Strain identifier

BacDive ID: 5503

Type strain: Yes

Species: Cellulophaga tyrosinoxydans

Strain Designation: EM41

Strain history: <- CO Jeon, Gyungsang Univ.

NCBI tax ID(s): 504486 (species)

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General

@ref: 15573

BacDive-ID: 5503

DSM-Number: 21164

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

description: Cellulophaga tyrosinoxydans EM41 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sea water from the eastern coast.

NCBI tax id

  • NCBI tax id: 504486
  • Matching level: species

strain history

@refhistory
15573<- C. O. Jeon, Gyeongsang Natl. Univ. (GNU), Jinju, Korea; EM41 <- H.-Y. Kahng, Sunchon Natl. Univ., Korea
67771<- CO Jeon, Gyungsang Univ.

doi: 10.13145/bacdive5503.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Cellulophaga
  • species: Cellulophaga tyrosinoxydans
  • full scientific name: Cellulophaga tyrosinoxydans Kahng et al. 2009

@ref: 15573

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Cellulophaga

species: Cellulophaga tyrosinoxydans

full scientific name: Cellulophaga tyrosinoxydans Kahng et al. 2009

strain designation: EM41

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
28984negative1.75 µm0.5 µmrod-shapedyesgliding
67771rod-shapedno
67771negative
69480negative99.974

pigmentation

  • @ref: 28984
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 15573
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
15573positivegrowth28mesophilic
28984positivegrowth15-35
28984positiveoptimum27mesophilic
67771positivegrowth25-30mesophilic

culture pH

@refabilitytypepHPH range
28984positivegrowth6.5-9alkaliphile
28984positiveoptimum7.75

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
28984aerobe
67771aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

compound production

  • @ref: 15573
  • compound: tyrosinase

halophily

@refsaltgrowthtested relationconcentration
28984NaClpositivegrowth01-07 %
28984NaClpositiveoptimum3 %

observation

@refobservation
28984aggregates in clumps
67771quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2898428757fructose+carbon source
2898428260galactose+carbon source
289845291gelatin+carbon source
2898417234glucose+carbon source
2898417716lactose+carbon source
2898429864mannitol+carbon source
2898428053melibiose+carbon source
2898416634raffinose+carbon source
2898453424tween 20+carbon source
2898453426tween 80+carbon source
2898417632nitrate+reduction

enzymes

@refvalueactivityec
28984acid phosphatase+3.1.3.2
28984alkaline phosphatase+3.1.3.1
28984alpha-galactosidase+3.2.1.22
28984catalase+1.11.1.6
28984cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15573sea water from the eastern coastJeju IslandRepublic of KoreaKORAsia
67771From seawater on the eastern coast in JejuRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Terrestrial#Coast

Safety information

risk assessment

  • @ref: 15573
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15573
  • description: Cellulophaga tyrosinoxydans strain EM41 16S ribosomal RNA gene, partial sequence
  • accession: EU443205
  • length: 1479
  • database: ena
  • NCBI tax ID: 504486

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cellulophaga tyrosinoxydans DSM 21164GCA_900176415scaffoldncbi504486
66792Cellulophaga tyrosinoxydans strain DSM 21164504486.3wgspatric504486
66792Cellulophaga tyrosinoxydans DSM 211642595698249draftimg504486

GC content

@refGC-contentmethod
1557333.5high performance liquid chromatography (HPLC)
1557348.0
2898433.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno89.239no
flagellatedno95.691no
gram-positiveno98.061yes
anaerobicno99.48no
aerobicyes90.67yes
halophileno77.568no
spore-formingno96.564no
thermophileno97.073no
glucose-utilyes89.8no
glucose-fermentno89.352no

External links

@ref: 15573

culture collection no.: DSM 21164, KCTC 22297

straininfo link

  • @ref: 74988
  • straininfo: 401168

literature

  • topic: Phylogeny
  • Pubmed-ID: 19329582
  • title: Cellulophaga tyrosinoxydans sp. nov., a tyrosinase-producing bacterium isolated from seawater.
  • authors: Kahng HY, Chung BS, Lee DH, Jung JS, Park JH, Jeon CO
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.003210-0
  • year: 2009
  • mesh: Aerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Flavobacteriaceae/*classification/enzymology/genetics/*isolation & purification, Korea, Locomotion, Molecular Sequence Data, Monophenol Monooxygenase/*biosynthesis, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
15573Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21164)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21164
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
28984Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2541728776041
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 updates33211880Nucleic Acids Res. 49: D498-D508 2020
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
74988Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID401168.1StrainInfo: A central database for resolving microbial strain identifiers