Rhizobiales

Root nodules on Psoralea containing Mesorhizobium, copyright Charles Stirton.

Belongs within: Proteobacteria.
Contains: Bradyrhizobiaceae, Rhizobiaceae.

The Rhizobiales are a clade of Gram-negative bacteria united by molecular data, many of which are nitrogen-fixers forming symbiotic associations with plant roots.

<==Rhizobiales
    |  i. s.: RoseibiumCG03
    |         Rochalimaea quintanaPHK96
    |--+--Rhodobium [Rhodobiaceae]CG03
    |  |    |--R. marinum [=Rhodopseudomonas marina]I01
    |  |    |    |--R. m. ssp. marinumPHK96
    |  |    |    `--‘Rhodopseudomonas’ m. ssp. agilisPHK96
    |  |    `--R. orientisCG03
    |  `--+--+--MethylocystaceaeCG03
    |     |  |    |--Methylocystis parvusCG03
    |     |  |    |--MethylopilaGH01
    |     |  |    `--MethylosinusCG03
    |     |  |         |--M. sporiumE92
    |     |  |         `--M. trichosporiumCG03
    |     |  `--BeijerinckiaceaeCG03
    |     |       |--Derxia gummosaGH01, AS92
    |     |       |--Chelatococcus Auling et al. 1993GH01, KN02
    |     |       |    `--*C. asaccharovoransKN02
    |     |       `--BeijerinckiaCG03
    |     |            |--B. derxiiE92
    |     |            |--B. fluminensisE92
    |     |            |--B. indicaCG03
    |     |            `--B. mobilisE92
    |     `--+--BradyrhizobiaceaeCG03
    |        `--+--Bosea Das et al. 1996 nec Srivastava 1975 (ICBN) nec He & Qian 1979 (ICBN)LSM03
    |           |    |--B. massiliensis La Scola, Mallet et al. 2003LSM03
    |           |    `--+--*B. thiooxidansLSM03
    |           |       `--+--B. eneae La Scola, Mallet et al. 2003LSM03
    |           |          `--B. vestrisii La Scola, Mallet et al. 2003LSM03
    |           `--MethylobacteriaceaeGH01
    |                |--MethylobacteriumLSM03
    |                |    |--M. extorquensPHK96
    |                |    |--M. mesophilicumLSM03
    |                |    `--M. organophilumCG03
    |                `--RoseomonasGH01
    |                     |--R. gilardii Rihs et al. 1998IJSEM03
    |                     |    |--R. g. ssp. gilardiiIJSEM03
    |                     |    `--R. g. ssp. rosea Han, Pham et al. 2003VP IJSEM03
    |                     `--R. mucosa Han, Pham et al. 2003VP IJSEM03
    `--+--+--Aurantimonas coralicidaCG03
       |  `--Fulvimarina Cho & Giovannoni 2003CG03
       |       `-*F. pelagi Cho & Giovannoni 2003CG03
       `--+--RhizobiaceaeCG03
          `--+--BrucellaceaeCG03
             |    |--MycoplanaCG03
             |    |    |--M. bullaE92
             |    |    `--M. dimorphaCG03
             |    `--+--Ochrobactrum anthropiCG03
             |       `--BrucellaCG03
             |            |--B. abortusPHK96
             |            `--B. melitensisCG03
             `--+--BartonellaceaeCG03
                |    |--Grahamella musculiPHK96, KK54
                |    `--BartonellaCG03
                |         |--B. bacilliformisCG03
                |         |--B. birtiesiiLSM03
                |         |--B. elizabethaeCG03 [=Rochalimaea elizabethaeT01]
                |         |--B. henselae [=Rochalimaea henselae]PHK96
                |         `--B. quintanaGE05
                `--PhyllobacteriaceaeCG03
                     |--+--Defluvibacter lusatiensisLPV04
                     |  `--Aquamicrobium defluviiLPV04
                     `--+--Pseudaminobacter salicylatoxidansLPV04
                        |--Nitratireductor Labbé, Parent & Villemur 2004LPV04
                        |    `--*N. aquibiodomus Labbé, Parent & Villemur 2004LPV04
                        |--PhyllobacteriumLPV04
                        |    |--P. myrsinacearumLPV04
                        |    `--P. rubiacearumYK99
                        |--Aminobacter Urakami et al. 1992LPV04, KN02 [incl. Chelatobacter Auling et al. 1993KN02]
                        |    |--*A. aminovorans Urakami et al. 1992KN02, LPV04, KN02 (see below for synonymy)
                        |    `--+--A. aganoensisLPV04
                        |       `--A. niigataensisLPV04
                        `--MesorhizobiumLPV04
                             |--M. chacoenseLPV04
                             `--+--M. ciceriLPV04
                                `--+--+--M. mediterraneumLPV04
                                   |  `--M. tianshanenseLPV04
                                   `--+--M. amorphaeLPV04
                                      |--M. plurifariumLPV04
                                      `--+--M. huakuiiLPV04
                                         `--M. lotiLPV04

*Aminobacter aminovorans Urakami et al. 1992KN02, LPV04, KN02 [=Pseudomonas aminovoransKN02; incl. *Chelatobacter heintzii Auling et al. 1993KN02]

*Type species of generic name indicated

References

[AS92] Aragno, M., & H. G. Schlegel. 1992. The mesophilic hydrogen-oxidizing (knallgas) bacteria. In: Balows, A., H. G. Trüper, M. Dworkin, W. Harder & K.-H. Schleifer (eds) The Prokaryotes: A handbook on the biology of bacteria: Ecophysiology, isolation, identification, applications 2nd ed. vol. 1 pp. 344–384. Springer-Verlag: New York.

[CG03] Cho, J.-C., & S. J. Giovannoni. 2003. Fulvimarina pelagi gen. nov., sp. nov., a marine bacterium that forms a deep evolutionary lineage of descent in the order ‘Rhizobiales’. International Journal of Systematic and Evolutionary Microbiology 53: 1853–1859.

[E92] Eady, R. R. 1992. The dinitrogen-fixing bacteria. In: Balows, A., H. G. Trüper, M. Dworkin, W. Harder & K.-H. Schleifer (eds) The Prokaryotes: A handbook on the biology of bacteria: Ecophysiology, isolation, identification, applications 2nd ed. vol. 1 pp. 534–553. Springer-Verlag: New York.

[GH01] Garrity, G. M., & J. G. Holt. 2001. The road map to the Manual. In: Boone, D. R., R. W. Castenholz & G. M. Garrity (eds) Bergey’s Manual of Systematic Bacteriology 2nd ed. vol. 1. The Archaea and the Deeply Branching and Phototrophic Bacteria pp. 119–166. Springer.

[GE05] Grimaldi, D., & M. S. Engel. 2005. Evolution of the Insects. Cambridge University Press: New York.

[IJSEM03] IJSEM. 2003. Validation list no. 94. Validation of publication of new names and new combinations previously effectively published outside the IJSEM. International Journal of Systematic and Evolutionary Microbiology 53: 1701–1702.

[I01] Imhoff, J. F. 2001. The anoxygenic phototrophic purple bacteria. In: Boone, D. R., R. W. Castenholz & G. M. Garrity (eds) Bergey’s Manual of Systematic Bacteriology 2nd ed. vol. 1. The Archaea and the Deeply Branching and Phototrophic Bacteria pp. 631–637. Springer.

[KN02] Kämpfer, P., A. Neef, M. S. Salkinoja-Salonen & H.-J. Busse. 2002. Chelatobacter heintzii (Auling et al. 1993) is a later subjective synonym of Aminobacter aminovorans (Urakami et al. 1992). International Journal of Systematic and Evolutionary Microbiology 52: 835–839.

[KK54] Klemmer, K., & H. E. Krampitz. 1954. Zur Kenntnis der Säugetierfauna Siziliens. Senckenbergiana Biologica 35 (3–4): 121–135.

[LPV04] Labbé, N., S. Parent & R. Villemur. 2004. Nitratireductor aquibiodomus gen. nov., sp. nov., a novel α-proteobacterium from the marine denitrification system of the Montreal Biodome (Canada). International Journal of Systematic and Evolutionary Microbiology 54: 269–273.

[LSM03] La Scola, B., M.-N. Mallet, P. A. D. Grimont & D. Raoult. 2003. Bosea eneae sp. nov., Bosea massiliensis sp. nov. and Bosea vestrisii sp. nov., isolated from hospital water supplies, and emendation of the genus Bosea (Das et al. 1996). International Journal of Systematic and Evolutionary Microbiology 53: 15–20.

[PHK96] Prescott, L. M., J. P. Harley & D. A. Klein. 1996. Microbiology 3rd ed. Wm. C. Brown Publishers: Dubuque (Iowa).

[T01] Trüper, H. G. 2001. Etymology in nomenclature of procaryotes. In: Boone, D. R., R. W. Castenholz & G. M. Garrity (eds) Bergey’s Manual of Systematic Bacteriology 2nd ed. vol. 1. The Archaea and the Deeply Branching and Phototrophic Bacteria pp. 89–99. Springer.

[YK99] Yamada, Y., H. Kawasaki, Y. Nagatsuka, K. Mikata & T. Seki. 1999. The phylogeny of the cactophilic yeasts based on the 18S ribosomal RNA gene sequences: the proposals of Phaffomyces antillensis and Starmera caribaea, new combinations. Bioscience, Biotechnology, and Biochemistry 63: 827–832.

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