Strain identifier

BacDive ID: 131950

Type strain: No

Species: Sphingomonas sp.

Strain Designation: Leaf33

Strain history: <- J. A. Vorholt, Institute of Microbiology, ETH Zurich, Switzerland; Leaf33 <- D. B. Müller, E. Potthoff and M. Remus-Emsermann

NCBI tax ID(s): 28214 (species)

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General

@ref: 23742

BacDive-ID: 131950

DSM-Number: 102733

keywords: genome sequence, Bacteria, mesophilic

description: Sphingomonas sp. Leaf33 is a mesophilic bacterium that was isolated from leaf of wild-type Arabidopsis thaliana.

NCBI tax id

  • NCBI tax id: 28214
  • Matching level: species

strain history

  • @ref: 23742
  • history: <- J. A. Vorholt, Institute of Microbiology, ETH Zurich, Switzerland; Leaf33 <- D. B. Müller, E. Potthoff and M. Remus-Emsermann

doi: 10.13145/bacdive131950.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Sphingomonadaceae
  • genus: Sphingomonas
  • species: Sphingomonas sp.
  • full scientific name: Sphingomonas Yabuuchi et al. 1990

@ref: 23742

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Pseudomonadales

family: Sphingomonadaceae

genus: Sphingomonas

species: Sphingomonas sp.

full scientific name: Sphingomonas sp.

strain designation: Leaf33

type strain: no

Culture and growth conditions

culture medium

  • @ref: 23742
  • name: R2A MEDIUM (DSMZ Medium 830)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830
  • composition: Name: 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

culture temp

  • @ref: 23742
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
23742-----+-++-+/--++---+--+

Isolation, sampling and environmental information

isolation

  • @ref: 23742
  • sample type: leaf of wild-type Arabidopsis thaliana
  • host species: Arabidopsis thaliana
  • geographic location: Brugg (47.4816806N 8.217547222E)
  • country: Switzerland
  • origin.country: CHE
  • continent: Europe
  • latitude: 47.4817
  • longitude: 8.2176

isolation source categories

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

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Sphingomonas sp. Leaf33GCA_001421785scaffoldncbi1736215
66792Sphingomonas sp. Leaf331736215.3wgspatric1736215
66792Sphingomonas sp. Leaf332643221765draftimg1736215

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno88.435no
gram-positiveno97.502no
anaerobicno99.544no
aerobicyes95.423no
halophileno95.27no
spore-formingno96.055no
thermophileno95.632no
glucose-utilyes85.518no
motileyes72.035no
glucose-fermentno91.019yes

External links

@ref: 23742

culture collection no.: DSM 102733

straininfo link

  • @ref: 90337
  • straininfo: 400842

Reference

@idauthorstitledoi/urlcatalogue
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
23742Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-102733Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102733)
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
68369Automatically annotated from API 20NE
90337Reimer, 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-ID400842.1