Strain identifier

BacDive ID: 158233

Type strain: Yes

Species: Frankia discariae

Strain Designation: BCU110501, Dtf1, T1

Strain history: <- L. Tisa, University of New Hampshire, USA; BCU110501 <- E. Chaia, Centro Regional Universito Bariloche Argentina

NCBI tax ID(s): 365528 (species)

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General

@ref: 64872

BacDive-ID: 158233

DSM-Number: 46785

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive

description: Frankia discariae BCU110501 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from root nodule of Discaria trinervis.

NCBI tax id

  • NCBI tax id: 365528
  • Matching level: species

strain history

  • @ref: 64872
  • history: <- L. Tisa, University of New Hampshire, USA; BCU110501 <- E. Chaia, Centro Regional Universito Bariloche Argentina

doi: 10.13145/bacdive158233.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Frankiales
  • family: Frankiaceae
  • genus: Frankia
  • species: Frankia discariae
  • full scientific name: Frankia discariae Nouioui et al. 2017

  • synonyms

    • @ref: 20215
    • synonym: Parafrankia discariae

@ref: 64872

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Frankiaceae

genus: Frankia

species: Frankia discariae

full scientific name: Frankia discariae Nouioui et al. 2017

strain designation: BCU110501, Dtf1, T1

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_46785_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_46785_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_46785_3.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 64872
  • name: BAP+ MEDIUM FOR FRANKIA (DSMZ Medium 1536)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1536
  • composition: Name: BAP+ MEDIUM FOR FRANKIA (DSMZ Medium 1536) Composition: KH2PO4 0.95 g/l K2HPO4 0.6 g/l Na-propionate 0.48 g/l NH4Cl 0.27 g/l MgSO4 x 7 H2O 0.025 g/l Citric acid 0.01 g/l Eisencitrat 0.01 g/l CaCl2 x 2 H2O 0.01 g/l H3BO3 0.00286 g/l MnCl2 x 4 H2O 0.00181 g/l Pyridoxine hydrochloride 0.0005 g/l Nicotinic acid 0.0005 g/l ZnSO4 x 7 H2O 0.00022 g/l Thiamine HCl 0.0001 g/l CuSO4 x 5 H2O 8e-05 g/l Na2MoO4 x 2 H2O 2.5e-05 g/l CoSO4 x 7 H2O 1e-06 g/l Distilled water

culture temp

  • @ref: 64872
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69480yes99.447
69481yes100

Isolation, sampling and environmental information

isolation

  • @ref: 64872
  • sample type: root nodule of Discaria trinervis
  • geographic location: Patagonia
  • country: Argentina
  • origin.country: ARG
  • continent: Middle and South America

isolation source categories

Cat1Cat2Cat3
#Host Body-Site#Plant#Root nodule
#Host#Plants#Shrub (Scrub)
#Host#Plants#Tree

taxonmaps

  • @ref: 69479
  • File name: preview.99_3914.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_932;97_1084;98_1527;99_3914&stattab=map
  • Last taxonomy: Frankia
  • 16S sequence: DQ336135
  • Sequence Identity:
  • Total samples: 501
  • soil counts: 283
  • aquatic counts: 34
  • animal counts: 148
  • plant counts: 36

Safety information

risk assessment

  • @ref: 64872
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 64872
  • description: Frankia discariae strain BCU110501 16S ribosomal RNA gene, partial sequence
  • accession: DQ336135
  • length: 1359
  • database: ena
  • NCBI tax ID: 365528

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Parafrankia discariae BCU110501GCA_000373365scaffoldncbi365528
66792Frankia discariae BCU1105012515154087draftimg365528

GC content

  • @ref: 64872
  • GC-content: 72.36
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno94.383no
flagellatedno98.258no
gram-positiveyes87.01no
anaerobicno97.503no
aerobicyes85.851no
halophileno95.612no
spore-formingyes76.713no
thermophileno97.596yes
glucose-utilyes77.761no
glucose-fermentno91.244no

External links

@ref: 64872

culture collection no.: CECT 9042, DSM 46785

straininfo link

  • @ref: 111055
  • straininfo: 400597

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny28105505Frankia discariae sp. nov.: an infective and effective microsymbiont isolated from the root nodule of Discaria trinervis.Nouioui I, Del Carmen Montero-Calasanz M, Ghodhbane-Gtari F, Rohde M, Tisa LS, Klenk HP, Gtari MArch Microbiol10.1007/s00203-017-1337-62017Bacterial Typing Techniques, Base Composition/genetics, Base Sequence, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/metabolism, Fatty Acids/analysis, *Frankia/classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhamnaceae/*microbiology, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, SymbiosisTranscriptome
Phylogeny31829914Frankia soli sp. nov., an actinobacterium isolated from soil beneath Ceanothus jepsonii.Gtari M, Ghodhbane-Gtari F, Nouioui IInt J Syst Evol Microbiol10.1099/ijsem.0.0038992020Bacterial Typing Techniques, Base Composition, Ceanothus/*microbiology, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Frankia/*classification/isolation & purification, Multilocus Sequence Typing, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, United States, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
64872Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-46785Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46785)
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
66793Mukherjee et al.GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life10.1038/nbt.3886 35: 676-683 201728604660
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
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
111055Reimer, 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-ID400597.1