Strain identifier

BacDive ID: 133311

Type strain: Yes

Species: Flavobacterium orientale

Strain Designation: SP3

NCBI tax ID(s): 1756020 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 25148

BacDive-ID: 133311

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

description: Flavobacterium orientale SP3 is an obligate aerobe, Gram-negative bacterium that forms circular colonies and was isolated from water of Sayram Lake, in Xinjiang.

NCBI tax id

  • NCBI tax id: 1756020
  • Matching level: species

doi: 10.13145/bacdive133311.20230509.8.1

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 orientale
  • full scientific name: Flavobacterium orientale Li et al. 2017

@ref: 25148

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium orientale

strain designation: SP3

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.999

colony morphology

  • @ref: 25148
  • colony size: 2.0-3.0 mm
  • colony color: orange
  • colony shape: circular
  • incubation period: 3 days
  • medium used: R2A

pigmentation

  • @ref: 25148
  • production: no
  • name: Flexirubin-type

Culture and growth conditions

culture medium

@refnamegrowth
25148Reasoner's 2A agar (R2A)yes
25148NA (Nutrient agar)yes
25148Trypticase Soy Agar (TSA)yes

culture temp

@refgrowthtypetemperaturerange
25148positivegrowth4-30
25148positiveoptimum25mesophilic

culture pH

@refabilitytypepHPH range
25148positivegrowth6.5-9.5alkaliphile
25148positiveoptimum7.0-8.5

Physiology and metabolism

oxygen tolerance

  • @ref: 25148
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.986

halophily

@refsalttested relationconcentrationgrowth
25148NaCloptimum0.5-1.0 %
25148NaClgrowth0-2.0 %(w/v)positive

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2514815588D-malate-oxidation
25148309162-oxoglutarate-builds acid from
25148739183-O-methyl-D-glucose-oxidation
2514827613amygdalin-builds acid from
2514818305arbutin-builds acid from
2514885146carboxymethylcellulose-hydrolysis
2514817057cellobiose-builds acid from
2514817057cellobiose-oxidation
2514817029chitin-hydrolysis
2514816947citrate-assimilation
2514816947citrate-oxidation
2514815963ribitol-builds acid from
2514817108D-arabinose-builds acid from
2514818333D-arabitol-builds acid from
2514815824D-fructose-builds acid from
2514815824D-fructose-oxidation
2514828847D-fucose-builds acid from
2514828847D-fucose-oxidation
2514812936D-galactose-builds acid from
2514817634D-glucose-builds acid from
2514817716lactose-builds acid from
2514862318D-lyxose-builds acid from
2514816024D-mannose-builds acid from
2514816024D-mannose-oxidation
2514816988D-ribose-builds acid from
2514816523D-serine-oxidation
2514817924D-sorbitol-oxidation
2514816443D-tagatose-builds acid from
2514865327D-xylose-builds acid from
2514816991dna-hydrolysis
25148egg yolk-hydrolysis
2514817113erythritol-builds acid from
2514816813galactitol-builds acid from
2514828066gentiobiose-oxidation
2514824265gluconate-builds acid from
2514817234glucose-fermentation
2514817754glycerol-builds acid from
2514817754glycerol-oxidation
2514813643glycol-builds acid from
2514817596inosine-oxidation
2514817268myo-inositol-builds acid from
2514817268myo-inositol-oxidation
2514830849L-arabinose-builds acid from
2514818403L-arabitol-builds acid from
2514818287L-fucose-builds acid from
2514818287L-fucose-oxidation
2514862345L-rhamnose-builds acid from
2514862345L-rhamnose-oxidation
2514817266L-sorbose-builds acid from
2514865328L-xylose-builds acid from
2514824996lactate-oxidation
251486731melezitose-builds acid from
2514828053melibiose-builds acid from
2514828053melibiose-oxidation
25148320061methyl alpha-D-glucopyranoside-builds acid from
2514843943methyl alpha-D-mannoside-builds acid from
2514874863methyl beta-D-xylopyranoside-builds acid from
2514863154N-acetyl-beta-D-mannosamine-oxidation
25148506227N-acetylglucosamine-builds acid from
25148506227N-acetylglucosamine-oxidation
2514817632nitrate-reduction
2514816634raffinose-builds acid from
2514816634raffinose-oxidation
2514817814salicin-builds acid from
2514817814salicin-oxidation
2514830911sorbitol-builds acid from
2514817164stachyose-oxidation
2514817992sucrose-builds acid from
2514817992sucrose-oxidation
25148synanthrin-builds acid from
2514827082trehalose-builds acid from
2514827082trehalose-oxidation
2514832528turanose-builds acid from
2514832528turanose-oxidation
2514853424tween 20-hydrolysis
2514853426tween 80-hydrolysis
2514818186tyrosine-hydrolysis
2514817151xylitol-builds acid from
2514830089acetate+oxidation
2514813705acetoacetate+oxidation
2514817925alpha-D-glucose+oxidation
2514818333D-arabitol+oxidation
2514818024D-galacturonic acid+oxidation
2514823652dextrin+oxidation
251484853esculin+hydrolysis
251484853esculin+builds acid from
251485291gelatin+hydrolysis
251485291gelatin+oxidation
2514870744glycine-proline+oxidation
2514828087glycogen+builds acid from
2514816467L-arginine+oxidation
2514829991L-aspartate+oxidation
2514817464L-galactonic acid gamma-lactone+oxidation
2514829985L-glutamate+oxidation
2514815589L-malate+oxidation
2514817306maltose+builds acid from
2514817306maltose+oxidation
2514851850methyl pyruvate+oxidation
2514828037N-acetylgalactosamine+oxidation
2514817309pectin+oxidation
2514817272propionate+oxidation
2514828017starch+hydrolysis
2514828017starch+builds acid from
2514853423tween 40+oxidation
2514853425tween 60+hydrolysis
25148581435-dehydro-D-gluconate+/-builds acid from
25148casein+/-hydrolysis
2514812936D-galactose+/-oxidation
2514814314D-glucose 6-phosphate+/-oxidation
2514816024D-mannose+/-oxidation
2514828066gentiobiose+/-builds acid from
2514817115L-serine+/-oxidation
2514874611methyl (R)-lactate+/-oxidation
2514835418n-acetylneuraminate+/-oxidation

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.is sensitivesensitivity conc.
2514831810fleroxacinyesyes5 µg
25148100241ciprofloxacinyesyes5 µg
251489332sulfamethoxazoleyesyes1.25 µg
251488232piperacillinyesyes100 µg
251487809oxacillinyesyes1 µg
2514871415nitrofurantoinyesyes300 µg
25148116278lomefloxacinyesyes10 µg
2514818208penicillin gyesyes10
2514848923erythromycinyesyes15 µg
2514817698chloramphenicolyesyes30 µg
251482955azithromycinyesyes15 µg
251483745clindamycinyesyes2 µg
2514850845doxycyclineyesyes30 µg
251483732clarithromycinyesyes15 µg
2514828001vancomycinyesyes30 µg
251487528netilmycinyesyes30 µg
2514829007ceftriaxoneyesyes30 µg
251483478cefacloryesyes30 µg
25148474053cefazolinyesyes30 µg
25148204928cefotaximeyesyes30 µg
2514828971ampicillinyesyes10 µg
2514850694minocyclineyesyes30 µg
2514828077rifampicinyesyes5 µg
2514827902tetracyclineyesyes30 µg
251482637amikacinyesyes30 µg
251483508ceftazidimeyesyes30 µg
25148124991cefalotinyesyes30 µg
251483493cefoperazoneyesyes75 µg
251483517cefuroximeyesyes30 µg

metabolite production

@refChebi-IDmetaboliteproduction
2514816136hydrogen sulfideno
2514835581indoleno

enzymes

@refvalueactivityec
25148acid phosphatase+3.1.3.2
25148alkaline phosphatase+3.1.3.1
25148alpha-chymotrypsin+3.4.21.1
25148alpha-fucosidase-3.2.1.51
25148alpha-galactosidase-3.2.1.22
25148alpha-glucosidase+/-3.2.1.20
25148alpha-mannosidase-3.2.1.24
25148beta-galactosidase-3.2.1.23
25148beta-glucosidase-3.2.1.21
25148beta-glucuronidase-3.2.1.31
25148catalase+1.11.1.6
25148cystine arylamidase+3.4.11.3
25148cytochrome oxidase+1.9.3.1
25148esterase (C 4)+
25148esterase Lipase (C 8)+
25148leucine arylamidase+3.4.11.1
25148lipase (C 14)-
25148N-acetyl-beta-glucosaminidase-3.2.1.52
25148naphthol-AS-BI-phosphohydrolase+
25148trypsin+3.4.21.4
25148urease-3.5.1.5
25148valine arylamidase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    25148C15:0 anteiso1.8
    25148C15:1 anteiso A0.7
    25148C17:1 anteiso ω9c0.4
    25148C14:00.3
    25148C15:0 2OH0.3
    25148C15:1ω6c3.5
    25148C16:00.7
    25148C16:0 3OH0.4
    25148C16:1ω7c / C16:1ω6c3.6
    25148C17:0 2OH0.4
    25148C17:1ω6c1.9
    25148C17:1ω8c0.6
    25148C18:1ω5c0.3
    25148C13:0 iso0.5
    25148C14:0 iso0.7
    25148C15:0 iso33
    25148C15:0 iso 3OH6.2
    25148C15:1 iso G19.1
    25148C16:0 iso1.6
    25148C16:0 iso 3OH1.6
    25148C16:1 iso H1.1
    25148C17:0 iso0.4
    25148C17:0 iso 3OH7.9
    25148iso-C17:1 I / anteiso-C17:11.1
    25148C17:1 iso ω9c / C16:0 10-methyl10.7
  • type of FA analysis: whole cell analysis
  • incubation medium: Tryptic soy agar (TSA)
  • agar/liquid: agar
  • incubation temperature: 25
  • incubation time: 3
  • software version: Sherlock 6.0
  • library/peak naming table: TSBA 6
  • system: MIS MIDI
  • method/protocol: Sasser 1990

Isolation, sampling and environmental information

isolation

  • @ref: 25148
  • sample type: water of Sayram Lake, in Xinjiang
  • geographic location: Sayram Lake, Xinjiang
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Lake (large)

Sequence information

16S sequences

  • @ref: 25148
  • description: 16S rRNA gene sequence
  • accession: KT985058
  • length: 1477
  • database: ena
  • NCBI tax ID: 1756020

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavobacterium orientale CGMCC 1.12506GCA_014638005scaffoldncbi1756020
66792Flavobacterium orientale strain CGMCC 1.125061756020.3wgspatric1756020

GC content

  • @ref: 25148
  • GC-content: 34.9
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno95.136no
gram-positiveno99.041no
anaerobicno98.582yes
aerobicyes84.478no
halophileno85.991no
spore-formingno96.462no
thermophileno98.56yes
glucose-utilyes87.601no
motileno87.443no
glucose-fermentno89.843yes

External links

@ref: 25148

culture collection no.: CGMCC 1.12506, NBRC 109717

literature

  • topic: Phylogeny
  • Pubmed-ID: 27902194
  • title: Flavobacterium orientale sp. nov., isolated from lake water.
  • authors: Li AH, Liu HC, Zhou YG
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001544
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Lakes/*microbiology, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

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
25148A. H. L. Li, H. C.,Zhou, Y. G.Flavobacterium orientale sp. nov., isolated from lake water10.1099/ijsem.0.001544IJSEM 67: 108-112 201727902194
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
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