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ガンマプロテオバクテリア綱

出典: フリー百科事典『ウィキペディア（Wikipedia）』
ガンマプロテオバクテリア綱
コレラ菌（Vibrio cholerae）
タイプ属のシュードモナス属のタイプ種である緑膿菌（Pseudomonas aeruginosa）の血液寒天培地上のコロニー
分類
ドメイン : 真正細菌
Bacteria
門 : Pseudomonadota門
綱 : ガンマプロテオバクテリア綱
Gammaproteobacteria
学名
Gammaproteobacteria
Garrity et al. 2005[1]
(IJSEMリストに掲載 2005)[2]
タイプ属
シュードモナス属
Pseudomonas
Migula 1894[3]
(IJSEMリストに掲載 1980)[4]
修正　Yang et al. 2013[5]
(IJSEMリストに掲載 1980)[6]
シノニム
  • クロマチウム綱
    Chromatiia
    Cavalier-Smith 2020[7]
  • クロマチバクテリア綱
    Chromatibacteria
    Cavalier-Smith 2002[8]
下位分類（目）

本文を参照

ガンマプロテオバクテリア綱（ガンマプロテオバクテリアこう、Gammaproteobacteria）とは真正細菌Pseudomonadota門における綱の一つである。この綱の細菌はグラム陰性である。重要な病原菌を多く含む。

特徴

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ガンマプロテオバクテリア綱には医学的、人間社会にとって重要な細菌を多く含む。腸内細菌科（Enterobacteriaceae）、ビブリオ科（Vibrionaceae）、シュードモナス科（Pseudomonadaceae）などである。重要な病原菌にはサルモネラ（Salmonella spp.、腸炎や腸チフスの原因菌）やペスト菌（Yersinia pestis）、コレラ（Vibrio cholerae）、緑膿菌（Pseudomonas aeruginosa、日和見感染による緑膿菌感染症）、大腸菌（Escherichia coli、食中毒）がいる。重要な植物病原菌にはXanthomonas axonopodis pv. citri（ミカン類潰瘍病）やPseudomonas syringae pv. actinidiae（キウイ）、Xylella fastidiosaがいる。クロマチウム属（Chromatium）は光合成細菌であり、水の代わりに硫化水素を酸化し、硫黄を排出する。ガンマプロテオバクテリア綱の多くはメタン酸化細菌であり、一部は深海生物のチューブワームと共生している[9]。

下位分類（目）

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IJSEMに正式承認されている目

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本綱に属する目を以下に列挙する(2024年7月現在)[10]。

小島久弥 et al. 2015[11] (IJSEMリストに掲載 2016)[12]
Martin-Carnahan and Joseph 2005[13] (IJSEMリストに掲載 2005)[2]
Bowman and McMeekin 2005[14] (IJSEMリストに掲載 2005)[2]
寺本真紀 et al. 2015[15] (IJSEMリストに掲載 2015)[16]
Buchanan 1957[17] (IJSEMリストに掲載 1980)[4]
Garrity et al. 2005[18] (IJSEMリストに掲載 2005)[2]
Spring et al. 2015[19] (IJSEMリストに掲載 2015)[20]
Imhoff 2005[21] (IJSEMリストに掲載 2005)[2]
Adeolu et al. 2016[22] (IJSEMリストに掲載 2017)[23]
Corteselli et al. 2017[24] (IJSEMリストに掲載 2017)[25]
Garrity et al. 2005[26] (IJSEMリストに掲載 2005)[2]
Christensen and Cook 1978[27] (IJSEMリストに掲載 1980)[4]、修正　Naushad et al. 2015[28] (IJSEMリストに掲載 2015)[29]
Bowman 2005[30] (IJSEMリストに掲載 2005)[2]
Naushad et al. 2015[28] (IJSEMリストに掲載 2015)[31]
Garrity et al. 2005[32] (IJSEMリストに掲載 2005)[2]
Kwong and Moran 2013[33] (IJSEMリストに掲載 2013)[34]
Garrity et al. 2005[35] (IJSEMリストに掲載 2005)[2]
Orla-Jensen 1921[36] (IJSEMリストに掲載 1980)[4]、修正　2020[37] (IJSEMリストに掲載 2021)[38]
Sorokin and Merkel 2023[39] (IJSEMリストに掲載 2023)[40]
Sorokin and Merkel 2023[41] (IJSEMリストに掲載 2023)[40]

IJSEMに未承認の目

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  • "Candidatus Comchoanobacterales"
Needham et al. 2022[42]
  • "Candidatus Competibacterales"
Chuvochina et al. 2023[43]
  • "Candidatus Foliamicales"
Nguyen et al. 2023[44]
  • "Candidatus Johnevansiales"
Chuvochina et al. 2023[43]
  • "Candidatus Porifericomitales"
Nguyen et al. 2023[44]
  • "Candidatus Porisulfidales"
Nguyen et al. 2023[44]
  • "Candidatus Rariloculales"
Nguyen et al. 2023[44]
  • "Candidatus Siderophilales"
corrig. Corbera-Rubio et al. 2024[42]
  • "Candidatus Spongiifermentales"
Nguyen et al. 2023[44]
  • "Candidatus Tethybacterales"
Taylor et al. 2021[45]
  • "Vibrionales"　ビブリオ目
Garrity and Holt 2001[46]

系統発生

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以下に、2010年に作成されたガンマプロテオバクテリア綱の系統発生図を示す[47]。

 

アシドチオバシラス綱

 
 
 

ベータプロテオバクテリア綱

 
 
 

キサントモナス目

 
 
 

クロマチウム目

 
 

メチロコッカス属

 
 

ベッギアトア属

 
 
 

レジオネラ目

 
 

Ruthia、Vesicomyosocius、チオミクロスピラ属、ディケロバクター属、フランシセラ属

 
 
 
 

モラクセラ科、Alcalinovorax

 
 
 

サッカロファガス属, レイネケア属

 
 
 

オセアノスピリルム科

 
 
 

マリノバクター属

 
 

シュードモナス科

 
 
 
 
 
 
 

シュードアルテロモナス科、アルテロモナス属、Idiomarinaceae

 
 
 

シェワネラ科

 
 
 

シクロモナス科

 
 
 

アルテロモナス属

 
 
 

ビブリオ目

 
 
 

パスツレラ目

 
 

エンテロバクター目

 
 
 
 
 
 
 
 
 
 
 
 

単系統ではないためシュードモナス目やオセアノスピリルム目、アルテロモナス目は科と属を示す。単系統の目は属のみを示す。

脚注

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  1. ^ Garrity GM, Bell JA, Lilburn T. (2005). “Class III. Gammaproteobacteria class. nov.”. In Brenner DJ, Krieg NR, Staley JT, Garrity GM. Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2 (The Proteobacteria), part B (The Gammaproteobacteria). New York: Springer. p. 1. ISBN 978-0-387-95040-2 
  2. ^ a b c d e f g h i “Validation of publication of new names and new combinations previously effectively published outside the IJSEM”. International Journal of Systematic and Evolutionary Microbiology: 2235-2238. (01 November 2005). doi:10.1099/ijs.0.64108-0. 
  3. ^ Migula W. (1894). “Arbeiten aus dem Bakteriologischen Institut der Technischen Hochschule zu Karlsruhe”. Über ein neues System der Bakterien 1: 235-238. 
  4. ^ a b c d V. B. D. Skerman, Vicki. McGOWAN and P. H. A. Sneath (01 January 1980). “Approved Lists of Bacterial Names”. International Journal of Systematic and Evolutionary Microbiology 30 (1): 225-420. doi:10.1099/00207713-30-1-225. 
  5. ^ Guiqin Yang, Luchao Han, Junlin Wen and Shungui Zhou (01 December 2013). “Pseudomonas guangdongensis sp. nov., isolated from an electroactive biofilm, and emended description of the genus Pseudomonas Migula 1894”. International Journal of Systematic and Evolutionary Microbiology 63 (Pt_12): 4599-4605. doi:10.1099/ijs.0.054676-0. PMID 23918787. 
  6. ^ Aharon Oren and George M. Garrity (01 March 2014). “Notification that new names of prokaryotes, new combinations and new taxonomic opinions have appeared in volume 63, part 12, of the IJSEM”. International Journal of Systematic and Evolutionary Microbiology 64 (Pt_3): 697-699. doi:10.1099/ijs.0.061861-0. 
  7. ^ Thomas Cavalier-Smith & Ema E-Yung Chao (03 January 2020). “Multidomain ribosomal protein trees and the planctobacterial origin of neomura (eukaryotes, archaebacteria)”. Protoplasma 257 (3): 621-753. doi:10.1007/s00709-019-01442-7. PMC 7203096. PMID 31900730. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7203096/. 
  8. ^ T Cavalier-Smith (01 January 2002). “The neomuran origin of archaebacteria, the negibacterial root of the universal tree and bacterial megaclassification”. International Journal of Systematic and Evolutionary Microbiology 52 (1): 7-76. doi:10.1099/00207713-52-1-7. PMID 11837318. 
  9. ^ http://comenius.susqu.edu/biol/202/EUBACTERIA/PROTEOBACTERIAE/gammaproteobacteria-frame.htm
  10. ^ Jean P. Euzéby, Aidan C. Parte. “Class Gammaproteobacteria”. List of Prokaryotic names with Standing in Nomenclature. 2024年7月12日閲覧。
  11. ^ Hisaya Kojima, Arisa Shinohara and Manabu Fukui (01 October 2015). “Sulfurifustis variabilis gen. nov., sp. nov., a sulfur oxidizer isolated from a lake, and proposal of Acidiferrobacteraceae fam. nov. and Acidiferrobacterales ord. nov.”. International Journal of Systematic and Evolutionary Microbiology 65 (Pt_10): 3709-3713. doi:10.1099/ijsem.0.000479. PMID 26220671. 
  12. ^ Aharon Oren and George M. Garrity (01 January 2016). “Notification that new names of prokaryotes, new combinations and new taxonomic opinions have appeared in volume 65, part 10, of the IJSEM”. International Journal of Systematic and Evolutionary Microbiology 66 (1): 4-6. doi:10.1099/ijsem.0.000745. 
  13. ^ Martin-Carnahan A, Joseph SW (2005). “Order XII. Aeromonadales ord. nov.”. In Brenner DJ, Krieg NR, Staley JT, Garrity GM. Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2 (The Proteobacteria), part B (The Gammaproteobacteria). Springer, New York. p. 556 
  14. ^ Bowman JP, McMeekin TA (2005). “Order X. Alteromonadales ord. nov.”. In Brenner DJ, Krieg NR, Staley JT, Garrity GM. Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2 (The Proteobacteria), part B (The Gammaproteobacteria). Springer, New York. p. 443 
  15. ^ Maki Teramoto, Ken-ichi Yagyu and Miyuki Nishijima (01 February 2015). “Perspicuibacter marinus gen. nov., sp. nov., a semi-transparent bacterium isolated from surface seawater, and description of Arenicellaceae fam. nov. and Arenicellales ord. nov.”. International Journal of Systematic and Evolutionary Microbiology 65 (Pt_2): 353-358. doi:10.1099/ijs.0.064683-0. PMID 25355707. 
  16. ^ Aharon Oren and George M. Garrity (01 May 2015). “Notification that new names of prokaryotes, new combinations, and new taxonomic opinions have appeared in volume 65, part 2, of the IJSEM”. International Journal of Systematic and Evolutionary Microbiology 65 (Pt_5): 1397-1399. doi:10.1099/ijs.0.000142. 
  17. ^ Buchanan RE (1957). “Order VII. Beggiatoales Buchanan, Ordo Nov”. In Breed RS, Murray EGD, Smith NR. Bergey’s Manual of Determinative Bacteriology, 7th ed.. The Williams and Wilkins Co., Baltimore. pp. 837-853 
  18. ^ Garrity GM, Bell JA, Lilburn T (2005). “Order IV. Cardiobacteriales ord. nov.”. In Brenner DJ, Krieg NR, Staley JT, Garrity GM. Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2 (The Proteobacteria), part B (The Gammaproteobacteria). Springer, New York. p. 123 
  19. ^ Stefan Spring, Carmen Scheuner, Markus Göker, Hans-Peter Klenk (09 April 2015). “A taxonomic framework for emerging groups of ecologically important marine gammaproteobacteria based on the reconstruction of evolutionary relationships using genome-scale data”. Frontiers in Microbiology 6 (281): 281. doi:10.3389/fmicb.2015.00281. PMC 4391266. PMID 25914684. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4391266/. 
  20. ^ Aharon Oren and George M. Garrity (01 July 2015). “List of new names and new combinations previously effectively, but not validly, published”. International Journal of Systematic and Evolutionary Microbiology 65 (Pt_7): 2017-2025. doi:10.1099/ijs.0.000317. 
  21. ^ Imhoff JF (2005). “Order I. Chromatiales ord. nov.”. In Brenner DJ, Krieg NR, Staley JT, Garrity GM. Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2 (The Proteobacteria), part B (The Gammaproteobacteria). Springer, New York. pp. 1-3 
  22. ^ Mobolaji Adeolu, Seema Alnajar, Sohail Naushad and Radhey S. Gupta (01 December 2016). “Genome-based phylogeny and taxonomy of the ‘Enterobacteriales’: proposal for Enterobacterales ord. nov. divided into the families Enterobacteriaceae, Erwiniaceae fam. nov., Pectobacteriaceae fam. nov., Yersiniaceae fam. nov., Hafniaceae fam. nov., Morganellaceae fam. nov., and Budviciaceae fam. nov.”. International Journal of Systematic and Evolutionary Microbiology 66 (12): 5575-5599. doi:10.1099/ijsem.0.001485. PMID 27620848. 
  23. ^ Aharon Oren and George M. Garrity (01 March 2017). “Notification that new names of prokaryotes, new combinations and new taxonomic opinions have appeared in volume 66, part 12, of the IJSEM”. International Journal of Systematic and Evolutionary Microbiology 67 (3): 525-528. doi:10.1099/ijsem.0.001834. 
  24. ^ Elizabeth M. Corteselli, Michael D. Aitken and David R. Singleton (01 April 2017). “Description of Immundisolibacter cernigliae gen. nov., sp. nov., a high-molecular-weight polycyclic aromatic hydrocarbon-degrading bacterium within the class Gammaproteobacteria, and proposal of Immundisolibacterales ord. nov. and Immundisolibacteraceae fam. nov.”. International Journal of Systematic and Evolutionary Microbiology 67 (4): 925-931. doi:10.1099/ijsem.0.001714. 
  25. ^ Aharon Oren and George M. Garrity (01 July 2017). “Notification that new names of prokaryotes, new combinations, and new taxonomic opinions have appeared in volume 67, part 4, of the IJSEM”. International Journal of Systematic and Evolutionary Microbiology 67 (7): 2079-2080. doi:10.1099/ijsem.0.002098. 
  26. ^ Garrity GM, Bell JA, Lilburn T (2005). “Order VI. Legionellales ord. nov.”. In Brenner DJ, Krieg NR, Staley JT, Garrity GM. Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2 (The Proteobacteria), part B (The Gammaproteobacteria). Springer, New York. pp. 210 
  27. ^ PENELOPE CHRISTENSEN and F. D. COOK (01 July 1978). “Lysobacter, a New Genus of Nonfruiting, Gliding Bacteria with a High Base Ratio”. International Journal of Systematic and Evolutionary Microbiology 28 (3): 367-393. doi:10.1099/00207713-28-3-367. 
  28. ^ a b Sohail Naushad, Mobolaji Adeolu, Shirley Wong, Misbah Sohail, Herbert E Schellhorn, Radhey S Gupta (07 December 2014). “A phylogenomic and molecular marker based taxonomic framework for the order Xanthomonadales: proposal to transfer the families Algiphilaceae and Solimonadaceae to the order Nevskiales ord. nov. and to create a new family within the order Xanthomonadales, the family Rhodanobacteraceae fam. nov., containing the genus Rhodanobacter and its closest relatives”. Antonie van Leeuwenhoek 107 (2): 467–485. doi:10.1007/s10482-014-0344-8. PMID 25481407. 
  29. ^ Aharon Oren and George M. Garrity (01 July 2015). “Notification of changes in taxonomic opinion previously published outside the IJSEM”. International Journal of Systematic and Evolutionary Microbiology 65 (Pt_7): 2028-2029. doi:10.1099/ijs.0.000286. 
  30. ^ Bowman JP (2005). “Order VII. Methylococcales ord. nov.”. In Brenner DJ, Krieg NR, Staley JT, Garrity GM. Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2 (The Proteobacteria), part B (The Gammaproteobacteria). Springer, New York. pp. 248-252 
  31. ^ Aharon Oren and George M. Garrity (01 April 2015). “List of new names and new combinations previously effectively, but not validly, published”. International Journal of Systematic and Evolutionary Microbiology 65 (Pt_4): 1105-1111. doi:10.1099/ijs.0.000178. 
  32. ^ Brenner DJ, Krieg NR, Staley JT, Garrity GM, ed (2005). Order VIII. Oceanospirillales ord. nov.. “Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2 (The Proteobacteria), part B (The Gammaproteobacteria)”. Garrity GM, Bell JA, Lilburn T (Springer, New York): 270. 
  33. ^ “Cultivation and characterization of the gut symbionts of honey bees and bumble bees: description of Snodgrassella alvi gen. nov., sp. nov., a member of the family Neisseriaceae of the Betaproteobacteria , and Gilliamella apicola gen. nov., sp. nov., a member of Orbaceae fam. nov., Orbales ord. nov., a sister taxon to the order ‘ Enterobacteriales ’ of the Gammaproteobacteria”. International Journal of Systematic and Evolutionary Microbiology 63 (Pt_6): 2008-2018. (01 June 2013). doi:10.1099/ijs.0.044875-0. PMID 23041637. 
  34. ^ Aharon Oren and George M. Garrity (01 September 2013). “Notification that new names and new combinations have appeared in volume 63, part 6, of the IJSEM”. International Journal of Systematic and Evolutionary Microbiology 63 (Pt_9): 3135-3137. doi:10.1099/ijs.0.055343-0. 
  35. ^ Garrity GM, Bell JA, Lilburn T (2005). “Order XIV. Pasteurellales ord. nov.”. In Brenner DJ, Krieg NR, Staley JT, Garrity GM. Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2 (The Proteobacteria), part B (The Gammaproteobacteria). Springer, New York. pp. 850. 
  36. ^ S. Orla-Jensen (1 May 1921). “The Main Lines of the Natural Bacterial System”. Journal of Bacteriology 6 (3): 263-73. doi:10.1128/jb.6.3.263-273.1921. PMC 378931. PMID 16558921. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC378931/. 
  37. ^ Hu Liao, Xiaolan Lin, Yuqian Li, Mingming Qu, Yun Tian (2020 Sep 15). “Reclassification of the Taxonomic Framework of Orders Cellvibrionales, Oceanospirillales, Pseudomonadales, and Alteromonadales in Class Gammaproteobacteria through Phylogenomic Tree Analysis”. mSystems 5 (5). doi:10.1128/mSystems.00543-20. PMC 7498684. PMID 32934116. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7498684/. 
  38. ^ Aharon Oren and George M. Garrity (29 January 2021). “Notification of changes in taxonomic opinion previously published outside the IJSEM”. International Journal of Systematic and Evolutionary Microbiology 71 (1): 225-420. doi:10.1099/ijsem.0.004596. 
  39. ^ Dimitry Y. Sorokin, Alexander Y. Merkel (09 March 2023). “Thiohalobacterales ord. nov.”. In Anonymous NN. Bergey's Manual of Systematics of Archaea and Bacteria.. John Wiley & Sons, New York. pp. 1-4 
  40. ^ a b Aharon Oren and George M. Garrity (August 2023). “Validation List no. 212. Valid publication of new names and new combinations effectively published outside the IJSEM”. International Journal of Systematic and Evolutionary Microbiology 73 (7): 5931. doi:10.1099/ijsem.0.005931. 
  41. ^ Dimitry Y. Sorokin, Alexander Y. Merkel (09 March 2023). “Thiohalorhabdales ord. nov.”. In Anonymous NN. Bergey's Manual of Systematics of Archaea and Bacteria.. John Wiley & Sons, New York. pp. 1-3. doi:10.1002/9781118960608.obm00183 
  42. ^ a b Francesc Corbera-Rubio, Gerben R Stouten, Jantinus Bruins, Simon F Dost, Alexander Y Merkel, Simon Müller, Mark C M van Loosdrecht, Doris van Halem, Michele Laureni (January 2024). ““Candidatus Siderophilus nitratireducens”: a putative nap-dependent nitrate-reducing iron oxidizer within the new order Siderophiliales”. ISME Communications 4 (1): ycae008. doi:10.1093/ismeco/ycae008. PMC 10993476. PMID 38577582. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10993476/. 
  43. ^ a b Maria Chuvochina, Aaron J Mussig, Pierre-Alain Chaumeil, Adam Skarshewski, Christian Rinke, Donovan H Parks, Philip Hugenholtz (21 July 2023). “Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes”. FEMS Microbiology Letters 370: fnad071. doi:10.1093/femsle/fnad071. PMC 10408702. PMID 37480240. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10408702/. 
  44. ^ a b c d e Viet Hung Nguyen, Bernd Wemheuer, Weizhi Song, Holly Bennett, Giorgia Palladino, Ilia Burgsdorf, Sofia Sizikov, Laura Steindler, Nicole S Webster, Torsten Thomas (April 2023). “Functional characterization and taxonomic classification of novel gammaproteobacterial diversity in sponges”. Systematic and Applied Microbiology 46 (2): 126401. doi:10.1016/j.syapm.2023.126401. PMID 36774720. 
  45. ^ Jessica A Taylor, Giorgia Palladino, Bernd Wemheuer, Georg Steinert, Detmer Sipkema, Timothy J Williams, Torsten Thomas Author Notes (03 October 2020). “Phylogeny resolved, metabolism revealed: functional radiation within a widespread and divergent clade of sponge symbionts”. The ISME Journal 15 (2): 503–519. doi:10.1038/s41396-020-00791-z. PMC 8027453. PMID 33011742. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8027453/. 
  46. ^ Garrity GM, Holt JG (2001). “The Road Map to the Manual”. In Boone DR, Castenholz RW, Garrity GM. Bergey's Manual of Systematic Bacteriology, second edition, vol. 1 (The Archaea and the deeply branching and phototrophic Bacteria). Springer-Verlag, New York. pp. 119-166. 
  47. ^ Williams, K. P.; Gillespie, J. J.; Sobral, B. W. S.; Nordberg, E. K.; Snyder, E. E.; Shallom, J. M.; Dickerman, A. W. (2010). “Phylogeny of Gammaproteobacteria”. Journal of Bacteriology 192 (9): 2305–2314. doi:10.1128/JB.01480-09. PMC 2863478. PMID 20207755. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2863478/. 

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