Strain identifier

BacDive ID: 17461

Type strain: Yes

Species: Frateuria terrea

Strain Designation: VA24

Strain history: <- NBRC <- CGMCC <- J.-Y. Zhang, Chinese Academy of Sciences

NCBI tax ID(s): 529704 (species)

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General

@ref: 18250

BacDive-ID: 17461

DSM-Number: 26515

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Frateuria terrea VA24 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from forest soil.

NCBI tax id

  • NCBI tax id: 529704
  • Matching level: species

strain history

  • @ref: 18250
  • history: <- NBRC <- CGMCC <- J.-Y. Zhang, Chinese Academy of Sciences

doi: 10.13145/bacdive17461.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Lysobacterales
  • family: Rhodanobacteraceae
  • genus: Frateuria
  • species: Frateuria terrea
  • full scientific name: Frateuria terrea Zhang et al. 2011

@ref: 18250

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Rhodanobacteraceae

genus: Frateuria

species: Frateuria terrea

full scientific name: Frateuria terrea Zhang et al. 2011

strain designation: VA24

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29809negative3 µm0.4 µmrod-shapedyes
69480yes95.263
69480negative99.995

colony morphology

  • @ref: 18250
  • incubation period: 3-7 days

pigmentation

  • @ref: 29809
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 18250
  • name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830c
  • composition: Name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 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

culture temp

@refgrowthtypetemperaturerange
18250positivegrowth28mesophilic
29809positivegrowth19-36
29809positiveoptimum33mesophilic

culture pH

@refabilitytypepHPH range
29809positivegrowth05-09alkaliphile
29809positiveoptimum7.25

Physiology and metabolism

oxygen tolerance

  • @ref: 29809
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
29809no
69481no100
69480no99.96

halophily

  • @ref: 29809
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <1 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2980922599arabinose+carbon source
2980933984fucose+carbon source
2980928260galactose+carbon source
2980924265gluconate+carbon source
2980917234glucose+carbon source
2980917306maltose+carbon source
2980937684mannose+carbon source
29809506227N-acetylglucosamine+carbon source
2980927082trehalose+carbon source
298094853esculin+hydrolysis

enzymes

@refvalueactivityec
29809acid phosphatase+3.1.3.2
29809alkaline phosphatase+3.1.3.1
29809cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 18250
  • sample type: forest soil
  • geographic location: Changbai Mountains, Heilongjiang province
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Forest
#Environmental#Terrestrial#Soil

Safety information

risk assessment

  • @ref: 18250
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Frateuria terrea gene for 16S rRNA, partial sequence, strain: NBRC 104236AB6821591464ena529704
18250Frateuria terrea strain VA24 16S ribosomal RNA gene, partial sequenceEU6826831531ena529704

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Frateuria terrea DSM 26515GCA_900109025scaffoldncbi529704
66792Frateuria terrea CGMCC 1.7053GCA_900115705scaffoldncbi529704
66792Frateuria terrea strain CGMCC 1.7053529704.3wgspatric529704
66792Frateuria terrea strain DSM 26515529704.4wgspatric529704
66792Frateuria terrea DSM 265152617270826draftimg529704
66792Frateuria terrea CGMCC 1.70532597490373draftimg529704

GC content

  • @ref: 18250
  • GC-content: 67.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
glucose-fermentno88.576no
motileyes80.386no
flagellatedno87.701no
gram-positiveno98.051yes
anaerobicno98.152yes
aerobicyes83.074yes
halophileno94.282yes
spore-formingno95.471yes
thermophileno98.213yes
glucose-utilyes87.287yes

External links

@ref: 18250

culture collection no.: DSM 26515, CGMCC 1.7053, NBRC 104236

straininfo link

  • @ref: 86457
  • straininfo: 402626

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20348318Frateuria terrea sp. nov., isolated from forest soil, and emended description of the genus Frateuria.Zhang JY, Liu XY, Liu SJInt J Syst Evol Microbiol10.1099/ijs.0.021618-02010Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Flagella/microbiology, Genotype, Molecular Sequence Data, Phenotype, Phosphatidylethanolamines/analysis, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Trees/*microbiology, Xanthomonadaceae/*classification/genetics/isolation & purificationGenetics
Phylogeny34919040Frateuria flava sp. nov., isolated from soil.Akter S, Lee SY, Huq MAInt J Syst Evol Microbiol10.1099/ijsem.0.0051712021Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
18250Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26515)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26515
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
29809Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604126186
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
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
86457Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID402626.1StrainInfo: A central database for resolving microbial strain identifiers