Strain identifier

BacDive ID: 139428

Type strain: Yes

Species: Flavobacterium tructae

Strain Designation: 435-08

Strain history: CIP <- 2014, CCUG <- 2010 A.I. Vela, UCM, Madrid, Spain: strain 435-08

NCBI tax ID(s): 1114873 (species)

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General

@ref: 41605

BacDive-ID: 139428

keywords: genome sequence, Bacteria, aerobe, mesophilic, Gram-negative

description: Flavobacterium tructae 435-08 is an aerobe, mesophilic, Gram-negative bacterium of the family Flavobacteriaceae.

NCBI tax id

  • NCBI tax id: 1114873
  • Matching level: species

strain history

  • @ref: 41605
  • history: CIP <- 2014, CCUG <- 2010 A.I. Vela, UCM, Madrid, Spain: strain 435-08

doi: 10.13145/bacdive139428.20230509.8.1

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 tructae
  • full scientific name: Flavobacterium tructae Zamora et al. 2014

  • synonyms

    • @ref: 20215
    • synonym: Flavobacterium spartansii

@ref: 41605

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium tructae

strain designation: 435-08

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.998
41605negativerod-shapedno

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
41605MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
41605CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
41605CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperaturerange
41605positivegrowth30mesophilic
62199positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 62199
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose+assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
62199-+---++---+++--+----

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
62199-----+-++-+-++----+-+

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsample typesampling dateisolation date
41605MadridSpainESPEurope
62199MadridSpainESPEuropeTrout liver2008-04-20
41605MadridSpainESPEuropeTrout, liver2008-04-20

isolation source categories

Cat1Cat2Cat3
#Host#Fishes
#Host#Fishes#Salmonidae
#Host Body-Site#Organ#Liver

Safety information

risk assessment

  • @ref: 41605
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavobacterium tructae CCUG 60100GCA_002217475scaffoldncbi1114873
66792Flavobacterium tructae strain CCUG 601001114873.5wgspatric1114873
66792Flavobacterium tructae CCUG 601002904731956draftimg1114873

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno94.28no
gram-positiveno98.23no
anaerobicno99.785yes
aerobicyes87.671yes
halophileno97.476no
spore-formingno91.38no
thermophileno99.432yes
glucose-utilyes87.681no
motileno86.964no
glucose-fermentno89.697yes

External links

@ref: 41605

culture collection no.: CIP 110845, CCUG 60100, CECT 7791

straininfo link

  • @ref: 95931
  • straininfo: 392249

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24065772Flavobacterium tructae sp. nov. and Flavobacterium piscis sp. nov., isolated from farmed rainbow trout (Oncorhynchus mykiss).Zamora L, Vela AI, Sanchez-Porro C, Palacios MA, Moore ERB, Dominguez L, Ventosa A, Fernandez-Garayzabal JFInt J Syst Evol Microbiol10.1099/ijs.0.056341-02013Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Oncorhynchus mykiss/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spain, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny27045592Flavobacterium aquicola sp. nov., isolated from river water.Hatayama K, Ushida A, Kuno TInt J Syst Evol Microbiol10.1099/ijsem.0.0010572016Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Japan, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcatalogue
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
41605Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110845Collection of Institut Pasteur (CIP 110845)
62199Curators of the CCUGhttps://www.ccug.se/strain?id=60100Culture Collection University of Gothenburg (CCUG) (CCUG 60100)
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
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
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
95931Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID392249.1