Strain identifier

BacDive ID: 133544

Type strain: Yes

Species: Rhizobium soli

Strain Designation: DS-42

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 424798 (species)

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General

@ref: 29434

BacDive-ID: 133544

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

description: Rhizobium soli DS-42 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 424798
  • Matching level: species

strain history

@refhistory
67770J.-H. Yoon DS-42.
67771<- JH Yoon, KRIBB

doi: 10.13145/bacdive133544.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Rhizobiaceae
  • genus: Rhizobium
  • species: Rhizobium soli
  • full scientific name: Rhizobium soli Yoon et al. 2010

@ref: 29434

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Rhizobiaceae

genus: Rhizobium

species: Rhizobium soli

strain designation: DS-42

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
29434negative1-4.5 µm0.4-0.7 µmrod-shapedno
67771negative

pigmentation

  • @ref: 29434
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
29434positivegrowth04-31
29434positiveoptimum25mesophilic
67770positivegrowth25mesophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepHPH range
29434positivegrowth5.5-8.5alkaliphile
29434positiveoptimum07-08

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29434aerobe
67771aerobe

spore formation

  • @ref: 29434
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
29434NaClpositivegrowth0.5-3 %
29434NaClpositiveoptimum0.5-1 %

observation

  • @ref: 67770
  • observation: quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2943417754glycerol+carbon source
2943417306maltose+carbon source
2943428053melibiose+carbon source
2943427082trehalose+carbon source
2943417151xylitol+carbon source
294344853esculin+hydrolysis

enzymes

@refvalueactivityec
29434catalase+1.11.1.6
29434cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
29434soil
67770Soil
67771From soilDokdoRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_3378.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_551;97_2109;98_2589;99_3378&stattab=map
  • Last taxonomy: Rhizobiaceae
  • 16S sequence: EF363715
  • Sequence Identity:
  • Total samples: 10477
  • soil counts: 2639
  • aquatic counts: 1442
  • animal counts: 2298
  • plant counts: 4098

Sequence information

16S sequences

  • @ref: 29434
  • description: Rhizobium soli strain DS-42 16S ribosomal RNA gene, partial sequence
  • accession: EF363715
  • length: 1436
  • database: nuccore
  • NCBI tax ID: 1368429

GC content

@refGC-contentmethod
2943460.8
6777060.8high performance liquid chromatography (HPLC)

External links

@ref: 29434

culture collection no.: KCTC 12873, JCM 14591

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19671727Rhizobium soli sp. nov., isolated from soil.Yoon JH, Kang SJ, Yi HS, Oh TK, Ryu CMInt J Syst Evol Microbiol10.1099/ijs.0.013094-02009Anti-Bacterial Agents/pharmacology, Enzymes/metabolism, Fatty Acids/analysis, Hexoses/metabolism, Molecular Sequence Data, Phylogeny, Republic of Korea, Rhizobium/classification/*genetics/growth & development/isolation & purification/metabolism, *Soil MicrobiologyMetabolism
Phylogeny30259064Rhizobium panacihumi sp. nov., an isolate from ginseng-cultivated soil, as a potential plant growth promoting bacterium.Kang JP, Huo Y, Kim YJ, Ahn JC, Hurh J, Yang DU, Yang DCArch Microbiol10.1007/s00203-018-1578-z2018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Genes, Essential/genetics, Nucleic Acid Hybridization, Oxidoreductases/genetics, Panax/*microbiology, Phylogeny, Plant Development/*physiology, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rhizobium/*classification/genetics/*isolation & purification, Sequence Analysis, DNA, Soil, Soil MicrobiologyEnzymology

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
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
29434Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172584028776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/