Strain identifier

BacDive ID: 158743

Type strain: Yes

Species: Flavobacterium luteum

Strain history: <- Jang-Cheon Cho, Inha Univ.

NCBI tax ID(s): 2026654 (species)

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General

@ref: 65493

BacDive-ID: 158743

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

description: Flavobacterium luteum KCTC 52572 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from lake freshwater sample.

NCBI tax id

  • NCBI tax id: 2026654
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- Jang-Cheon Cho, Inha Univ.

doi: 10.13145/bacdive158743.20230509.8.1

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 luteum
  • full scientific name: Flavobacterium luteum Park et al. 2017

@ref: 65493

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium luteum

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
65493negative1.2-1.5 µm0.3-0.5 µmrod-shapedno
67771rod-shapedno
67771negative
69480negative99.996

colony morphology

  • @ref: 65493
  • colony color: orange
  • colony shape: circular
  • incubation period: 3 days
  • medium used: R2A

pigmentation

  • @ref: 65493
  • production: no
  • name: felxirubin

Culture and growth conditions

culture medium

@refnamegrowth
65493Marine agar (MA)no
65493Nutrient agar (NA)no
65493PCAno
65493Trypticase Soy Agar (TSA)no
65493Reasoner's 2A agar (R2A)yes

culture temp

@refgrowthtypetemperaturerange
65493positivegrowth4-37
65493positiveoptimum20psychrophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepH
65493positivegrowth6-8
65493positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
65493aerobe
67771aerobe

spore formation

@refspore formationconfidence
69480no100
69481no100

halophily

@refsaltgrowthtested relationconcentrationhalophily level
65493NaClpositivegrowth0-1 %
65493NaClpositiveoptimum0 %non-halophilic

observation

  • @ref: 67771
  • observation: quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6549340585alpha-cyclodextrin+oxidation
6549317925alpha-D-glucose+oxidation
6549385146carboxymethylcellulose-hydrolysis
65493casein-hydrolysis
6549317029chitin-hydrolysis
6549312936D-galactose+oxidation
6549316024D-mannose+oxidation
6549323652dextrin+oxidation
6549316991dna-hydrolysis
654934853esculin+hydrolysis
654935291gelatin-hydrolysis
6549317234glucose-fermentation
6549328087glycogen+oxidation
6549317596inosine+oxidation
6549315729L-ornithine+oxidation
6549317203L-proline+oxidation
6549317306maltose+oxidation
6549375146monomethyl succinate+oxidation
6549317632nitrate-reduction
6549328017starch+hydrolysis
6549317992sucrose+oxidation
6549317748thymidine+oxidation
6549353424tween 20-hydrolysis
6549353426tween 80-hydrolysis
6549316199urea+hydrolysis
6549316704uridine+oxidation

metabolite production

  • @ref: 65493
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
65493catalase+1.11.1.6
65493cytochrome oxidase+1.9.3.1
65493arginine dihydrolase-3.5.3.6
65493alkaline phosphatase+3.1.3.1
65493esterase (C 4)+
65493esterase Lipase (C 8)+
65493leucine arylamidase+3.4.11.1
65493valine arylamidase+
65493trypsin+3.4.21.4
65493acid phosphatase+3.1.3.2
65493naphthol-AS-BI-phosphohydrolase+
65493lipase (C 14)-
65493cystine arylamidase-3.4.11.3
65493alpha-chymotrypsin-3.4.21.1
65493alpha-galactosidase-3.2.1.22
65493beta-galactosidase-3.2.1.23
65493beta-glucuronidase-3.2.1.31
65493alpha-glucosidase-3.2.1.20
65493beta-glucosidase-3.2.1.21
65493N-acetyl-beta-glucosaminidase-3.2.1.52
65493alpha-mannosidase-3.2.1.24
65493alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65493C14:01.1
    65493C16:03.6
    65493C15:1ω6c5.9
    65493C17:1ω6c2.1
    65493C15:0 iso16.8
    65493C16:0 iso3
    65493C15:1 iso G8.2
    65493C16:1 iso H2
    65493C15:0 anteiso15.3
    65493C17:1 anteiso ω9c1.2
    65493C15:0 iso 3OH4.4
    65493C16:0 iso 3OH1.5
    65493C17:0 iso 3OH2.9
    65493C16:1ω7c / C16:1ω6c24.6
    65493C16:0 10-methyl / iso-C17:ω9c2.7
  • type of FA analysis: whole cell analysis
  • incubation medium: R2A
  • incubation temperature: 25
  • incubation time: 3
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • method/protocol: Sasser, 1990
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
65493lake freshwater sampleLake Soyang, ChuncheonRepublic of KoreaKORAsia37.9475127.819Supplemented autoclaved lake waterAutoclaved lake water supplemented with NH4Cl (10 µM), KH2PO4 (10 µM), pyruvic acid (50 µM), each 5 µM of D-glucose, D-ribose, N-acetyl-D-glucosamine and methyl alcohol, and a 1:10000 dilution of a vitamin mixture.4 weeks15High-throughput culturing method based on dilution-to-extinction. The freshwater sample was diuluted to 5 cell/ml incubated in microtiterplates. Subsequently, growth positive cultures were spread onto R2A agar and incubated at 15 °C for 7 days.
67771From fresh waterSoyang Lake, ChuncheonRepublic of KoreaKORAsia37.9475127.819

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Freshwater
#Environmental#Aquatic#Lake (large)

Sequence information

16S sequences

  • @ref: 65493
  • description: 16S rRNA gene sequence
  • accession: KX505860
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavobacterium luteum NBRC 112527GCA_008806775contigncbi2026654
66792Flavobacterium luteum strain NBRC 1125272026654.3wgspatric2026654
66792Flavobacterium luteum NBRC 1125272906829834draftimg2026654

GC content

@refGC-contentmethod
6549333.7thermal denaturation, midpoint method (Tm)
6777133.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.839no
gram-positiveno98.582yes
anaerobicno98.78yes
aerobicyes82.84no
halophileno95.301yes
spore-formingno97.112no
glucose-utilyes78.575no
flagellatedno96.809no
thermophileno91.913no
glucose-fermentno91.042yes

External links

@ref: 65493

culture collection no.: KCTC 52572, NBRC 112527, IMCC 26026

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny28920853Flavobacterium chuncheonense sp. nov. and Flavobacterium luteum sp. nov., isolated from a freshwater lake.Park M, Nam GG, Kim S, Jeon HT, Joung Y, Cho JCInt J Syst Evol Microbiol10.1099/ijsem.0.0023042017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Lakes/*microbiology, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny31702532Flavobacterium psychrotolerans sp. nov., a psychrotolerant bacterium isolated from Renlongba glacier on the Tibetan Plateau.Yang LL, Liu Q, Liu HC, Zhou YG, Xin YHInt J Syst Evol Microbiol10.1099/ijsem.0.0038682020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/isolation & purification, Ice Cover/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tibet, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urljournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
65493Miri Park, Gi Gyun Nam, Suhyun Kim, Hyoung Tae Jeon, Yochan Joung and Jang-Cheon ChoFlavobacterium chuncheonense sp. nov. and Flavobacterium luteum sp. nov., isolated from a freshwater lake10.1099/ijsem.0.002304IJSEM 67: 4409-4415 201728920853
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1