Strain identifier

BacDive ID: 5702

Type strain: Yes

Species: Chryseobacterium jejuense

Strain Designation: JS17-8

Strain history: CIP <- 2010, DSMZ <- KACC <- H.Y. Weon, Nat. Inst. Agricul. Sci. Technol., Suwon, Korea: strain JS17-8

NCBI tax ID(s): 445960 (species)

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General

@ref: 8005

BacDive-ID: 5702

DSM-Number: 19299

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

description: Chryseobacterium jejuense JS17-8 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil sample.

NCBI tax id

  • NCBI tax id: 445960
  • Matching level: species

strain history

@refhistory
8005<- S.-W. Kwon, KACC; JS17-8 <- H.-Y. Weon, Natl. Inst. Agricult. Sci. and Technol., Suwon, Korea
120325CIP <- 2010, DSMZ <- KACC <- H.Y. Weon, Nat. Inst. Agricul. Sci. Technol., Suwon, Korea: strain JS17-8

doi: 10.13145/bacdive5702.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Weeksellaceae
  • genus: Chryseobacterium
  • species: Chryseobacterium jejuense
  • full scientific name: Chryseobacterium jejuense Weon et al. 2008

@ref: 8005

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Weeksellaceae

genus: Chryseobacterium

species: Chryseobacterium jejuense

full scientific name: Chryseobacterium jejuense Weon et al. 2008 emend. Wu et al. 2013 emend. Montero-Calasanz et al. 2014

strain designation: JS17-8

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32310negative1.75 µm0.65 µmrod-shapedno
69480no91.051
69480negative99.99
120325negativerod-shapedno

pigmentation

  • @ref: 32310
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8005R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: 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
37970MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
120325CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperaturerange
8005positivegrowth30mesophilic
32310positivegrowth05-35
32310positiveoptimum29mesophilic
37970positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
32310positivegrowth05-09alkaliphile
32310positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32310aerobe
120325facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

halophily

  • @ref: 32310
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3231028087glycogen+carbon source
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837117151xylitol-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
6837118305arbutin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
12032517632nitrate-reduction
12032516301nitrite-reduction

metabolite production

  • @ref: 120325
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

enzymes

@refvalueactivityec
32310catalase+1.11.1.6
32310cytochrome oxidase+1.9.3.1
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
120325oxidase+
120325catalase+1.11.1.6
120325urease+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
120325-+++++++++++---+-+--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120325+/----------+/-+/-+/----------+/--+/---+/----+/----+/-+/--+/-----------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
8005soil sampleJejuRepublic of KoreaKORAsia
120325Environment, Soil, sampleJeju IslandRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_1298.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_753;97_878;98_1026;99_1298&stattab=map
  • Last taxonomy: Chryseobacterium
  • 16S sequence: EF591303
  • Sequence Identity:
  • Total samples: 1310
  • soil counts: 196
  • aquatic counts: 700
  • animal counts: 297
  • plant counts: 117

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
80051Risk group (German classification)
1203251Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8005
  • description: Chryseobacterium jejuense strain JS17-8 16S ribosomal RNA gene, partial sequence
  • accession: EF591303
  • length: 1392
  • database: ena
  • NCBI tax ID: 445960

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chryseobacterium jejuense DSM 19299GCA_900100075scaffoldncbi445960
66792Chryseobacterium jejuense strain DSM 19299445960.10wgspatric445960
66792Chryseobacterium jejuense DSM 192992684623012draftimg445960

GC content

  • @ref: 8005
  • GC-content: 41.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.551no
flagellatedno95.584yes
gram-positiveno97.631no
anaerobicno99.632yes
aerobicyes91.917yes
halophileno93.246no
spore-formingno93.468no
glucose-fermentno92.457no
thermophileno99.775yes
glucose-utilyes83.941no

External links

@ref: 8005

culture collection no.: DSM 19299, KACC 12501, CIP 110176

straininfo link

  • @ref: 75184
  • straininfo: 323955

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18218951Chryseobacterium soli sp. nov. and Chryseobacterium jejuense sp. nov., isolated from soil samples from Jeju, Korea.Weon HY, Kim BY, Yoo SH, Kwon SW, Stackebrandt E, Go SJInt J Syst Evol Microbiol10.1099/ijs.0.65295-02008Bacterial Typing Techniques, Base Composition, Chryseobacterium/classification/genetics/*isolation & purification/physiology, DNA, Bacterial, Genes, rRNA, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, *Soil Microbiology, Species SpecificityGenetics
Phylogeny19933582Chryseobacterium culicis sp. nov., isolated from the midgut of the mosquito Culex quinquefasciatus.Kampfer P, Chandel K, Prasad GBKS, Shouche YS, Veer VInt J Syst Evol Microbiol10.1099/ijs.0.019794-02009Animals, Bacterial Typing Techniques, Chryseobacterium/*classification/genetics/*isolation & purification/physiology, Cluster Analysis, Culex/*microbiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Gastrointestinal Tract/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/biosynthesis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny21571927Chryseobacterium vietnamense sp. nov., isolated from forest soil.Li Z, Zhu HInt J Syst Evol Microbiol10.1099/ijs.0.027201-02011Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Pigmentation, Polyenes/chemistry, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Trees/*microbiology, Vietnam, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny22268076Chryseobacterium viscerum sp. nov., isolated from diseased fish.Zamora L, Vela AI, Palacios MA, Sanchez-Porro C, Svensson-Stadler LA, Dominguez L, Moore ERB, Ventosa A, Fernandez-Garayzabal JFInt J Syst Evol Microbiol10.1099/ijs.0.036699-02012Animals, Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Fish Diseases/microbiology, Gills/microbiology, Liver/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Oncorhynchus mykiss/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny24958763Chryseobacterium artocarpi sp. nov., isolated from the rhizosphere soil of Artocarpus integer.Venil CK, Nordin N, Zakaria ZA, Ahmad WAInt J Syst Evol Microbiol10.1099/ijs.0.063594-02014Artocarpus/*microbiology, Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Malaysia, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny30272541Chryseobacterium aurantiacum sp. nov., isolated from a freshwater pond used for Murray cod (Maccullochella peelii peelii) culture.Luo T, Liu Y, Chen C, Luo Q, Rao Q, Huang M, Tu J, Lin Q, Weng BInt J Syst Evol Microbiol10.1099/ijsem.0.0029872018Animals, Aquaculture, Bacterial Typing Techniques, Base Composition, China, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Perciformes, *Phylogeny, Pigmentation, Ponds/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry, *Water MicrobiologyTranscriptome
Phylogeny32515727Chryseobacterium vaccae sp. nov., isolated from raw cow's milk.Lee JE, Yoon SH, Lee GY, Lee DH, Huh CS, Kim GBInt J Syst Evol Microbiol10.1099/ijsem.0.0042502020Animals, Bacterial Typing Techniques, Base Composition, Cattle, Chryseobacterium/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Milk/*microbiology, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
8005Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19299)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19299
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
32310Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2854828776041
37970Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8006
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)
68371Automatically annotated from API 50CH acid
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
75184Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID323955.1StrainInfo: A central database for resolving microbial strain identifiers
120325Curators of the CIPCollection of Institut Pasteur (CIP 110176)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110176