Strain identifier

BacDive ID: 13924

Type strain: Yes

Species: Zoogloea caeni

Strain Designation: EMB43

Strain history: <- CO Jeon, Gyungsang Univ.

NCBI tax ID(s): 374858 (species)

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General

@ref: 8086

BacDive-ID: 13924

DSM-Number: 19389

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

description: Zoogloea caeni EMB43 is a facultative aerobe, mesophilic, Gram-negative bacterium that was isolated from activated sludge, domestic wastewater treatment plant.

NCBI tax id

  • NCBI tax id: 374858
  • Matching level: species

strain history

@refhistory
8086<- C. O. Jeon, Gyeongsang Natl. Univ. (GNU), Jinju, Korea; EMB43
67771<- CO Jeon, Gyungsang Univ.

doi: 10.13145/bacdive13924.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Rhodocyclales
  • family: Zoogloeaceae
  • genus: Zoogloea
  • species: Zoogloea caeni
  • full scientific name: Zoogloea caeni Shao et al. 2009

@ref: 8086

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Rhizobiales

family: Zoogloeaceae

genus: Zoogloea

species: Zoogloea caeni

full scientific name: Zoogloea caeni Shao et al. 2009

strain designation: EMB43

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
32548negative1.1-2.0 µm0.6-0.9 µmrod-shapedyes
67771negative

Culture and growth conditions

culture medium

  • @ref: 8086
  • name: R2A MEDIUM (DSMZ Medium 830)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830
  • composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 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

culture temp

@refgrowthtypetemperaturerange
8086positivegrowth28mesophilic
32548positivegrowth25-30mesophilic
32548positiveoptimum27.5mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepH
32548positivegrowth6.5-7.5
32548positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32548facultative aerobe
67771aerobe

spore formation

  • @ref: 32548
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3254828260galactose+carbon source
325485291gelatin+carbon source
3254817716lactose+carbon source
3254829864mannitol+carbon source
3254817268myo-inositol+carbon source
3254853424tween 20+carbon source
3254817632nitrate+reduction

enzymes

@refvalueactivityec
32548acid phosphatase+3.1.3.2
32548alkaline phosphatase+3.1.3.1
32548catalase+1.11.1.6
32548cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
8086activated sludge, domestic wastewater treatment plantPohangRepublic of KoreaKORAsia
67771From activated sludge of a domestic wastewater treatment plant in KoreaRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Waste#Activated sludge
#Engineered#Waste#Water treatment plant

taxonmaps

  • @ref: 69479
  • File name: preview.99_49192.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_129;96_3402;97_4177;98_10230;99_49192&stattab=map
  • Last taxonomy: Zoogloea caeni subclade
  • 16S sequence: DQ413148
  • Sequence Identity:
  • Total samples: 680
  • soil counts: 8
  • aquatic counts: 570
  • animal counts: 94
  • plant counts: 8

Safety information

risk assessment

  • @ref: 8086
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 8086
  • description: Zoogloea caeni strain EMB43 16S ribosomal RNA gene, partial sequence
  • accession: DQ413148
  • length: 1460
  • database: ena
  • NCBI tax ID: 374858

GC content

@refGC-content
808663.77
3254864.9-65.0

External links

@ref: 8086

culture collection no.: DSM 19389, KCTC 22084

straininfo link

  • @ref: 83098
  • straininfo: 407504

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19244434Zoogloea caeni sp. nov., a floc-forming bacterium isolated from activated sludge.Shao Y, Chung BS, Lee SS, Park W, Lee SS, Jeon COInt J Syst Evol Microbiol10.1099/ijs.0.65670-02009Bacterial Typing Techniques, Base Composition, DNA, Bacterial, DNA, Ribosomal, Flocculation, Genes, rRNA, Korea, Molecular Sequence Data, Nitrogen Fixation, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Sewage/*microbiology, Species Specificity, Waste Disposal, Fluid/*methods, Zoogloea/*classification/genetics/isolation & purification/physiologyGenetics
Phylogeny25342113Zoogloea oleivorans sp. nov., a floc-forming, petroleum hydrocarbon-degrading bacterium isolated from biofilm.Farkas M, Tancsics A, Kriszt B, Benedek T, Toth EM, Keki Z, Veres PG, Szoboszlay SInt J Syst Evol Microbiol10.1099/ijs.0.068486-02014Bacterial Typing Techniques, Base Composition, Biodegradation, Environmental, *Biofilms, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hungary, Hydrocarbons/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Petroleum/*microbiology, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry, Zoogloea/*classification/genetics/isolation & purificationGenetics
Phylogeny32841112Zoogloea dura sp. nov., a N2-fixing bacterium isolated from forest soil and emendation of the genus Zoogloea and the species Zoogloea oryzae and Zoogloea ramigera.Dahal RH, Chaudhary DK, Kim DU, Kim JInt J Syst Evol Microbiol10.1099/ijsem.0.0044162020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, Nitrogen Fixation, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry, Zoogloea/*classification/isolation & purificationTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
8086Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19389)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19389
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
32548Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2876628776041
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
83098Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID407504.1StrainInfo: A central database for resolving microbial strain identifiers