Strain identifier

BacDive ID: 14139

Type strain: Yes

Species: Solitalea canadensis

Strain Designation: USAM 9D

Strain history: CIP <- 1996, IFO <- ATCC <- P. Christensen: strain USAM 9D <- F.D. Cook, Flexibacter canadensis

NCBI tax ID(s): 929556 (strain), 995 (species)

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General

@ref: 1378

BacDive-ID: 14139

DSM-Number: 3403

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative

description: Solitalea canadensis USAM 9D is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from soil.

NCBI tax id

NCBI tax idMatching level
995species
929556strain

strain history

@refhistory
1378<- ATCC <- P. Christensen, USAM 9D <- F.D. Cook
67770IAM 15375 <-- NBRC 15130 <-- IFO 15130 <-- ATCC 29591 <-- P. Christensen <-- F. D. Cook.
117126CIP <- 1996, IFO <- ATCC <- P. Christensen: strain USAM 9D <- F.D. Cook, Flexibacter canadensis

doi: 10.13145/bacdive14139.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Sphingobacteriia
  • order: Sphingobacteriales
  • family: Sphingobacteriaceae
  • genus: Solitalea
  • species: Solitalea canadensis
  • full scientific name: Solitalea canadensis (Christensen 1980) Weon et al. 2009

  • synonyms

    • @ref: 20215
    • synonym: Flexibacter canadensis

@ref: 1378

domain: Bacteria

phylum: Bacteroidetes

class: Sphingobacteriia

order: Sphingobacteriales

family: Sphingobacteriaceae

genus: Solitalea

species: Solitalea canadensis

full scientific name: Solitalea canadensis (Christensen 1980) Weon et al. 2009

strain designation: USAM 9D

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.983
117126negativerod-shapedno

colony morphology

  • @ref: 117126

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1378R2A 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
1378FLEXIBACTER CANADENSIS MEDIUM (DSMZ Medium 357)yeshttps://mediadive.dsmz.de/medium/357Name: FLEXIBACTER CANADENSIS MEDIUM (DSMZ Medium 357) Composition: Agar 10.0 g/l Tris 1.0 g/l Glucose 1.0 g/l Casamino acids 1.0 g/l Sodium glycerophosphate 0.1 g/l CaCl2 x 2 H2O 0.1 g/l KNO3 0.1 g/l MgSO4 x 7 H2O 0.1 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l Thiamine-HCl x 2 H2O 0.001 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l H3BO3 6e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Vitamin B12 1e-06 g/l Distilled water
35735MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
117126CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
117126CIP Medium 164yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=164
117126CIP Medium 264yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=264

culture temp

@refgrowthtypetemperaturerange
1378positivegrowth25mesophilic
35735positivegrowth25mesophilic
67770positivegrowth25mesophilic
117126positivegrowth15-41
117126nogrowth5psychrophilic
117126nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 117126
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.921

halophily

@refsaltgrowthtested relationconcentration
117126NaClpositivegrowth0 %
117126NaClnogrowth2 %
117126NaClnogrowth4 %
117126NaClnogrowth6 %
117126NaClnogrowth8 %
117126NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch+builds acid from28017
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose-builds acid from17992
68371melibiose+builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371salicin-builds acid from17814
68371esculin+builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-fructose-builds acid from15824
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol+builds acid from17754
117126esculin+hydrolysis4853
117126hippurate-hydrolysis606565
117126nitrate+reduction17632
117126nitrite+reduction16301
117126malonate-assimilation15792
117126sodium thiosulfate+builds gas from132112
117126nitrate+respiration17632

antibiotic resistance

  • @ref: 117126
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 117126
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11712615688acetoin-
11712617234glucose-

enzymes

@refvalueactivityec
117126oxidase+
117126beta-galactosidase-3.2.1.23
117126alcohol dehydrogenase-1.1.1.1
117126gelatinase-
117126amylase-
117126DNase-
117126caseinase-3.4.21.50
117126catalase+1.11.1.6
117126tween esterase-
117126gamma-glutamyltransferase+2.3.2.2
117126lecithinase-
117126lipase-
117126lysine decarboxylase-4.1.1.18
117126ornithine decarboxylase-4.1.1.17
117126phenylalanine ammonia-lyase-4.3.1.24
117126urease-3.5.1.5
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
117126-+++-++++-++---+++-+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
117126+----+---+/-+/--+/------------+-+/-+++----+/-++------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
117126+-----+--+++---++-+--+---------+-------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
1378soilCanadaCANNorth America
67770SoilCanadaCANNorth America
117126Environment, SoilCanadaCANNorth AmericaOttawa

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_5249.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_509;96_2549;97_3115;98_3914;99_5249&stattab=map
  • Last taxonomy: Solitalea canadensis subclade
  • 16S sequence: AB680776
  • Sequence Identity:
  • Total samples: 3062
  • soil counts: 2060
  • aquatic counts: 541
  • animal counts: 137
  • plant counts: 324

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
13781Risk group (German classification)
1171261Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Solitalea canadensis gene for 16S rRNA, partial sequence, strain: NBRC 15130AB6807761445ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlB01 16S ribosomal RNA gene, partial sequenceJF508194729ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlB09 16S ribosomal RNA gene, partial sequenceJF508201724ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlB12 16S ribosomal RNA gene, partial sequenceJF508204729ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlC02 16S ribosomal RNA gene, partial sequenceJF508206725ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlC05 16S ribosomal RNA gene, partial sequenceJF508209724ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlD08 16S ribosomal RNA gene, partial sequenceJF508224725ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlD10 16S ribosomal RNA gene, partial sequenceJF508226713ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlD11 16S ribosomal RNA gene, partial sequenceJF508227724ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlD12 16S ribosomal RNA gene, partial sequenceJF508228729ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlE02 16S ribosomal RNA gene, partial sequenceJF508230729ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlE03 16S ribosomal RNA gene, partial sequenceJF508231724ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlE04 16S ribosomal RNA gene, partial sequenceJF508232729ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlE09 16S ribosomal RNA gene, partial sequenceJF508237729ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlE11 16S ribosomal RNA gene, partial sequenceJF508239724ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlF05 16S ribosomal RNA gene, partial sequenceJF508244718ena995
20218Solitalea canadensis strain ATCC 29591 clone ControlG12 16S ribosomal RNA gene, partial sequenceJF508261724ena995
20218F.canadensis 16S ribosomal RNAM627931471ena995
1378Flexibacter canadensis gene for 16S rRNA, strain:IFO 15130AB0780461475ena929556

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Solitalea canadensis DSM 3403GCA_000242635completencbi929556
66792Solitalea canadensis DSM 3403929556.3wgspatric929556
66792Solitalea canadensis USAM 9D, DSM 34032509276062completeimg929556

GC content

@refGC-content
137837.0
6777037

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.923no
flagellatedno97.168no
gram-positiveno97.365no
anaerobicno97.889no
aerobicyes77.501no
halophileno96.369no
spore-formingno91.123no
glucose-utilyes84.797no
thermophileno98.468no
glucose-fermentno86.351no

External links

@ref: 1378

culture collection no.: DSM 3403, ATCC 29591, CIP 104802, JCM 21819, KACC 13276, NBRC 15130, IAM 15375, IFO 15130, LMG 8368, NCIMB 12057

straininfo link

  • @ref: 83304
  • straininfo: 2840

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19567567Solitalea koreensis gen. nov., sp. nov. and the reclassification of [Flexibacter] canadensis as Solitalea canadensis comb. nov.Weon HY, Kim BY, Lee CM, Hong SB, Jeon YA, Koo BS, Kwon SWInt J Syst Evol Microbiol10.1099/ijs.0.007278-02009Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/*isolation & purification, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flexibacter/*classification/genetics, Molecular Sequence Data, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Phylogeny30016230Solitalea longa sp. nov., isolated from freshwater and emended description of the genus Solitalea.Lee Y, Jeon COInt J Syst Evol Microbiol10.1099/ijsem.0.0029032018Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1378Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3403)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3403
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
35735Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16750
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
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
83304Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID2840.1StrainInfo: A central database for resolving microbial strain identifiers
117126Curators of the CIPCollection of Institut Pasteur (CIP 104802)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104802