Strain identifier

BacDive ID: 5541

Type strain: Yes

Species: Flavobacterium fryxellicola

Strain history: CIP <- 2009, JF. Bernardet, INRA, Jouy en Josas, France <- LMG

NCBI tax ID(s): 249352 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 6327

BacDive-ID: 5541

DSM-Number: 16209

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, psychrophilic, Gram-negative, rod-shaped

description: Flavobacterium fryxellicola DSM 16209 is a facultative anaerobe, psychrophilic, Gram-negative bacterium that was isolated from microbial mat.

NCBI tax id

  • NCBI tax id: 249352
  • Matching level: species

strain history

@refhistory
6327<- LMG
119474CIP <- 2009, JF. Bernardet, INRA, Jouy en Josas, France <- LMG

doi: 10.13145/bacdive5541.20230509.8.1

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 fryxellicola
  • full scientific name: Flavobacterium fryxellicola Van Trappen et al. 2005

@ref: 6327

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium fryxellicola

full scientific name: Flavobacterium fryxellicola Van Trappen et al. 2005 emend. Hahnke et al. 2016

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30197negative3.5 µm1.25 µmrod-shapedno
69480negative99.993
119474negativerod-shapedno

pigmentation

  • @ref: 30197
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6327R2A 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
41928MEDIUM 714 - for Flavobacterium columnareyesDistilled water make up to (1000.000 ml);Agar (10.000 g);Yeast extract (0.500 g);Beef extract (0.200 g);Acetic acid (0.200 ml);Calf serum (50.000 ml);Bacto-Tryptone (0.500 g)
119474CIP Medium 714yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=714

culture temp

@refgrowthtypetemperaturerange
6327positivegrowth20psychrophilic
30197positivegrowth05-25
30197positiveoptimum20psychrophilic
41928positivegrowth20psychrophilic
119474positivegrowth5-22psychrophilic
119474nogrowth25mesophilic
119474nogrowth30mesophilic
119474nogrowth37mesophilic
119474nogrowth41thermophilic
119474nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119474
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.99

halophily

@refsaltgrowthtested relationconcentration
30197NaClpositivegrowth0-2 %
30197NaClpositiveoptimum1 %
119474NaClnogrowth0 %
119474NaClnogrowth2 %
119474NaClnogrowth4 %
119474NaClnogrowth6 %
119474NaClnogrowth8 %
119474NaClnogrowth10 %

observation

  • @ref: 30197
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3019717234glucose+carbon source
3019717306maltose+carbon source
11947416947citrate-carbon source
1194744853esculin-hydrolysis
119474606565hippurate-hydrolysis
11947417632nitrate-reduction
11947416301nitrite-reduction
11947415792malonate-assimilation
11947417234glucose-degradation

antibiotic resistance

  • @ref: 119474
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 119474
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11947415688acetoin-
11947417234glucose-

enzymes

@refvalueactivityec
30197acid phosphatase+3.1.3.2
30197alkaline phosphatase+3.1.3.1
30197catalase+1.11.1.6
30197cytochrome 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
119474oxidase+
119474beta-galactosidase-3.2.1.23
119474alcohol dehydrogenase-1.1.1.1
119474gelatinase-
119474catalase+1.11.1.6
119474gamma-glutamyltransferase+2.3.2.2
119474lysine decarboxylase-4.1.1.18
119474ornithine decarboxylase-4.1.1.17
119474phenylalanine ammonia-lyase-4.3.1.24
119474tryptophan deaminase-
119474urease-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
119474-+++-++---+++--+++--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcontinentcountryorigin.countryisolation date
6327microbial matLake Fryxell (fresh/brackish) in the McMurdo Dry ValleysAustralia and Oceania
119474Microbial materialFryxell lakeAntarcticaAntarcticaATA1999

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Microbial community
  • Cat3: #Microbial mat

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
63271Risk group (German classification)
1194741Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Flavobacterium fryxellicola strain LMG22022 16S ribosomal RNA gene, partial sequenceJX6570541266ena249352
6327Flavobacterium fryxellicola 16S rRNA gene, type strain LMG 22022AJ8119611467ena249352

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavobacterium fryxellicola DSM 16209GCA_900143245contigncbi249352
66792Flavobacterium fryxellicola DSM 16209GCA_001637185contigncbi249352
66792Flavobacterium fryxellicola strain DSM 16209249352.3wgspatric249352
66792Flavobacterium fryxellicola strain DSM 16209249352.5wgspatric249352
66792Flavobacterium fryxellicola DSM 162092744054791draftimg249352
66792Flavobacterium fryxellicola DSM 162092695420925draftimg249352

GC content

@refGC-contentmethod
632735.2
632734.6sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno88.584yes
gram-positiveno98.488yes
anaerobicno99.366no
aerobicyes93.119no
halophileno90.789yes
spore-formingno94.634no
glucose-utilyes86.845yes
flagellatedno92.805yes
thermophileno99.55no
glucose-fermentno94.692no

External links

@ref: 6327

culture collection no.: DSM 16209, CIP 108325, LMG 22022

straininfo link

  • @ref: 75024
  • straininfo: 21526

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15774660Flavobacterium fryxellicola sp. nov. and Flavobacterium psychrolimnae sp. nov., novel psychrophilic bacteria isolated from microbial mats in Antarctic lakes.Van Trappen S, Vandecandelaere I, Mergaert J, Swings JInt J Syst Evol Microbiol10.1099/ijs.0.03056-02005Antarctic Regions, *Cold Temperature, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Flavobacterium/*classification/genetics/growth & development/isolation & purification, Fresh Water/*microbiology, Genotype, Geologic Sediments/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, Polymerase Chain Reaction, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny21724953Flavobacterium xueshanense sp. nov. and Flavobacterium urumqiense sp. nov., two psychrophilic bacteria isolated from glacier ice.Dong K, Liu H, Zhang J, Zhou Y, Xin YInt J Syst Evol Microbiol10.1099/ijs.0.030049-02011Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/*isolation & purification, *Ice, Ice Cover/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
6327Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16209)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16209
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
30197Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604126543
41928Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5935
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
75024Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID21526.1StrainInfo: A central database for resolving microbial strain identifiers
119474Curators of the CIPCollection of Institut Pasteur (CIP 108325)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108325