Strain identifier

BacDive ID: 5502

Type strain: Yes

Species: Cellulophaga fucicola

Strain Designation: NN015860

Strain history: CIP <- 1999, P. Nielsen, Novo Nordisk, Denmark: strain NN015860

NCBI tax ID(s): 1121273 (strain), 76595 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 17772

BacDive-ID: 5502

DSM-Number: 24786

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative

description: Cellulophaga fucicola NN015860 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from surface of brown alga Fucus serratus L..

NCBI tax id

NCBI tax idMatching level
76595species
1121273strain

strain history

@refhistory
17772<- NCIMB <- P. Nielsen, Novo Industri A/S <- J. E. Johansen
402881999, P. Nielsen, Novo Nordisk, Denmark: strain NN015860
67770IAM 15330 <-- LMG 18536 <-- P. Nielsen <-- J. Johansen NN015860.
119478CIP <- 1999, P. Nielsen, Novo Nordisk, Denmark: strain NN015860

doi: 10.13145/bacdive5502.20230509.8.1

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 fucicola
  • full scientific name: Cellulophaga fucicola Johansen et al. 1999

@ref: 17772

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Cellulophaga

species: Cellulophaga fucicola

full scientific name: Cellulophaga fucicola Johansen et al. 1999

strain designation: NN015860

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.977
119478negativerod-shapedno

colony morphology

  • @ref: 17772
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17772TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)yeshttps://mediadive.dsmz.de/medium/545Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water
17772BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: 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
40288Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
119478CIP Medium 326yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=326
119478CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
17772positivegrowth28mesophilic
40288positivegrowth25mesophilic
67770positivegrowth25mesophilic
119478positivegrowth5-30
119478nogrowth37mesophilic
119478nogrowth41thermophilic
119478nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119478
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.993

halophily

@refsaltgrowthtested relationconcentration
119478NaClpositivegrowth2-4 %
119478NaClnogrowth0 %
119478NaClnogrowth6 %
119478NaClnogrowth8 %
119478NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1194784853esculin-hydrolysis
119478606565hippurate-hydrolysis
11947817632nitrate-reduction
11947816301nitrite-reduction
11947815792malonate-assimilation

metabolite production

  • @ref: 119478
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11947815688acetoin+
11947817234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)-
68382alkaline phosphatase+3.1.3.1
119478oxidase-
119478beta-galactosidase+3.2.1.23
119478alcohol dehydrogenase-1.1.1.1
119478gelatinase-
119478amylase+
119478caseinase+3.4.21.50
119478catalase+1.11.1.6
119478tween esterase-
119478gamma-glutamyltransferase+2.3.2.2
119478lecithinase-
119478lipase-
119478lysine decarboxylase-4.1.1.18
119478ornithine decarboxylase-4.1.1.17
119478phenylalanine ammonia-lyase-4.3.1.24
119478protease+
119478tryptophan deaminase-
119478urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119478-+-+-+++--++-----+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119478+-+++-++-+++---++++--++----------+++-----+-----------------+------------------+----------+++-++----

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
17772surface of brown alga Fucus serratus L.Fucus serratusKattegatDenmarkDNKEurope
67770Surface of the brown alga (Fucus serratus) L. on the island of Hirsholm, offshore from FrederikshavnFucus serratusJutlandDenmarkDNKEurope
119478Surface of brown alga Fucus serratus L.KattegatDenmarkDNKEurope1995

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Host#Algae#Brown Algae

taxonmaps

  • @ref: 69479
  • File name: preview.99_26387.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_102;96_275;97_304;98_19811;99_26387&stattab=map
  • Last taxonomy: Cellulophaga fucicola subclade
  • 16S sequence: AJ005973
  • Sequence Identity:
  • Total samples: 376
  • soil counts: 7
  • aquatic counts: 350
  • animal counts: 19

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
177721Risk group (German classification)
1194781Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Cellulophaga fucicola 16S-23S ribosomal RNA intergenic spacer, partial sequenceEF667142662ena76595
17772Cytophaga fucicola 16S rRNA gene, type strain NN015860, partialAJ0059731472ena76595

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cellulophaga fucicola strain DSM 2478676595.6wgspatric76595
66792Cellulophaga fucicola DSM 247862595699004draftimg76595
67770Cellulophaga fucicola DSM 24786GCA_900119145scaffoldncbi76595

GC content

  • @ref: 67770
  • GC-content: 32.4
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno87.902no
flagellatedno95.629no
gram-positiveno98.13no
anaerobicno99.73no
halophileno73.134no
spore-formingno96.545no
glucose-utilyes90.455no
aerobicyes92.686no
thermophileno99.311yes
glucose-fermentno88.745no

External links

@ref: 17772

culture collection no.: DSM 24786, ATCC 700863, CIP 106308, JCM 21778, LMG 18536, NCIMB 13611, IAM 15330

straininfo link

  • @ref: 74987
  • straininfo: 12968

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10425785Description of Cellulophaga baltica gen. nov., sp. nov. and Cellulophaga fucicola gen. nov., sp. nov. and reclassification of [Cytophaga] lytica to Cellulophaga lytica gen. nov., comb. nov.Johansen JE, Nielsen P, Sjoholm CInt J Syst Bacteriol10.1099/00207713-49-3-12311999Bacteria/*classification/cytology/genetics/isolation & purification, Bacteroides/classification/genetics, Base Composition, Cytophaga/*classification/cytology/genetics, DNA, Bacterial/chemistry/genetics/isolation & purification, DNA, Ribosomal/chemistry/genetics, Denmark, Flavobacterium/classification/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phaeophyta/*microbiology, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Water MicrobiologyEnzymology
Phylogeny21828016Cellulophaga geojensis sp. nov., a member of the family Flavobacteriaceae isolated from marine sand.Park S, Oh KH, Lee SY, Oh TK, Yoon JHInt J Syst Evol Microbiol10.1099/ijs.0.033340-02011Base Composition, DNA, Bacterial/genetics, Flavobacteriaceae/*classification/genetics/*isolation & purification, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17772Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24786)https://www.dsmz.de/collection/catalogue/details/culture/DSM-24786
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
40288Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18425
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
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
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
74987Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID12968.1StrainInfo: A central database for resolving microbial strain identifiers
119478Curators of the CIPCollection of Institut Pasteur (CIP 106308)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106308