Strain identifier

BacDive ID: 19

Type strain: Yes

Species: Acetobacter oeni

Strain Designation: B13

Variant: Isotype of BacDive ID 132838

Strain history: CIP <- 2006, CECT <- 2003, E. Velazquez, Viseu, Portugal: strain B13

NCBI tax ID(s): 1307912 (strain), 304077 (species)

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General

@ref: 17309

BacDive-ID: 19

DSM-Number: 23926

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, motile, rod-shaped, colony-forming

description: Acetobacter oeni B13 is an obligate aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from spoiled red wine.

NCBI tax id

NCBI tax idMatching level
1307912strain
304077species

strain history

@refhistory
17309<- CECT <- E. Velázquez <- L. R. Silva, Depart. Microbiol. y Gen., Univ. Salamanca, Spain
121399CIP <- 2006, CECT <- 2003, E. Velazquez, Viseu, Portugal: strain B13

doi: 10.13145/bacdive19.20250331.9.3

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 oeni
  • full scientific name: Acetobacter oeni Silva et al. 2006

@ref: 17309

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Acetobacteraceae

genus: Acetobacter

species: Acetobacter oeni

full scientific name: Acetobacter oeni Silva et al. 2006

strain designation: B13

variant: Isotype of BacDive ID 132838

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
23234negative3.6-5.1 µm0.8-0.9 µmrod-shapedyesperitrichous
121399negativerod-shapedyes
125439negative99.7
125438negative97.833

colony morphology

  • @ref: 23234
  • colony size: 1-2 mm
  • colony color: cream, opaque
  • colony shape: circular
  • incubation period: 4 days
  • medium used: YEDC

multimedia

@refmultimedia contentcaptionintellectual property rights
17309https://www.dsmz.de/microorganisms/photos/DSM_23926.jpgMicrograph of DSM 23626. Scale bar represents 2 um.Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
17309https://www.dsmz.de/microorganisms/photos/DSM_23926-1.jpgDSM 23926 grown on DSMZ meidum # 360 at 25°C.Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17309YPM MEDIUM (DSMZ Medium 360)yeshttps://mediadive.dsmz.de/medium/360Name: YPM MEDIUM (DSMZ Medium 360) Composition: Mannitol 25.0 g/l Agar 12.0 g/l Yeast extract 5.0 g/l Peptone 3.0 g/l Distilled water
23234YEDCyes7 g glucose, 3 g yeast extract, 20 g calcium carbonate and 17 g agar
37461MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121399CIP Medium 314yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=314
121399CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperature
17309positivegrowth25
23234positiveoptimum28
37461positivegrowth25

Physiology and metabolism

tolerance

  • @ref: 23234
  • compound: Ethanol
  • percentage: 10

oxygen tolerance

@refoxygen toleranceconfidence
23234obligate aerobe
121399obligate aerobe
125439obligate aerobe98.6

spore formation

@refspore formationconfidence
23234no
125439no96.5

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2323417306maltose-carbon source
2323417790methanol-carbon source
2323417754glycerol+carbon source
12139917632nitrate-reduction
12139916301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
23234168082-dehydro-D-gluconateno
23234174265-dehydro-D-gluconateyes
12139935581indoleno

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase+3.2.1.21
68382beta-galactosidase-3.2.1.23
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382acid phosphatase-3.1.3.2
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382lipase (C 14)-
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382alkaline phosphatase-3.1.3.1
121399oxidase-
121399catalase+1.11.1.6
121399urease-3.5.1.5
68382beta-glucuronidase-3.2.1.31
68382leucine arylamidase+3.4.11.1

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121399--++-+-----+----++--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17309spoiled red wineDão region, ViseuPortugalPRTEurope
121399Food, Red wineDaoPortugalPRTEurope

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Fermented
#Environmental#Microbial community
#Engineered#Food production#Beverage

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
173091Risk group (German classification)
1213991Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Acetobacter oeni strain CECT 5830 16S ribosomal RNA gene, partial sequenceHQ398213990nuccore304077
20218Acetobacter oeni strain LMG 21952 16S ribosomal RNA gene, partial sequenceJF7939611351nuccore304077
17309Acetobacter oeni strain B13 16S ribosomal RNA gene, complete sequenceAY8294721484nuccore304077

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acetobacter oeni LMG 21952GCA_011516825contigncbi304077
66792Acetobacter oeni DSM 23926GCA_014196315contigncbi304077
66792Acetobacter oeni strain DSM 23926304077.9wgspatric304077
66792Acetobacter oeni strain LMG 21952304077.8wgspatric304077
66792Acetobacter oeni DSM 239262829864053draftimg304077

GC content

@refGC-contentmethod
1730958.1high performance liquid chromatography (HPLC)
2323458.10high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno97.833yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.366no
125438spore-formingspore-formingAbility to form endo- or exosporesno88.685yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes83.753no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno98.175yes
125438motile2+flagellatedAbility to perform flagellated movementyes68.892no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno96.5
125439BacteriaNetmotilityAbility to perform movementyes52.5
125439BacteriaNetgram_stainReaction to gram-stainingnegative99.7
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe98.6

External links

@ref: 17309

culture collection no.: DSM 23926, CECT 5830, LMG 21952, CIP 109171

straininfo link

  • @ref: 69703
  • straininfo: 100264

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16403860Acetobacter oeni sp. nov., isolated from spoiled red wine.Silva LR, Cleenwerck I, Rivas R, Swings J, Trujillo ME, Willems A, Velazquez EInt J Syst Evol Microbiol10.1099/ijs.0.46000-02006Acetobacter/*classification/genetics/growth & development/isolation & purification/metabolism, Base Composition, Catalase/metabolism, Culture Media, DNA, Bacterial, *Food Microbiology, Gluconates/metabolism, Glucose/metabolism, Glycerol, Molecular Sequence Data, RNA, Bacterial/genetics, RNA, Ribosomal, 16S, Sequence Homology, Nucleic Acid, Species Specificity, Wine/*microbiologyMetabolism
Phylogeny26637821Acetobacter musti sp. nov., isolated from Bobal grape must.Ferrer S, Manes-Lazaro R, Benavent-Gil Y, Yepez A, Pardo IInt J Syst Evol Microbiol10.1099/ijsem.0.0008182015

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17309Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23926)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23926
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
23234Luis R. Silva Ilse Cleenwerck, Raúl Rivas, Jean Swings, Martha E. Trujillo, Anne Willems, Encarna Velázquez10.1099/ijs.0.46000-0Acetobacter oeni sp. nov., isolated from spoiled red wineIJSEM 56: 21-24 200616403860
37461Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6882
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
68382Automatically annotated from API zym
69703Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100264.1StrainInfo: A central database for resolving microbial strain identifiers
121399Curators of the CIPCollection of Institut Pasteur (CIP 109171)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109171
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1