Strain identifier

BacDive ID: 1904

Type strain: Yes

Species: Daeguia caeni

Strain Designation: K107

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 439612 (species)

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

@ref: 15944

BacDive-ID: 1904

DSM-Number: 21779

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

description: Daeguia caeni K107 is a facultative aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from sludge from a textile dye works.

NCBI tax id

  • NCBI tax id: 439612
  • Matching level: species

strain history

@refhistory
15944<- KCTC <- J.-H. Yoon, KRIBB
67771<- JH Yoon, KRIBB

doi: 10.13145/bacdive1904.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Brucellaceae
  • genus: Daeguia
  • species: Daeguia caeni
  • full scientific name: Daeguia caeni Yoon et al. 2008

@ref: 15944

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Brucellaceae

genus: Daeguia

species: Daeguia caeni

full scientific name: Daeguia caeni Yoon et al. 2008

strain designation: K107

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shape
23349negative0.7-2.0 µm0.4-0.6 µmrod-shaped
67771negative

colony morphology

@refcolony sizecolony colorcolony shapeincubation periodmedium used
233491.0-1.5 mmgreyish yellowcircular2 daysTSA
602102 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15944TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
23349Trypticase Soy Agar (TSA)yes

culture temp

@refgrowthtypetemperaturerange
15944positivegrowth37mesophilic
23349positivegrowth15-55
23349nogrowth10psychrophilic
23349nogrowth56thermophilic
23349positivegrowth45thermophilic
23349positiveoptimum30-37mesophilic
60210positivegrowth30-42
67771positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
23349positiveoptimum7.0-8.0
23349positivegrowth5.0-9.0alkaliphile
23349nogrowth4.5
23349nogrowth9.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23349facultative aerobe
23349aerobe
60210aerobe
67771aerobe

spore formation

  • @ref: 23349
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
23349NaClpositivegrowth0-4 %
23349NaClpositiveoptimum0.5-1.0 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23349168082-dehydro-D-gluconate-assimilation
23349174265-dehydro-D-gluconate-assimilation
2334927613amygdalin-assimilation
2334918305arbutin-assimilation
2334927689decanoate-assimilation
2334917057cellobiose-assimilation
2334916947citrate-assimilation
2334917108D-arabinose-assimilation
2334918333D-arabitol-assimilation
2334915824D-fructose-assimilation
2334928847D-fucose-assimilation
2334912936D-galactose-assimilation
2334962318D-lyxose-assimilation
2334916899D-mannitol-assimilation
2334917924D-sorbitol-assimilation
2334916443D-tagatose-assimilation
2334965327D-xylose-assimilation
2334916813galactitol-assimilation
2334917113erythritol-assimilation
233494853esculin-assimilation
2334928066gentiobiose-assimilation
2334924265gluconate-assimilation
2334917754glycerol-assimilation
2334928087glycogen-assimilation
2334915443inulin-assimilation
2334930849L-arabinose-assimilation
2334918403L-arabitol-assimilation
2334918287L-fucose-assimilation
2334965328L-xylose-assimilation
2334917716lactose-assimilation
2334925115malate-assimilation
2334917306maltose-assimilation
233496731melezitose-assimilation
2334928053melibiose-assimilation
2334943943methyl alpha-D-mannoside-assimilation
23349320055methyl beta-D-glucopyranoside-assimilation
2334974863methyl beta-D-xylopyranoside-assimilation
2334916634raffinose-assimilation
2334926546rhamnose-assimilation
2334933942ribose-assimilation
2334917814salicin-assimilation
2334927922sorbose-assimilation
2334928017starch-assimilation
2334917992sucrose-assimilation
2334927082trehalose-assimilation
2334932528turanose-assimilation
2334917151xylitol-assimilation
23349casein-hydrolysis
233494853esculin-hydrolysis
233495291gelatin-hydrolysis
2334928017starch-hydrolysis
2334953424tween 20-hydrolysis
2334953423tween 40-hydrolysis
2334953425tween 60-hydrolysis
2334953426tween 80-hydrolysis
2334918186tyrosine-hydrolysis
2334916199urea-hydrolysis
2334915318xanthine-hydrolysis
2334917632nitrate-reduction
2334915963ribitol+assimilation
2334917634D-glucose+assimilation
2334917268myo-inositol+assimilation
2334937684mannose+assimilation
23349506227N-acetylglucosamine+assimilation
2334918401phenylacetate+assimilation
2334917368hypoxanthine+hydrolysis
2334917128adipate+/-assimilation

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantis sensitive
2334928971ampicillinyesyes
233496472lincomycinyesyes
2334916869oleandomycinyesyes
2334918208penicillin gyesyes
233498309polymyxin byesyes
233493393carbenicillinyesyes
233493542cephalothinyesyes
2334917698chloramphenicolyesyes
2334917833gentamicinyesyes
233496104kanamycinyesyes
233497507neomycinyesyes
2334928368novobiocinyesyes
2334917076streptomycinyesyes
2334927902tetracyclineyesyes

metabolite production

@refChebi-IDmetaboliteproduction
2334935581indoleno
2334916136hydrogen sulfideno

enzymes

@refvalueactivityec
233496-phospho-beta-galactosidase-3.2.1.85
23349acid phosphatase+3.1.3.2
23349alkaline phosphatase+3.1.3.1
23349alpha-chymotrypsin-3.4.21.1
23349alpha-fucosidase-3.2.1.51
23349alpha-galactosidase-3.2.1.22
23349alpha-glucosidase-3.2.1.20
23349alpha-mannosidase-3.2.1.24
23349arginine dihydrolase-3.5.3.6
23349beta-glucosidase-3.2.1.21
23349beta-glucuronidase-3.2.1.31
23349cystine arylamidase-3.4.11.3
23349esterase (C 4)+
23349esterase lipase (C 8)+
23349leucine arylamidase+3.4.11.1
23349lipase (C 14)-
23349lysine decarboxylase-4.1.1.18
23349N-acetyl-beta-glucosaminidase-3.2.1.52
23349naphthol-AS-BI-phosphohydrolase+
23349ornithine decarboxylase-4.1.1.17
23349trypsin-3.4.21.4
23349tryptophan deaminase-4.1.99.1
23349urease-3.5.1.5
23349valine arylamidase-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
15944sludge from a textile dye worksDaeguRepublic of KoreaKORAsia
60210Sludge of a dye-worksDaeguRepublic of KoreaKORAsia2004-04-01
67771From wastewaterDaeguRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Industrial production
#Environmental#Terrestrial#Mud (Sludge)

Safety information

risk assessment

  • @ref: 15944
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15944
  • description: Daeguia caeni strain K107 16S ribosomal RNA gene, partial sequence
  • accession: EF532794
  • length: 1441
  • database: ena
  • NCBI tax ID: 439612

GC content

@refGC-contentmethod
1594457high performance liquid chromatography (HPLC)
2334957.0high performance liquid chromatography (HPLC)

External links

@ref: 15944

culture collection no.: DSM 21779, CCUG 54520, KCTC 12981

straininfo link

  • @ref: 71548
  • straininfo: 404684

literature

  • topic: Phylogeny
  • Pubmed-ID: 18175704
  • title: Daeguia caeni gen. nov., sp. nov., isolated from sludge of a textile dye works.
  • authors: Yoon JH, Kang SJ, Park S, Oh TK
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65483-0
  • year: 2008
  • mesh: Bacterial Typing Techniques, Brucellaceae/chemistry/*classification/genetics/*isolation & purification, Coloring Agents, Fatty Acids/analysis, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Species Specificity, *Textile Industry
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
15944Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21779)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21779
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
23349Jung-Hoon Yoon, So-Jung Kang, Sooyeon Park, Tae-Kwang Oh10.1099/ijs.0.65483-0Daeguia caeni gen. nov., sp. nov., isolated from sludge of a textile dye worksIJSEM 58: 168-172 200818175704
60210Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 54520)https://www.ccug.se/strain?id=54520
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
71548Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID404684.1StrainInfo: A central database for resolving microbial strain identifiers