Strain identifier

BacDive ID: 17413

Type strain: Yes

Species: Labrys okinawensis

Strain history: CIP <- 2007, DSMZ <- H. Kawasaki, Osaka Univ., Osaka, Japan: strain MAFF 210191

NCBI tax ID(s): 346911 (species)

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General

@ref: 7366

BacDive-ID: 17413

DSM-Number: 18385

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

description: Labrys okinawensis DSM 18385 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from root nodule of the legume Entada phaseoloides.

NCBI tax id

  • NCBI tax id: 346911
  • Matching level: species

strain history

@refhistory
7366<- H. Kawasaki <- MAFF
121407CIP <- 2007, DSMZ <- H. Kawasaki, Osaka Univ., Osaka, Japan: strain MAFF 210191

doi: 10.13145/bacdive17413.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Xanthobacteraceae
  • genus: Labrys
  • species: Labrys okinawensis
  • full scientific name: Labrys okinawensis Islam et al. 2007

@ref: 7366

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Xanthobacteraceae

genus: Labrys

species: Labrys okinawensis

full scientific name: Labrys okinawensis Islam et al. 2007

type strain: yes

Morphology

cell morphology

  • @ref: 31771
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7366YM MEDIUM (DSMZ Medium 1070)yeshttps://mediadive.dsmz.de/medium/1070Name: YM MEDIUM (DSMZ Medium 1070) Composition: Mannitol 10.0 g/l K2HPO4 0.5 g/l Yeast extract 0.5 g/l CaCl2 x 2 H2O 0.2 g/l NaCl 0.2 g/l MgSO4 x 7 H2O 0.1 g/l Distilled water
37779MEDIUM 694 - for Labrysyes
121407CIP Medium 694yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=694

culture temp

@refgrowthtypetemperaturerange
7366positivegrowth28mesophilic
31771positivegrowth15-32
31771positiveoptimum23.5psychrophilic
37779positivegrowth25mesophilic

culture pH

@refabilitytypepHPH range
31771positivegrowth4.0-9.0alkaliphile
31771positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

  • @ref: 31771
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31771
  • spore formation: no

halophily

  • @ref: 31771
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <0.3 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3177115963ribitol+carbon source
3177122599arabinose+carbon source
3177129016arginine+carbon source
3177117057cellobiose+carbon source
3177128757fructose+carbon source
3177128260galactose+carbon source
3177117234glucose+carbon source
3177127570histidine+carbon source
3177117306maltose+carbon source
3177129864mannitol+carbon source
3177126271proline+carbon source
3177126546rhamnose+carbon source
3177117822serine+carbon source
3177130911sorbitol+carbon source
3177117992sucrose+carbon source
3177126986threonine+carbon source
3177127082trehalose+carbon source
3177116296D-tryptophan+carbon source
3177117151xylitol+carbon source
3177118222xylose+carbon source

enzymes

@refvalueactivityec
31771catalase+1.11.1.6
31771gelatinase+
31771cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
7366root nodule of the legume Entada phaseoloidesEntada phaseoloidesOkinawaJapanJPNAsia
121407Food, Vegetable Entada phaseoloides, root noduleOkinawaJapanJPNAsia

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
73661Risk group (German classification)
1214071Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7366
  • description: Labrys okinawensis gene for 16S rRNA, partial sequence, strain: MAFF 210191
  • accession: AB236169
  • length: 1409
  • database: ena
  • NCBI tax ID: 346911

GC content

  • @ref: 7366
  • GC-content: 62.3

External links

@ref: 7366

culture collection no.: DSM 18385, CIP 109597, MAFF 210191

straininfo link

  • @ref: 86409
  • straininfo: 297245

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17329783Labrys okinawensis sp. nov. and Labrys miyagiensis sp. nov., budding bacteria isolated from rhizosphere habitats in Japan, and emended descriptions of the genus Labrys and Labrys monachus.Islam MS, Kawasaki H, Nakagawa Y, Hattori T, Seki TInt J Syst Evol Microbiol10.1099/ijs.0.64239-02007Alphaproteobacteria/chemistry/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Japan, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil MicrobiologyGenetics
Phylogeny19684322Labrys wisconsinensis sp. nov., a budding bacterium isolated from Lake Michigan water, and emended description of the genus Labrys.Albert RA, Waas NE, Langer S, Pavlons SC, Feldner JL, Rossello-Mora R, Busse HJInt J Syst Evol Microbiol10.1099/ijs.0.014977-02009Alphaproteobacteria/*classification/genetics/isolation & purification/physiology, Base Sequence, Fresh Water/*microbiology, Lipids/analysis, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny28875912Labrys soli sp. nov., isolated from the rhizosphere of ginseng.Nguyen NL, Kim YJ, Hoang VA, Kang JP, Wang C, Zhang J, Kang CH, Yang DCInt J Syst Evol Microbiol10.1099/ijsem.0.0005122015

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
7366Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18385)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18385
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
31771Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2804428776041
37779Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7358
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 updates33211880Nucleic Acids Res. 49: D498-D508 2020
86409Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297245.1StrainInfo: A central database for resolving microbial strain identifiers
121407Curators of the CIPCollection of Institut Pasteur (CIP 109597)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109597