Strain identifier

BacDive ID: 133733

Type strain: Yes

Species: Rhizobium grahamii

Strain history: CIP <- 2010, E. Martinez Romero, UNAM, Morelos, Mexico: strain CCGE 502

NCBI tax ID(s): 990285 (strain), 1120045 (species)

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General

@ref: 30327

BacDive-ID: 133733

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

description: Rhizobium grahamii ATCC BAA 2124 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from Nodules, Dalea leporine.

NCBI tax id

NCBI tax idMatching level
990285strain
1120045species

strain history

@refhistory
379272010, E. Martinez Romero, UNAM, Morelos, Mexico: strain CCGE 502
119722CIP <- 2010, E. Martinez Romero, UNAM, Morelos, Mexico: strain CCGE 502

doi: 10.13145/bacdive133733.20230509.8.1

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 grahamii
  • full scientific name: Rhizobium grahamii López-López et al. 2012

@ref: 30327

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Rhizobiaceae

genus: Rhizobium

species: Rhizobium grahamii

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
30327negativerod-shapedyes
119722negativerod-shapedyes

pigmentation

  • @ref: 30327
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
37927MEDIUM 18 - for Hydrogenophaga, Vogesella and Pseudomonas generayesDistilled water make up to (1000.000 ml);Sodium chloride (3.000 g);Agar(12.000 g);Yeast extract (3.000 g);Peptone (0.600 g)
119722CIP Medium 18yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=18

culture temp

@refgrowthtypetemperaturerange
30327positivegrowth28-37mesophilic
30327positiveoptimum29mesophilic
37927positivegrowth30mesophilic

culture pH

@refabilitytypepH
30327positivegrowth4.5-7
30327positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30327aerobe
119722obligate aerobe

spore formation

  • @ref: 30327
  • spore formation: no

halophily

  • @ref: 30327
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 1.50 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3032730089acetate+carbon source
3032716449alanine+carbon source
3032722599arabinose+carbon source
3032729987glutamate+carbon source
3032717596inosine+carbon source
3032725115malate+carbon source
3032717268myo-inositol+carbon source
3032726271proline+carbon source
3032715361pyruvate+carbon source
3032717822serine+carbon source
3032726986threonine+carbon source
3032717748thymidine+carbon source
11972217632nitrate+reduction
11972216301nitrite-reduction

metabolite production

  • @ref: 119722
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
119722oxidase+
119722catalase+1.11.1.6
119722urease+3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119722--+--+--+-++-+-+++--

Isolation, sampling and environmental information

isolation

  • @ref: 119722
  • sample type: Nodules, Dalea leporine
  • geographic location: Jalisco
  • country: Mexico
  • origin.country: MEX
  • continent: North America
  • isolation date: 1985

taxonmaps

  • @ref: 69479
  • File name: preview.99_619.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_62;97_441;98_503;99_619&stattab=map
  • Last taxonomy: Rhizobium
  • 16S sequence: JF424610
  • Sequence Identity:
  • Total samples: 384
  • soil counts: 79
  • aquatic counts: 21
  • animal counts: 29
  • plant counts: 255

Safety information

risk assessment

  • @ref: 119722
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 30327
  • description: Rhizobium grahamii strain CFN 234 16S ribosomal RNA gene, partial sequence
  • accession: JF424610
  • length: 1331
  • database: nuccore
  • NCBI tax ID: 1120045

GC content

  • @ref: 30327
  • GC-content: 59.43

External links

@ref: 30327

culture collection no.: ATCC BAA 2124, CFN 242, HAMBI 3152, CCGE 502, CIP 110149, DAl 4

straininfo link

  • @ref: 91576
  • straininfo: 381175

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22081714Rhizobium grahamii sp. nov., from nodules of Dalea leporina, Leucaena leucocephala and Clitoria ternatea, and Rhizobium mesoamericanum sp. nov., from nodules of Phaseolus vulgaris, siratro, cowpea and Mimosa pudica.Lopez-Lopez A, Rogel-Hernandez MA, Barois I, Ortiz Ceballos AI, Martinez J, Ormeno-Orrillo E, Martinez-Romero EInt J Syst Evol Microbiol10.1099/ijs.0.033555-02011Bacterial Typing Techniques, DNA, Bacterial/genetics, Fabaceae/*microbiology, Fatty Acids/analysis, Genes, Bacterial, Mexico, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizobium/*classification/genetics/isolation & purification, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Genetics23144400Genome sequence of Rhizobium grahamii CCGE502, a broad-host-range symbiont with low nodulation competitiveness in Phaseolus vulgaris.Althabegoiti MJ, Lozano L, Torres-Tejerizo G, Ormeno-Orrillo E, Rogel MA, Gonzalez V, Martinez-Romero EJ Bacteriol10.1128/JB.01785-122012DNA, Bacterial/*chemistry/*genetics, *Genome, Bacterial, Host Specificity, Molecular Sequence Data, Phaseolus/microbiology/physiology, Plant Root Nodulation, Rhizobium/*genetics/isolation & purification/physiology, *Sequence Analysis, DNA, SymbiosisPathogenicity
Genetics24397311Characterization of Rhizobium grahamii extrachromosomal replicons and their transfer among rhizobia.Althabegoiti MJ, Ormeno-Orrillo E, Lozano L, Torres Tejerizo G, Rogel MA, Mora J, Martinez-Romero EBMC Microbiol10.1186/1471-2180-14-62014Conjugation, Genetic, DNA, Bacterial/chemistry/genetics, *Extrachromosomal Inheritance, Fabaceae/microbiology, *Gene Transfer, Horizontal, Genome, Bacterial, Mexico, Molecular Sequence Data, Plant Roots/microbiology, *Plasmids, Rhizobium/*genetics/isolation & purification, Sequence Analysis, DNATranscriptome
Phylogeny25701848Rhizobium metallidurans sp. nov., a symbiotic heavy metal resistant bacterium isolated from the Anthyllis vulneraria Zn-hyperaccumulator.Grison CM, Jackson S, Merlot S, Dobson A, Grison CInt J Syst Evol Microbiol10.1099/ijs.0.0001302015Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fabaceae/*microbiology, Fatty Acids/chemistry, France, Mining, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizobium/*classification/genetics/isolation & purification, Sequence Analysis, DNA, *Symbiosis, *ZincGenetics

Reference

@idauthorstitledoi/urlID_cross_referencepubmedcatalogue
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
30327Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172666828776041
37927Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7976
68382Automatically annotated from API zym
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/
91576Reimer, 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-ID381175.1
119722Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110149Collection of Institut Pasteur (CIP 110149)