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Strain identifier

BacDive ID: 24803

Type strain: Yes

Species: Motilibacter rhizosphaerae

Strain Designation: RS-16

Strain history: KACC 16209 <-- S. D. Lee; Jeju Natl. Univ., South Korea; RS-16.

NCBI tax ID(s): 598652 (species)

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

@ref: 21229

BacDive-ID: 24803

DSM-Number: 45622

keywords: Gram-positive, mesophilic, aerobe, Bacteria, 16S sequence, genome sequence, rod-shaped

description: Motilibacter rhizosphaerae RS-16 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from soil of the rhizosphere of Peucedanum japonicum Thunb..

NCBI tax id

  • NCBI tax id: 598652
  • Matching level: species

strain history

doi: 10.13145/bacdive24803.20220920.7

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Frankiales
  • family: Motilibacteraceae
  • genus: Motilibacter
  • species: Motilibacter rhizosphaerae
  • full scientific name: Motilibacter rhizosphaerae Lee 2013

@ref: 21229

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Motilibacteraceae

genus: Motilibacter

species: Motilibacter rhizosphaerae

full scientific name: Motilibacter rhizosphaerae Lee 2013

strain designation: RS-16

type strain: yes

Morphology

cell morphology

  • @ref: 31110
  • gram stain: positive
  • cell length: 1.45 µm
  • cell width: 0.79 µm
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 31110
  • production: yes

multimedia

  • @ref: 21229
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45622.jpg
  • caption: Medium 553 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
21229ISP2 MEDIUM (DSMZ Medium 987)yeshttps://bacmedia.dsmz.de/medium/987Name: ISP2 MEDIUM (DSMZ Medium 987) Composition: Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water
21229GPHF-MEDIUM (DSMZ Medium 553)yeshttps://bacmedia.dsmz.de/medium/553Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 15.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
21229positivegrowth28mesophilic
31110positivegrowth20-37
31110positiveoptimum37mesophilic
67770positivegrowth28mesophilic

culture pH

  • @ref: 31110
  • ability: positive
  • type: growth
  • pH: 6.0-7.0

Physiology and metabolism

oxygen tolerance

  • @ref: 31110
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31110
  • spore formation: no

observation

@refobservation
31110aggregates in clumps
67770quinones: MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3111015963ribitol+carbon source
3111023652dextrin+carbon source
3111017306maltose+carbon source
3111028053melibiose+carbon source
3111016634raffinose+carbon source
3111017151xylitol+carbon source
311104853esculin+hydrolysis

enzymes

@refvalueactivityec
31110acid phosphatase+3.1.3.2
31110alkaline phosphatase+3.1.3.1
31110catalase+1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
21229soil of the rhizosphere of Peucedanum japonicum Thunb.Peucedanum japonicumJeju, Mara IslandRepublic of KoreaKORAsia
67770Rhizosphere soil of a wild plant (Peucedanum japonicum Thunb.) on Mara Island in JejuPeucedanum japonicumRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Rhizosphere

Safety information

risk assessment

  • @ref: 21229
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21229
  • description: Motilibacter rhizosphaerae strain RS-16 16S ribosomal RNA gene, partial sequence
  • accession: FM998018
  • length: 1423
  • database: ena
  • NCBI tax ID: 598652

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Motilibacter rhizosphaerae DSM 45622GCA_004216915scaffoldncbi598652
66792Motilibacter rhizosphaerae strain DSM 45622598652.3wgspatric598652
66792Motilibacter rhizosphaerae DSM 456222799112218draftimg598652
67770Motilibacter rhizosphaerae strain DSM 45622, whole genome shotgun sequencing projectSGXD00000000ncbi598652

GC content

@refGC-contentmethod
2122973.1
6777073.1high performance liquid chromatography (HPLC)

External links

@ref: 21229

culture collection no.: DSM 45622, KACC 16209, JCM 32087

straininfo link

@refpassport
20218http://www.straininfo.net/strains/891327
20218http://www.straininfo.net/strains/891326

literature

  • topic: Phylogeny
  • Pubmed-ID: 23667142
  • title: Proposal of Motilibacteraceae fam. nov., with the description of Motilibacter rhizosphaerae sp. nov.
  • authors: Lee SD
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.052357-0
  • year: 2013
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Apiaceae/microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Rhizosphere, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysis
  • topic2: Genetics

Reference

@idauthorstitledoi/urljournalpubmedcatalogueID_cross_reference
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.StrainInfo introduces electronic passports for microorganisms.10.1016/j.syapm.2013.11.002Syst Appl Microbiol. 37: 42-50 201424321274
21229Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45622Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45622)
2743910.1099/ijs.0.052357-023667142
31110Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172877604127439
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/