Strain identifier

BacDive ID: 141093

Type strain: Yes

Species: Rhizobium acidisoli

Strain Designation: FH13

NCBI tax ID(s): 1538158 (species)

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General

@ref: 43999

BacDive-ID: 141093

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

description: Rhizobium acidisoli FH13 is an aerobe, mesophilic, Gram-positive bacterium that forms circular colonies and was isolated from root nodule of Phaseolus vulgaris grown in acid soil.

NCBI tax id

  • NCBI tax id: 1538158
  • Matching level: species

doi: 10.13145/bacdive141093.20230509.8.1

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 acidisoli
  • full scientific name: Rhizobium acidisoli Román-Ponce et al. 2016

@ref: 43999

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Rhizobiaceae

genus: Rhizobium

species: Rhizobium acidisoli

strain designation: FH13

type strain: yes

Morphology

cell morphology

  • @ref: 43999
  • gram stain: positive
  • cell length: 1.20-2.44 µm
  • cell width: 0.47-0.78 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 43999
  • colony color: white
  • colony shape: circular
  • incubation period: 3 days
  • medium used: yeast mannitol agar

Culture and growth conditions

culture medium

  • @ref: 43999
  • name: YMA
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43999positiveoptimum28mesophilic
43999positivegrowth20-37

culture pH

@refabilitytypepHPH range
43999positivegrowth5.0-10.0alkaliphile
43999inconsistentgrowth4.5

Physiology and metabolism

oxygen tolerance

  • @ref: 43999
  • oxygen tolerance: aerobe

halophily

  • @ref: 43999
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 1 %

observation

  • @ref: 43999
  • observation: growth on nutrient agar negative

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4399916947citrate-assimilation
4399928017starch-hydrolysis
4399953426tween 80-hydrolysis
4399917632nitrate-reduction
43999167632-oxobutanoate+carbon source
43999286442-oxopentanoate+carbon source
4399930089acetate+carbon source
4399973706bromosuccinate+carbon source
4399917057cellobiose+carbon source
4399916947citrate+carbon source
4399915570D-alanine+carbon source
4399918333D-arabitol+carbon source
4399912936D-galactose+carbon source
4399930612D-glucarate+carbon source
439998391D-gluconate+carbon source
4399917784D-glucosaminic acid+carbon source
4399915748D-glucuronate+carbon source
4399916899D-mannitol+carbon source
4399917924D-sorbitol+carbon source
4399917113erythritol+carbon source
4399915740formate+carbon source
43999167244-hydroxybutyrate+carbon source
4399928066gentiobiose+carbon source
4399932323glucuronamide+carbon source
4399914336glycerol 1-phosphate+carbon source
4399928087glycogen+carbon source
4399973804glycyl L-aspartic acid+carbon source
4399917240itaconate+carbon source
4399973786L-alanylglycine+carbon source
4399929991L-aspartate+carbon source
4399929985L-glutamate+carbon source
4399915971L-histidine+carbon source
4399918183L-pyroglutamic acid+carbon source
4399916857L-threonine+carbon source
4399928053melibiose+carbon source
43999320055methyl beta-D-glucopyranoside+carbon source
4399951850methyl pyruvate+carbon source
4399975146monomethyl succinate+carbon source
4399917268myo-inositol+carbon source
4399973784glycyl-l-glutamate+carbon source
4399916634raffinose+carbon source
4399917992sucrose+carbon source
4399917748thymidine+carbon source
4399927082trehalose+carbon source
4399932528turanose+carbon source
4399927252uronic acid+carbon source
4399917151xylitol+carbon source
4399953424tween 20+hydrolysis
4399916301nitrite+reduction

metabolite production

  • @ref: 43999
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: no

enzymes

@refvalueactivityec
43999cytochrome oxidase+1.9.3.1
43999urease+3.5.1.5
43999catalase-1.11.1.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43999C12:0 anteiso1
    43999C13:0 anteiso1.1
    43999C14:00.9
    43999C14:0 anteiso1.6
    43999C15:0 2OH1.3
    43999C15:0 anteiso1.8
    43999C15:0-iso0.3
    43999C15:1ω5c0.2
    43999C16:011.9
    43999C16:0 3OH2.9
    43999C16:0 anteiso1.6
    43999C17:0 2OH0.6
    43999C17:0anteiso7.8
    43999C17:0iso3-OH0.4
    43999C17:1ω5c0.7
    43999C17:1ω8c4.5
    43999C18:010.8
    43999methyl-C18:1ω7c112.4
    43999C20:00.3
  • type of FA analysis: whole cell analysis
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

  • @ref: 43999
  • sample type: root nodule of Phaseolus vulgaris grown in acid soil
  • geographic location: Acaxochitlan, Hidalgo
  • country: Mexico
  • origin.country: MEX
  • continent: North America

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_1406.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_62;97_65;98_70;99_1406&stattab=map
  • Last taxonomy: Rhizobium
  • 16S sequence: KJ921033
  • Sequence Identity:
  • Total samples: 7647
  • soil counts: 4296
  • aquatic counts: 531
  • animal counts: 942
  • plant counts: 1878

Sequence information

16S sequences

  • @ref: 43999
  • description: 16S rRNA gene sequence
  • accession: KJ921033
  • database: nuccore

GC content

  • @ref: 43999
  • GC-content: 63.5

External links

@ref: 43999

culture collection no.: CCBAU 101094, HAMBI 3626, LMG 28672

straininfo link

  • @ref: 96853
  • straininfo: 396403

literature

  • topic: Phylogeny
  • Pubmed-ID: 26530784
  • title: Rhizobium acidisoli sp. nov., isolated from root nodules of Phaseolus vulgaris in acid soils.
  • authors: Roman-Ponce B, Jing Zhang Y, Soledad Vasquez-Murrieta M, Hua Sui X, Feng Chen W, Carlos Alberto Padilla J, Wu Guo X, Lian Gao J, Yan J, Hong Wei G, Tao Wang E
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.000732
  • year: 2015
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Mexico, Molecular Sequence Data, Nucleic Acid Hybridization, Phaseolus/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizobium/*classification/genetics/isolation & purification, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorstitledoi/urljournalpubmed
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
43999Brenda Román-Ponce, Yu Jing Zhang, María Soledad Vásquez-Murrieta, Xin Hua Sui, Wen Feng Chen, Juan Carlos Alberto Padilla, Xian Wu Guo, Jun Lian Gao, Jun Yan, Ge Hong Wei, En Tao WangRhizobium acidisoli sp. nov., isolated from root nodules of Phaseolus vulgaris in acid soils10.1099/ijsem.0.000732IJSEM 66: 398-406 201626530784
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/
96853Reimer, 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-ID396403.1