Strain identifier

BacDive ID: 13549

Type strain: No

Species: Ensifer fredii

Strain Designation: R x 42

Strain history: IAM 14142 <-- CCBAU 110 <-- W. X. Chen RX42.

NCBI tax ID(s): 28106 (species)

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General

@ref: 2340

BacDive-ID: 13549

DSM-Number: 5852

keywords: 16S sequence, Bacteria, mesophilic

description: Ensifer fredii R x 42 is a mesophilic bacterium that was isolated from soybean nodule.

NCBI tax id

  • NCBI tax id: 28106
  • Matching level: species

strain history

@refhistory
2340<- Wen-xin Chen <- Yang Su-Sheng, R x 42
67770IAM 14142 <-- CCBAU 110 <-- W. X. Chen RX42.

doi: 10.13145/bacdive13549.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Rhizobiaceae
  • genus: Ensifer
  • species: Ensifer fredii
  • full scientific name: Ensifer fredii (Scholla and Elkan 1984) Young 2003

  • synonyms

    @refsynonym
    20215Ensifer xinjiangensis
    20215Sinorhizobium xinjiangense
    20215Sinorhizobium xinjiangensis
    20215Sinorhizobium fredii
    20215Rhizobium fredii

@ref: 2340

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Rhizobiaceae

genus: Ensifer

species: Ensifer fredii

full scientific name: Ensifer fredii (Scholla and Elkan 1984) Young 2003

strain designation: R x 42

type strain: no

Culture and growth conditions

culture medium

  • @ref: 2340
  • name: RHIZOBIUM MEDIUM (DSMZ Medium 98)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/98
  • composition: Name: RHIZOBIUM MEDIUM (DSMZ Medium 98) Composition: air-dried garden soil 80.0 g/l Agar 15.0 g/l Mannitol 10.0 g/l Yeast extract 1.0 g/l Na2CO3 0.2 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
2340positivegrowth28mesophilic
67770positivegrowth25mesophilic

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinenthost species
2340soybean noduleXinjiangChinaCHNAsia
67770Soybean (Glycine max)XinjiangChinaCHNAsiaGlycine max

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Root nodule

taxonmaps

  • @ref: 69479
  • File name: preview.99_273.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_84;97_88;98_232;99_273&stattab=map
  • Last taxonomy: Rhizobiaceae
  • 16S sequence: AM181732
  • Sequence Identity:
  • Total samples: 9487
  • soil counts: 5353
  • aquatic counts: 1562
  • animal counts: 1094
  • plant counts: 1478

Safety information

risk assessment

  • @ref: 2340
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Sinorhizobium xinjiangensis strain CCBAU110 16S ribosomal RNA gene, partial sequenceAF2503541401ena28106
20218Sinorhizobium xinjiangense strain CCBAU 110 16S-23S ribosomal RNA intergenic spacer regionAF2844501162ena28106
20218Sinorhizobium xinjiangense gene for 16S rRNA, strain: IAM 14142D127961438ena28106
20218Sinorhizobium xinjiangense strain CCBAU 110 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceEU1523971169ena28106
67770Sinorhizobium xinjiangense partial 16S rRNA gene, strain LMG 17930AM1817321426ena28106

External links

@ref: 2340

culture collection no.: DSM 5852, ATCC 49357, CCBAU 110, IAM 14142, JCM 21035, HAMBI 1673, ICMP 11141, LMG 17930, NBRC 100018, NCIMB 13266

straininfo link

  • @ref: 82738
  • straininfo: 10545

literature

  • topic: Metabolism
  • Pubmed-ID: 15195950
  • title: NolR regulates diverse symbiotic signals of Sinorhizobium fredii HH103.
  • authors: Vinardell JM, Ollero FJ, Hidalgo A, Lopez-Baena FJ, Medina C, Ivanov-Vangelov K, Parada M, Madinabeitia N, Espuny Mdel R, Bellogin RA, Camacho M, Rodriguez-Navarro DN, Soria-Diaz ME, Gil-Serrano AM, Ruiz-Sainz JE
  • journal: Mol Plant Microbe Interact
  • DOI: 10.1094/MPMI.2004.17.6.676
  • year: 2004
  • mesh: Bacterial Proteins/genetics/metabolism/*physiology, Base Sequence, Conserved Sequence, Gene Expression Regulation, Bacterial, Genes, Bacterial, Lipopolysaccharides/biosynthesis, Molecular Sequence Data, Mutation, Plants/microbiology, Polysaccharides, Bacterial/biosynthesis, Repressor Proteins/genetics/*physiology, Rhizobium/genetics, Signal Transduction, Sinorhizobium fredii/genetics/*metabolism/physiology, Symbiosis
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2340Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5852)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5852
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
82738Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID10545.1StrainInfo: A central database for resolving microbial strain identifiers