Strain identifier

BacDive ID: 5572

Type strain: Yes

Species: Flavobacterium cheniae

Strain Designation: NJ-26

Strain history: CIP <- 2008, NBRC <- J.H. Qu, China Agric. Univ., Beijing, China: strain NJ-26

NCBI tax ID(s): 295428 (species)

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General

@ref: 16351

BacDive-ID: 5572

DSM-Number: 22462

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

description: Flavobacterium cheniae NJ-26 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sediment of the eutrophicated Guanting Reservoir.

NCBI tax id

  • NCBI tax id: 295428
  • Matching level: species

strain history

@refhistory
16351<- NBRC <- J.-H. Qu; NJ-26
118229CIP <- 2008, NBRC <- J.H. Qu, China Agric. Univ., Beijing, China: strain NJ-26

doi: 10.13145/bacdive5572.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Flavobacterium
  • species: Flavobacterium cheniae
  • full scientific name: Flavobacterium cheniae Qu et al. 2008

@ref: 16351

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium cheniae

full scientific name: Flavobacterium cheniae Qu et al. 2008 emend. Joung et al. 2013

strain designation: NJ-26

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
32498negative1.5-3 µm0.3-0.5 µmrod-shapedyesgliding
69480negative99.998
118229negativerod-shapedno

pigmentation

  • @ref: 32498
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16351R2A 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
39837MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
118229CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperaturerange
16351positivegrowth25mesophilic
32498positivegrowth18-32
32498positiveoptimum28mesophilic
39837positivegrowth25mesophilic

culture pH

@refabilitytypepH
32498positivegrowth6.5-8
32498positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32498aerobe
118229obligate aerobe

spore formation

@refspore formationconfidence
32498no
69481no100
69480no99.999

halophily

  • @ref: 32498
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-0.8 %

observation

  • @ref: 32498
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11822917632nitrate-reduction
11822916301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
3249816136hydrogen sulfideyes
11822935581indoleno

enzymes

@refvalueactivityec
32498alkaline phosphatase+3.1.3.1
32498catalase+1.11.1.6
32498cytochrome 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
118229oxidase+
118229catalase+1.11.1.6
118229urease-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
118229-+++-++++-++--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
16351sediment of the eutrophicated Guanting ReservoirBeijing cityChinaCHNAsia
118229Environment, Sediment, Guanting reservoirBeijingChinaCHNAsia2006

isolation source categories

Cat1Cat2Cat3
#Engineered#Built environment#Water reservoir (Aquarium/pool)
#Environmental#Aquatic#Sediment

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
163511Risk group (German classification)
1182291Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Flavobacterium cheniae gene for 16S rRNA, partial sequence, strain: NBRC 103934AB6821441439ena295428
16351Flavobacterium cheniae 16S ribosomal RNA gene, partial sequenceEF4078801410ena295428

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavobacterium cheniae CGMCC 1.6844GCA_007830415contigncbi295428
66792Flavobacterium cheniae DSM 22462GCA_004363695scaffoldncbi295428
66792Flavobacterium cheniae strain CGMCC 1.6844295428.5wgspatric295428
66792Flavobacterium cheniae strain DSM 22462295428.4wgspatric295428
66792Flavobacterium cheniae CGMCC 1.68442596583558draftimg295428
66792Flavobacterium cheniae DSM 224622757320365draftimg295428

GC content

  • @ref: 16351
  • GC-content: 40.6

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno88.443no
flagellatedno95.612yes
gram-positiveno99.05yes
anaerobicno98.68yes
aerobicyes85.612yes
halophileno92.762yes
spore-formingno96.273yes
glucose-utilyes83.286no
thermophileno98.495yes
glucose-fermentno91.495no

External links

@ref: 16351

culture collection no.: DSM 22462, CGMCC 1.6844, NBRC 103934, CIP 109891, KACC 14365

straininfo link

  • @ref: 75055
  • straininfo: 358875

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18768627Flavobacterium cheniae sp. nov., isolated from sediment of a eutrophic reservoir.Qu JH, Li HF, Yang JS, Yuan HLInt J Syst Evol Microbiol10.1099/ijs.0.65586-02008Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/*isolation & purification/physiology, Genes, rRNA, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/biosynthesis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic AcidGenetics
Phylogeny20228208Flavobacterium dongtanense sp. nov., isolated from the rhizosphere of a wetland reed.Xiao YP, Hui W, Lee JS, Lee KC, Quan ZXInt J Syst Evol Microbiol10.1099/ijs.0.022301-02010Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, Phenotype, *Phylogeny, Pigments, Biological/analysis, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis, *WetlandsGenetics
Phylogeny23543500Flavobacterium aquaticum sp. nov., isolated from a water sample of a rice field.Subhash Y, Sasikala C, Ramana CVInt J Syst Evol Microbiol10.1099/ijs.0.050047-02013Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/isolation & purification, India, Molecular Sequence Data, Nucleic Acid Hybridization, Oryza/*microbiology, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Triterpenes/analysis, *Water Microbiology, beta Carotene/analysisGenetics
Phylogeny23710048Flavobacterium jumunjinense sp. nov., isolated from a lagoon, and emended descriptions of Flavobacterium cheniae, Flavobacterium dongtanense and Flavobacterium gelidilacus.Joung Y, Kim H, Joh KInt J Syst Evol Microbiol10.1099/ijs.0.045286-02013Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, Polyamines/chemistry, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/microbiology, Sequence Analysis, DNA, Water MicrobiologyGenetics
Phylogeny35059830Flavobacterium proteolyticum sp. nov., isolated from aquaculture water.Du J, Liu Y, Pei T, Li A, Deng MR, Zhu HArch Microbiol10.1007/s00203-021-02744-22022Aquaculture, Bacterial Typing Techniques, DNA, Bacterial/genetics, *Flavobacterium/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *WaterTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
16351Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22462)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22462
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
32498Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604128718
39837Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7686
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)
68382Automatically annotated from API zym
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
75055Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID358875.1StrainInfo: A central database for resolving microbial strain identifiers
118229Curators of the CIPCollection of Institut Pasteur (CIP 109891)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109891