Rhizobium

From Wikipedia, the free encyclopedia
This article is about the bacterial genus. For the generic term that includes species in other genera, see Rhizobia.

Rhizobium
Rhizobium tropici strain BR816 on TY agar.JPG
Rhizobium tropici on an agar plate.
Scientific classification
Kingdom:
Bacteria
Phylum:
Proteobacteria
Class:
Alphaproteobacteria
Order:
Hyphomicrobiales
Family:
Rhizobiaceae
Genus:
Rhizobium

Frank 1889 (Approved Lists 1980)[1][2]
Type species
Rhizobium leguminosarum
(Frank 1879) Frank 1889 (Approved Lists 1980)
Species

See text.

Rhizobium is a genus of Gram-negative soil bacteria that fix nitrogen. Rhizobium species form an endosymbiotic nitrogen-fixing association with roots of (primarily) legumes and other flowering plants.

The bacteria colonize plant cells within root nodules, where they convert atmospheric nitrogen into ammonia using the enzyme nitrogenase and then provide organic nitrogenous compounds such as glutamine or ureides to the plant. The plant, in turn, provides the bacteria with organic compounds made by photosynthesis.[3] This mutually beneficial relationship is true of all of the rhizobia, of which the genus Rhizobium is a typical example. Rhizobium is also capable to solubilize phosphorus.[4]

History[]

Martinus Beijerinck was the first to isolate and cultivate a microorganism from the nodules of legumes in 1888. He named it Bacillus radicicola, which is now placed in Bergey's Manual of Determinative Bacteriology under the genus Rhizobium.

Research[]

Rhizobium forms a symbiotic relationship with certain plants such as legumes, fixing nitrogen from the air into ammonia, which acts as a natural fertilizer for the plants. Current research is being conducted by Agricultural Research Service microbiologists to discover a way to use Rhizobium’s biological nitrogen fixation. This research involves the genetic mapping of various rhizobial species with their respective symbiotic plant species, like alfalfa or soybean. The goal of this research is to increase the plants’ productivity without using fertilizers.[5]

In molecular biology, Rhizobium has also been identified as a contaminant of DNA extraction kit reagents and ultrapure water systems, which may lead to its erroneous appearance in microbiota or metagenomic datasets.[6] The presence of nitrogen-fixing bacteria as contaminants may be due to the use of nitrogen gas in ultra-pure water production to inhibit microbial growth in storage tanks.[7]

Species[]

Accepted species[]

The genus Rhizobium comprises the following species:[8]

  • Román-Ponce et al. 2016
  • Shamseldin et al. 2016
  • Aserse et al. 2017
  • Rhizobium aggregatum (Hirsch and Müller 1986) Kaur et al. 2011
  • Berge et al. 2009
  • Baraúna et al. 2016
  • Sheu et al. 2015
  • Zhang et al. 2015
  • Máthé et al. 2019
  • Zhang et al. 2017
  • Mohapatra et al. 2020
  • Mnasri et al. 2014
  • Behrendt et al. 2016
  • Rhizobium bangladeshense Rashid et al. 2015
  • Rhizobium binae Rashid et al. 2015
  • Rincón-Rosales et al. 2013
  • Lin et al. 2015
  • Liu et al. 2015
  • García-Fraile et al. 2007
  • Zhang et al. 2021
  • Huo et al. 2019
  • Quan et al. 2005
  • Ouyabe et al. 2020
  • Ribeiro et al. 2015
  • Parag et al. 2014
  • López-López et al. 2010
  • Cordeiro et al. 2017
  • Rhizobium etli Segovia et al. 1993
  • Tian et al. 2008
  • Torres Tejerizo et al. 2016
  • Gu et al. 2014
  • Dall'Agnol et al. 2013
  • Rhizobium gallicum Amarger et al. 1997
  • Shi et al. 2016
  • López-López et al. 2011
  • Rhizobium hainanense Chen et al. 1997
  • Bibi et al. 2012
  • Wei et al. 2015
  • Yan et al. 2020
  • Rhizobium indigoferae Wei et al. 2002
  • Sheu et al. 2016
  • Rincón-Rosales et al. 2013
  • Saïdi et al. 2014
  • Rhizobium leguminosarum (Frank 1879) Frank 1889 (Approved Lists 1980)
  • Kittiwongwattana & Thawai 2014
  • Rhizobium lentis Rashid et al. 2015
  • Ribeiro et al. 2011
  • Rhizobium loessense Wei et al. 2003
  • Rhizobium lusitanum Valverde et al. 2006
  • Liu et al. 2015
  • Rincón-Rosales et al. 2013
  • López-López et al. 2011
  • Lin et al. 2009
  • Grison et al. 2015
  • Gu et al. 2008
  • Rhizobium mongolense van Berkum et al. 1998[9]
  • Han et al. 2008
  • Kaiya et al. 2012
  • Zhang et al. 2015
  • corrig. Khalid et al. 2015
  • Dall'Agnol et al. 2014
  • Zhang et al. 2012
  • Rhizobium phaseoli Dangeard 1926 (Approved Lists 1980)
  • Rhizobium pisi Ramírez-Bahena et al. 2008
  • Rozahon et al. 2014
  • Boonsnongcheep et al. 2016
  • Rhizobium rhizogenes (Riker et al. 1930) Young et al. 2001
  • Gao et al. 2020
  • Zhang et al. 2014
  • Kaur et al. 2011
  • Jorrin et al. 2020
  • corrig. Hunter et al. 2008
  • Zhang et al. 2014
  • Yoon et al. 2010
  • Jiao et al. 2014
  • Jiao et al. 2014
  • Lin et al. 2014
  • Squartini et al. 2002
  • Turdahon et al. 2012[10]
  • Hou et al. 2009
  • Rhizobium tropici Martínez-Romero et al. 1991
  • Zhang et al. 2011
  • Kuzmanović et al. 2019
  • Wang et al. 2011[11]
  • (Gasdorf et al. 1965) Flores-Félix et al. 2017[12]
  • Gao et al. 2017
  • Yuan et al. 2018
  • Tan et al. 2001[9]
  • Chen et al. 2015
  • Celador-Lera et al. 2017

Provisional species[]

The following species have been described, but not validated according to the Bacteriological Code:[8]

  • "Rhizobium album" Hang et al. 2019
  • "Rhizobium albus" Li et al. 2017
  • "Rhizobium deserti" Liu et al. 2020
  • "Rhizobium flavescens" Su et al. 2021
  • "Rhizobium glycinendophyticum" Wang et al. 2020
  • "Rhizobium halotolerans" Diange and Lee 2013[13]
  • "Rhizobium hedysari" Xu et al. 2017
  • "Rhizobium helanshanense" Qin et al. 2012
  • "Rhizobium indicum" Rahi et al. 2020
  • "Rhizobium kunmingense" Shen et al. 2010
  • "Candidatus Rhizobium massiliense" Greub et al. 2004.
  • "Rhizobium oryzihabitans" Zhao et al. 2020
  • "Rhizobium panacihumi" Kang et al. 2019
  • "Rhizobium phenanthrenilyticum" Wen et al. 2011
  • "Rhizobium pongamiae" Kesari et al. 2013[14]
  • "Rhizobium qilianshanense" Xu et al. 2013[15]
  • "Rhizobium rhizolycopersici" Thin et al. 2021
  • "Rhizobium rhizosphaerae" Zhao et al. 2017
  • "Rhizobium terrae" Ruan et al. 2020

Phylogeny[]

The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN).[8] The phylogeny is based on whole-genome analysis.[16]

 
Rhizobium
 
 

 
 
 

Rhizobium rhizogenes

 
 
 
 

 
 

 
 
 
 

Rhizobium lusitanum

 
 
 
 

 
 

 
 
 
 

Rhizobium tropici

 
 
 

Rhizobium hainanense

 
 

 
 
 
 
 
 
 
 
 
 
 
 

 
 

 
 
 
 

 
 

 
 
 
 
 
 

Rhizobium loessense

 
 

Rhizobium mongolense

 
 
 
 
 

Rhizobium leguminosarum

 
 

 
 
 
 

 
 
 

 
 

Rhizobium etli

 
 
 
 
 
 
 
outgroups
 
 

Allorhizobium

 
 

Ciceribacter

 
 
 
 

Agrobacterium

 
 
 

Pseudorhizobium

 
 

Neorhizobium

 
 
 
 
 

References[]

  1. ^ Frank B. (1889). "Über die Pilzsymbiose der Leguminosen". Berichte der Deutschen Botanischen Gesellschaft. 7: 332–346.
  2. ^ Skerman VBD, McGowan V, Sneath PHA. (1980). "Approved lists of bacterial names". Int J Syst Bacteriol. 30: 225–420. doi:10.1099/00207713-30-1-225.CS1 maint: uses authors parameter (link)
  3. ^ Sawada H, Kuykendall LD, Young JM (June 2003). "Changing concepts in the systematics of bacterial nitrogen-fixing legume symbionts". The Journal of General and Applied Microbiology. 49 (3): 155–79. doi:10.2323/jgam.49.155. PMID 12949698.
  4. ^ Sridevi M, Mallaiah KV (March 2009). "Phosphate solubilization by Rhizobium strains". Indian Journal of Microbiology. 49 (1): 98–102. doi:10.1007/s12088-009-0005-1. PMC 3450048. PMID 23100757.
  5. ^ "Marvelous Microbe Collections Accelerate Discoveries To Protect People, Plants—and More!". Agricultural Research. United States Department of Agriculture. January 2010. Retrieved 10 August 2018.
  6. ^ Salter SJ, Cox MJ, Turek EM, Calus ST, Cookson WO, Moffatt MF, et al. (November 2014). "Reagent and laboratory contamination can critically impact sequence-based microbiome analyses". BMC Biology. 12: 87. bioRxiv 10.1101/007187. doi:10.1186/s12915-014-0087-z. PMC 4228153. PMID 25387460.
  7. ^ Kulakov LA, McAlister MB, Ogden KL, Larkin MJ, O'Hanlon JF (April 2002). "Analysis of bacteria contaminating ultrapure water in industrial systems". Applied and Environmental Microbiology. 68 (4): 1548–55. doi:10.1128/AEM.68.4.1548-1555.2002. PMC 123900. PMID 11916667.
  8. ^ Jump up to: a b c Euzéby JP, Parte AC. "Rhizobiaceae". List of Prokaryotic names with Standing in Nomenclature (LPSN). Retrieved May 28, 2021.CS1 maint: uses authors parameter (link)
  9. ^ Jump up to: a b Silva C, Vinuesa P, Eguiarte LE, Souza V, Martínez-Romero E (November 2005). "Evolutionary genetics and biogeographic structure of Rhizobium gallicum sensu lato, a widely distributed bacterial symbiont of diverse legumes". Molecular Ecology. 14 (13): 4033–50. doi:10.1111/j.1365-294X.2005.02721.x. PMID 16262857. S2CID 16668742.
  10. ^ Turdahon M, Osman G, Hamdun M, Yusuf K, Abdurehim Z, Abaydulla G, et al. (July 2013). "Rhizobium tarimense sp. nov., isolated from soil in the ancient Khiyik River". International Journal of Systematic and Evolutionary Microbiology. 63 (Pt 7): 2424–2429. doi:10.1099/ijs.0.042176-0. PMID 23203621. S2CID 19459097.
  11. ^ Wang F, Wang ET, Wu LJ, Sui XH, Li Y, Chen WX (November 2011). "Rhizobium vallis sp. nov., isolated from nodules of three leguminous species". International Journal of Systematic and Evolutionary Microbiology. 61 (Pt 11): 2582–2588. doi:10.1099/ijs.0.026484-0. PMID 21131504.
  12. ^ Flores-Félix JD, Ramírez-Bahena MH, Salazar S, Peix A, Velézquez E. (2017). "Reclassification of Arthrobacter viscosus as Rhizobium viscosum comb. nov". Int J Syst Evol Microbiol. 67: 1789–1792. doi:10.1099/ijsem.0.001864. PMID 28598309.CS1 maint: uses authors parameter (link)
  13. ^ Diange EA, Lee SS (June 2013). "Rhizobium halotolerans sp. nov., Isolated from chloroethylenes contaminated soil". Current Microbiology. 66 (6): 599–605. doi:10.1007/s00284-013-0313-x. PMID 23377488. S2CID 17809044.
  14. ^ Kesari V, Ramesh AM, Rangan L (2013). "Rhizobium pongamiae sp. nov. from root nodules of Pongamia pinnata". BioMed Research International. 2013: 165198. doi:10.1155/2013/165198. PMC 3783817. PMID 24078904.
  15. ^ Xu L, Zhang Y, Deng ZS, Zhao L, Wei XL, Wei GH (March 2013). "Rhizobium qilianshanense sp. nov., a novel species isolated from root nodule of Oxytropis ochrocephala Bunge in China". Antonie van Leeuwenhoek. 103 (3): 559–65. doi:10.1007/s10482-012-9840-x. PMID 23142858. S2CID 18660422.
  16. ^ Hördt, Anton; López, Marina García; Meier-Kolthoff, Jan P.; Schleuning, Marcel; Weinhold, Lisa-Maria; Tindall, Brian J.; Gronow, Sabine; Kyrpides, Nikos C.; Woyke, Tanja; Göker, Markus (7 April 2020). "Analysis of 1,000+ Type-Strain Genomes Substantially Improves Taxonomic Classification of Alphaproteobacteria". Frontiers in Microbiology. 11: 468. doi:10.3389/fmicb.2020.00468. PMC 7179689. PMID 32373076.

External links[]

Retrieved from ""