
123370NaClnogrowth8 %
123370NaClnogrowth10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
123370606565hippurate-hydrolysis
12337017632nitrate-reduction
12337016301nitrite-reduction

antibiotic resistance

  • @ref: 123370
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6777062968celluloseyes
12337035581indoleno

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
123370oxidase-
123370beta-galactosidase-3.2.1.23
123370gelatinase-
123370catalase+1.11.1.6
123370gamma-glutamyltransferase-2.3.2.2
123370urease-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
123370--++-------+-----+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6212black cherryTokyoJapanJPNAsia
67770Cherry
123370Black cherryTokyoJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Climate#Temperate

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: AJ007698
  • 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
62121Risk group (German classification)
1233701Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Gluconacetobacter sucrofermentans gene for 16S rRNA, partial sequence, strain: JCM 9730AB2052171445ena1307942
20218Gluconacetobacter sucrofermentans gene for 16S rRNA, partial sequence, strain: JCM 9730AB5987421411ena1307942
20218Gluconacetobacter sucrofermentans gene for 16S rRNA, partial sequence, strain: JCM 9730AB6457351411ena1307942
6212Gluconacetobacter sucrofermentans partial 16S rRNA gene, type strain BPR 2001TAJ0076981463ena1307942

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Komagataeibacter sucrofermentans strain LMG 187881053551.5wgspatric1053551
66792Komagataeibacter sucrofermentans LMG 187882846444558draftimg1053551
67770Komagataeibacter sucrofermentans LMG 18788GCA_003207865contigncbi1053551

GC content

@refGC-contentmethod
621262.7high performance liquid chromatography (HPLC)
6777062.3high performance liquid chromatography (HPLC)
6777062.4high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno86.66no
flagellatedno96.952no
gram-positiveno97.13no
anaerobicno98.593no
aerobicyes81.277no
halophileno93.132no
spore-formingno95.899no
thermophileno94.319no
glucose-utilyes92.958no
glucose-fermentno85.774no

External links

@ref: 6212

culture collection no.: DSM 15973, BCC 7227, JCM 9730, LMG 18788, BPR 2001, ATCC 700178, BCRC 80162, CECT 7291, CIP 106078

straininfo link

  • @ref: 69778
  • straininfo: 12433

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19915110Phylogeny and differentiation of species of the genus Gluconacetobacter and related taxa based on multilocus sequence analyses of housekeeping genes and reclassification of Acetobacter xylinus subsp. sucrofermentans as Gluconacetobacter sucrofermentans (Toyosaki et al. 1996) sp. nov., comb. nov.Cleenwerck I, De Vos P, De Vuyst LInt J Syst Evol Microbiol10.1099/ijs.0.018465-02009Amplified Fragment Length Polymorphism Analysis, Bacterial Proteins/genetics, Bacterial Typing Techniques, Chaperonin 60/genetics, Cluster Analysis, DNA Fingerprinting, DNA, Bacterial/chemistry/genetics, DNA-Directed RNA Polymerases/genetics, Gluconacetobacter/*classification/*genetics, Gluconacetobacter xylinus/*classification/*genetics, Molecular Chaperones/genetics, Molecular Sequence Data, Multilocus Sequence Typing, Phylogeny, Sequence Analysis, DNAGenetics
Metabolism25458287Characterization of purified bacterial cellulose focused on its use on paper restoration.Santos SM, Carbajo JM, Quintana E, Ibarra D, Gomez N, Ladero M, Eugenio ME, Villar JCCarbohydr Polym10.1016/j.carbpol.2014.03.0642014Cellulose/*chemistry/isolation & purification/metabolism, Ethanol/chemistry, Gluconacetobacter/metabolism, Hot Temperature, *Paper, Porosity, Spectroscopy, Fourier Transform Infrared, Viscosity, X-Ray DiffractionStress
31459164Synthesis and Characterization of Bacterial Cellulose from Citrus-Based Sustainable Resources.Andritsou V, de Melo EM, Tsouko E, Ladakis D, Maragkoudaki S, Koutinas AA, Matharu ASACS Omega10.1021/acsomega.8b013152018
34443747Influence of Drying Method and Argon Plasma Modification of Bacterial Nanocellulose on Keratinocyte Adhesion and Growth.Kutova A, Stankova L, Vejvodova K, Kvitek O, Vokata B, Fajstavr D, Kolska Z, Broz A, Bacakova L, Svorcik VNanomaterials (Basel)10.3390/nano110819162021

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6212Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15973)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15973
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
39824Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18168
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
69778Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID12433.1StrainInfo: A central database for resolving microbial strain identifiers
123370Curators of the CIPCollection of Institut Pasteur (CIP 106078)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106078