Strain identifier

BacDive ID: 131977

Type strain: No

Species: Sphingomonas sp.

Strain Designation: Leaf257

Strain history: <- J. A. Vorholt, Institute of Microbiology, ETH Zurich, Switzerland; Leaf257 <- D. B. Müller, E. Potthoff and M. Remus-Emsermann

NCBI tax ID(s): 28214 (species)

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General

@ref: 23769

BacDive-ID: 131977

DSM-Number: 102760

keywords: genome sequence, Bacteria, mesophilic

description: Sphingomonas sp. Leaf257 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: 23769
  • history: <- J. A. Vorholt, Institute of Microbiology, ETH Zurich, Switzerland; Leaf257 <- D. B. Müller, E. Potthoff and M. Remus-Emsermann

doi: 10.13145/bacdive131977.20230509.8.1

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: 23769

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Pseudomonadales

family: Sphingomonadaceae

genus: Sphingomonas

species: Sphingomonas sp.

full scientific name: Sphingomonas sp.

strain designation: Leaf257

type strain: no

Culture and growth conditions

culture medium

  • @ref: 23769
  • 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: 23769
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

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
68371raffinose+builds acid from16634
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
68371cellobiose+builds acid from17057
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-mannose+builds acid from16024
68371D-fructose-builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
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

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
23769-+--+-+---++-+-------++--++++++++--++--+----------

Isolation, sampling and environmental information

isolation

  • @ref: 23769
  • sample type: leaf of wild type Arabidopsis thaliana
  • host species: Arabidopsis thaliana
  • geographic location: Hoengg (47.4090306N 8.470169444E)
  • country: Switzerland
  • origin.country: CHE
  • continent: Europe
  • latitude: 47.409
  • longitude: 8.4702

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. Leaf257GCA_001422185contigncbi1736309
66792Sphingomonas sp. Leaf2571736309.3wgspatric1736309
66792Sphingomonas sp. Leaf2572643221838draftimg1736309

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes69.989no
gram-positiveno96.578no
anaerobicno99.144no
aerobicyes93.151no
halophileno94.925no
spore-formingno93.523no
thermophileno98.594yes
glucose-utilyes91.98no
flagellatedno91.583no
glucose-fermentno92.92no

External links

@ref: 23769

culture collection no.: DSM 102760

straininfo link

  • @ref: 90364
  • straininfo: 397661

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
23769Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-102760Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102760)
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
68371Automatically annotated from API 50CH acid
90364Reimer, 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-ID397661.1