Strain identifier

BacDive ID: 11312

Type strain: Yes

Species: Duganella phyllosphaerae

Strain Designation: T54

Strain history: <- P. Kämpfer, Justus-Liebig-Universität, Giessen, Germany; T54 <- S. Wellner

NCBI tax ID(s): 762836 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 17414

BacDive-ID: 11312

DSM-Number: 23865

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile

description: Duganella phyllosphaerae T54 is an aerobe, mesophilic, motile bacterium that was isolated from Trifolium repens leaf surface.

NCBI tax id

  • NCBI tax id: 762836
  • Matching level: species

strain history

  • @ref: 17414
  • history: <- P. Kämpfer, Justus-Liebig-Universität, Giessen, Germany; T54 <- S. Wellner

doi: 10.13145/bacdive11312.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Oxalobacteraceae
  • genus: Duganella
  • species: Duganella phyllosphaerae
  • full scientific name: Duganella phyllosphaerae Kämpfer et al. 2012

@ref: 17414

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Oxalobacteraceae

genus: Duganella

species: Duganella phyllosphaerae

full scientific name: Duganella phyllosphaerae Kämpfer et al. 2012

strain designation: T54

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes98.539
6948099.998negative

colony morphology

  • @ref: 62195
  • incubation period: 2 days

Culture and growth conditions

culture medium

  • @ref: 17414
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
17414positivegrowth28mesophilic
62195positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 62195
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentsampling date
17414Trifolium repens leaf surfaceTrifolium repensHainich-Dün regionGermanyDEUEurope
62195Leaf surface (Trifolium repens)HainichGermanyDEUEurope2000

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Leaf (Phyllosphere)

taxonmaps

  • @ref: 69479
  • File name: preview.99_7363.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_429;97_1521;98_1852;99_7363&stattab=map
  • Last taxonomy: Duganella
  • 16S sequence: FR852575
  • Sequence Identity:
  • Total samples: 18206
  • soil counts: 5243
  • aquatic counts: 3834
  • animal counts: 4287
  • plant counts: 4842

Safety information

risk assessment

  • @ref: 17414
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17414
  • description: Duganella phyllosphaerae partial 16S rRNA gene, type strain T54T
  • accession: FR852575
  • length: 1357
  • database: ena
  • NCBI tax ID: 762836

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Duganella phyllosphaerae T54GCA_001758785contigncbi762836
66792Duganella phyllosphaerae strain T54762836.10wgspatric762836
66792Duganella phyllosphaerae T54, DSM 238652623620540draftimg762836

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes90.429no
flagellatedyes73.757no
gram-positiveno98.564no
anaerobicno98.741yes
aerobicyes90.012yes
halophileno93.146no
spore-formingno94.112no
glucose-utilyes93.235no
thermophileno99.55yes
glucose-fermentno90.794no

External links

@ref: 17414

culture collection no.: DSM 23865, CCM 7824, LMG 25994, CCUG 60090

straininfo link

  • @ref: 80545
  • straininfo: 370789

literature

  • topic: Phylogeny
  • Pubmed-ID: 22169565
  • title: Duganella phyllosphaerae sp. nov., isolated from the leaf surface of Trifolium repens and proposal to reclassify Duganella violaceinigra into a novel genus as Pseudoduganella violceinigra gen. nov., comb. nov.
  • authors: Kampfer P, Wellner S, Lohse K, Martin K, Lodders N
  • journal: Syst Appl Microbiol
  • DOI: 10.1016/j.syapm.2011.10.003
  • year: 2011
  • mesh: Bacterial Typing Techniques, Carbon/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Germany, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalobacteraceae/chemistry/*classification/genetics/*isolation & purification, Phospholipids/analysis, Phylogeny, Plant Leaves/*microbiology, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Trifolium/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
17414Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23865)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23865
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
62195Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 60090)https://www.ccug.se/strain?id=60090
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)
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
80545Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID370789.1StrainInfo: A central database for resolving microbial strain identifiers