Strain identifier

BacDive ID: 157756

Type strain: Yes

Species: Ottowia konkukae

Strain Designation: SK3863

Strain history: <- S. K. Kim, Konkuk Univ., Seoul, Rep. of South Korea; SK3863 <- K.J. Yi

NCBI tax ID(s): 2338647 (species)

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General

@ref: 64327

BacDive-ID: 157756

DSM-Number: 105395

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

description: Ottowia konkukae SK3863 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from spoiled biji, soybean tofu residue.

NCBI tax id

  • NCBI tax id: 2338647
  • Matching level: species

strain history

  • @ref: 64327
  • history: <- S. K. Kim, Konkuk Univ., Seoul, Rep. of South Korea; SK3863 <- K.J. Yi

doi: 10.13145/bacdive157756.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Comamonadaceae
  • genus: Ottowia
  • species: Ottowia konkukae
  • full scientific name: Ottowia konkukae Yi et al. 2018

@ref: 64327

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Clostridiales

family: Comamonadaceae

genus: Ottowia

species: Ottowia konkukae

full scientific name: Ottowia konkukae Yi et al. 2018

strain designation: SK3863

type strain: yes

Morphology

cell morphology

  • @ref: 66724
  • gram stain: negative
  • cell length: 0.5-2.0 µm
  • cell width: 0.5-1.0 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 66724
  • colony size: 0.2-1.0 mm
  • colony color: light yellow
  • colony shape: circular
  • incubation period: 3 days
  • medium used: R2A medium

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
64327REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)yeshttps://mediadive.dsmz.de/medium/830cName: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
64327NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1; with strain-specific modifications) Composition: Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
66724MacConkey agarno
66724Reasoner's 2A agar (R2A)yes

culture temp

@refgrowthtypetemperaturerange
64327positivegrowth37mesophilic
66724positiveoptimum30mesophilic

culture pH

  • @ref: 66724
  • ability: positive
  • type: optimum
  • pH: 6.5

Physiology and metabolism

oxygen tolerance

  • @ref: 66724
  • oxygen tolerance: aerobe

spore formation

  • @ref: 66724
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
66724NaClpositivegrowth0-2 %(w/v)
66724NaClpositiveoptimum0 %(w/v)

observation

@refobservation
66724Floc-forming ability can be observed in R2A broth at 25-37 C and at pH 6.0-8.5.
66724Q-8 is the predominant quinone
66724The polar lipids are phosphatidylglycerol, phosphatidylethanolamine, aminophospholipid and five unidentified polar lipids.

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6672418276dihydrogen-aerobic catabolization
6672417632nitrate+anaerobic growth
6672415792malonate-assimilation
6672415971L-histidine-assimilation
6672417115L-serine-assimilation
6672417968butyrate-assimilation
6672418287L-fucose-assimilation
6672424265gluconate-assimilation
6672428087glycogen-assimilation
6672462345L-rhamnose-assimilation
6672472813exopolysaccharide-assimilation
6672416988D-ribose+assimilation
6672417203L-proline+assimilation
6672417272propionate+assimilation
6672417306maltose+assimilation
6672417924D-sorbitol+assimilation
6672417992sucrose+assimilation
6672430849L-arabinose+assimilation
6672416991dna-hydrolysis
6672428017starch-hydrolysis
6672453424tween 20-hydrolysis
6672462968cellulose-hydrolysis
66724casein-hydrolysis

metabolite production

  • @ref: 66724
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
66724alpha-chymotrypsin-3.4.21.1
66724alpha-fucosidase-3.2.1.51
66724alpha-galactosidase-3.2.1.22
66724alpha-glucosidase-3.2.1.20
66724alpha-mannosidase-3.2.1.24
66724arginine dihydrolase-3.5.3.6
66724beta-galactosidase-3.2.1.23
66724beta-glucosidase-3.2.1.21
66724beta-glucuronidase-3.2.1.31
66724N-acetyl-beta-glucosaminidase-3.2.1.52
66724trypsin-3.4.21.4
66724urease-3.5.1.5
66724acid phosphatase+3.1.3.2
66724alkaline phosphatase+3.1.3.1
66724beta-galactosidase+3.2.1.23
66724catalase+1.11.1.6
66724cystine arylamidase+3.4.11.3
66724cytochrome oxidase+1.9.3.1
66724esterase (C 4)+
66724esterase Lipase (C 8)+
66724leucine arylamidase+3.4.11.1
66724lipase (C 14)+
66724naphthol-AS-BI-phosphohydrolase+
66724nitrate reductase+1.7.99.4
66724thiosulfate reductase+2.8.1.5
66724valine arylamidase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    66724C17:1 anteiso A0.5
    66724C16:0 3OH0.6
    66724C12:0 3OH1.8
    66724C18:1 w7c/C18:1 w6c17.2
    66724C10:0 3OH2.5
    66724C12:03.3
    66724C14:03.4
    66724C16:031.3
    66724C16:1 w6c/C16:1 w7c33.7
    66724C17:0 cyclo5.9
  • type of FA analysis: whole cell analysis
  • incubation medium: R2A
  • incubation temperature: 25
  • incubation time: 3
  • software version: Sherlock 6.0
  • library/peak naming table: TSBA60
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture durationenrichment culture temperatureisolation procedure
64327spoiled biji, soybean tofu residueSeoulRepublic of KoreaKORAsia
66724from rotten biji (residue remaining after making tofu)Republic of KoreaKORAsiaReasoner's 2A (R2A) agar3 days25using the standard dilution-plating technique on Reasoner's 2A (R2A) agar at room temperature

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Engineered#Food production#Spoiled

taxonmaps

  • @ref: 69479
  • File name: preview.99_174167.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_44601;97_84106;98_114027;99_174167&stattab=map
  • Last taxonomy: Ottowia oryzae subclade
  • 16S sequence: MG764241
  • Sequence Identity:
  • Total samples: 3960
  • soil counts: 2514
  • aquatic counts: 691
  • animal counts: 260
  • plant counts: 495

Sequence information

16S sequences

  • @ref: 66724
  • description: Ottowia konkukae 16S ribosomal RNA gene, partial sequence
  • accession: MG764241
  • length: 1459
  • database: ena
  • NCBI tax ID: 2338647

GC content

  • @ref: 66724
  • GC-content: 65.8
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 64327

culture collection no.: DSM 105395, KCCM 43236

straininfo link

  • @ref: 110616
  • straininfo: 402488

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny30222093Ottowia konkukae sp. nov., isolated from rotten biji (tofu residue).Yi KJ, Im WT, Kim DW, Kim SKInt J Syst Evol Microbiol10.1099/ijsem.0.0030092018Bacterial Typing Techniques, Base Composition, Comamonadaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Food Microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Soy Foods/*microbiology, Ubiquinone/chemistryBiotechnology
Phylogeny35604929Ottowia testudinis sp. nov., isolated from the cloaca of a giant Asian pond turtle (Heosemys grandis).Busse HJ, Kampfer P, Szostak MP, Spergser JInt J Syst Evol Microbiol10.1099/ijsem.0.0053482022Animals, Bacterial Typing Techniques, Base Composition, Cloaca, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *TurtlesTranscriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
64327Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-105395Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105395)
66724Kwon Jung Yi, Wan-Taek Im, Dong-Woon Kim and Soo-Ki KimOttowia konkukae sp. nov., isolated from rotten biji (tofu residue)10.1099/ijsem.0.003009IJSEM 68: 3458-3462 201830222093
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
110616Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID402488.1