Euryarchaeota

Euryarchaeota
Halobacterium sp. strain NRC-1, each cell about 5 µm in length.
Scientific classification
Domain: Archaea
Kingdom: Euryarchaeota
Woese, Kandler & Wheelis, 1990[1]
Phyla[2]
  • "Hydrothermarchaeota"
  • "Hadarchaeota"
  • "Methanobacteriota"
  • "Thermoplasmatota"
  • "Halobacteriota"
  •  ?Theionarchaea[3][4]
  •  ?DPANN[5][6]
Synonyms
  • non Euryarchaeota s.s. Garrity and Holt 2002
  • Euryarchaeida Luketa 2012
  • Methaneocreatrices Margulis & Schwartz 1982

Euryarchaeota (Greek for "broad old quality") is a phylum of archaea.[7] It is one of two phyla of archaea, the other being crenarchaeota.[8] Euryarchaeota are highly diverse and include methanogens, which produce methane and are often found in intestines, halobacteria, which survive extreme concentrations of salt, and some extremely thermophilic aerobes and anaerobes, which generally live at temperatures between 41 and 122 °C. They are separated from the other archaeans based mainly on rRNA sequences and their unique DNA polymerase.[9]

Description

The Euryarchaeota are diverse in appearance and metabolic properties. The phylum contains organisms of a variety of shapes, including both rods and cocci. Euryarchaeota may appear either gram-positive or gram-negative depending on whether pseudomurein is present in the cell wall.[10] Euryarchaeota also demonstrate diverse lifestyles, including methanogens, halophiles, sulfate-reducers, and extreme thermophiles in each.[10] Others live in the ocean, suspended with plankton and bacteria. Although these marine euryarchaeota are difficult to culture and study in a lab, genomic sequencing suggests that they are motile heterotrophs.[11]

Though it was previously thought that euryarchaeota only lived in extreme environments (in terms of temperature, salt content and/or pH), a paper by Korzhenkov et al published in January 2019 showed that euryarchaeota also live in moderate environments, such as low-temperature acidic environments. In some cases, euryarchaeota outnumbered the bacteria present.[12] Euryarchaeota have also been found in other moderate environments such as water springs, marshlands, soil and rhizospheres.[8] Some euryarchaeota are highly adaptable; an order called Halobacteriales are usually found in extremely salty and sulfur-rich environments but can also grow in salt concentrations as low as that of seawater 2.5%.[8] In rhizospheres, the presence of euryarchaeota seems to be dependent on that of mycorrhizal fungi; a higher fungal population was correlated with higher euryarchaeotal frequency and diversity, while absence of mycorrihizal fungi was correlated with absence of euryarchaeota.[8]

Phylogeny

phylogeny is based on 16S rRNA-based LTP release 121[13] Dombrowski et al. 2019,[14] Jordan et al. 2017[15] and Cavalier-Smith2020.[6]

The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN)[16] and National Center for Biotechnology Information (NCBI)[17] and the phylogeny is based on 16S rRNA-based LTP release 121 by 'The All-Species Living Tree' Project.[13]

Euryarchaeota
 

 Methanopyri

 
 
 

Methanococci

 
 
 
 

Thermococci

 
 

Thermoplasmata

 
 
 
 

Methanobacteria

 
 
 

Archaeoglobi

 
 
 

Methanomicrobia

 
 

Haloarchaea

 
 
 
 
 
 
 

Other phylogenetic analyzes have suggested that the archaea of the clade DPANN may also belong to Euryarchaeota and that they may even be a polyphyletic group occupying different phylogenetic positions within Euryarchaeota. It is also debated whether the phylum Altiarchaeota should be classified in DPANN or Euryarchaeota.[14] A cladogram summarizing this proposal is graphed below.[15][6] The groups marked in quotes are lineages assigned to DPANN, but phylogenetically separated from the rest.

 

Bacteria

 
Archaea
Euryarchaeota
 
 

Thermococci

 
 
 

Hadesarchaea

 
 
 
 

Methanobacteria

 
 
 

Methanopyri

 
 

Methanococci

 
 
 
 
 
 

Thermoplasmata

 
 
 

Archaeoglobi

 
 
 

Methanomicrobia

 
 
 

"Nanohaloarchaeota"

 
 

Haloarchaea

 
 
 
 
 
 
 

"Altiarchaeota"

 
DPANN
 
 

Diapherotrites

 
 

Micrarchaeota

 
 
 
 

Undinarchaeota

 
 
 

Aenigmarchaeota

 
 
 
 

Nanoarchaeota

 
 

Parvarchaeota

 
 
 
 

Mamarchaeota

 
 
 

Pacearchaeota

 
 

Woesearchaeota

 
 
 
 
 
 
 
 
 
 
 
 
 
Proteoarchaeota
 

TACK

 
Asgard
 
 

Lokiarchaeota

 
 
 

Odinarchaeota

 
 

Thorarchaeota

 
 
 
 
 

Heimdallarchaeota

 
(+α─Proteobacteria)

Eukaryota

 
 
 
 
 

A third phylogeny by Annotree[18] and GTDB release 05-RS95 (17 July 2020).[19]

Archaea
 

"DPANN"

 
 
Proteoarchaeota
"Filarchaeota"
 

"Thermoproteota"

 
 
 

Asgardaeota

 
 
"Euryarchaeida"
 
Hydrothermarchaeota

"Hydrothermarchaeia" (MBG-E)

 
 
Hadarchaeota

"Hadarchaeia" (SAGMEG)

 
"Methanobacteriota"
"Acherontia"

Thermococci

 
"Methanomada"
 

Methanopyri

 
 
 

Methanococci

 
 

Methanobacteria

 
 
(Class I Methanogens)
 
 
 
"Neoeuryarchaeota"
"Thermoplasmatota"
 

"Poseidoniia" (MGII, MGIII)[20]

 
 

Thermoplasmata

 
 
"Halobacteriota"
 

Methanonatronarchaeia (SA1)

 
 
 

Archaeoglobi

 
 
 

"Methanoliparia"

 
 
 

"Syntropharchaeia" (ANME-1, ANME-2)

 
 
 
 

"Methanocellia"

 
 

"Methanosarcinia"

 
 
 
 

Methanomicrobia

 
 

Halobacteria

 
 
 
 
 
 
 
 
"Euryarchaeota" s.l.
 
 
Euryarchaeota s.s.

See also

References

  1. ↑ Woese CR, Kandler O, Wheelis ML (June 1990). "Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya". Proceedings of the National Academy of Sciences of the United States of America. 87 (12): 4576–9. Bibcode:1990PNAS...87.4576W. doi:10.1073/pnas.87.12.4576. PMC 54159. PMID 2112744.
  2. ↑ Castelle CJ, Banfield JF. (2018). "Major New Microbial Groups Expand Diversity and Alter our Understanding of the Tree of Life". Cell. 172 (6): 1181–1197. doi:10.1016/j.cell.2018.02.016. PMID 29522741.{{cite journal}}: CS1 maint: uses authors parameter (link)
  3. ↑ Anja Spang, Eva F. Caceres, Thijs J. G. Ettema: Genomic exploration of the diversity, ecology, and evolution of the archaeal domain of life. In: Science Volume 357 Issue 6351, eaaf3883, 11 Aug 2017, doi:10.1126/science.aaf3883
  4. ↑ Sometines misspelled as Theinoarchaea: Catherine Badel, Gaël Erauso, Annika L. Gomez, Ryan Catchpole, Mathieu Gonnet, Jacques Oberto, Patrick Forterre, Violette Da Cunha: The global distribution and evolutionary history of the pT26‐2 archaeal plasmid family. In: environmental microbiology. sfam 10 Sep 2019. doi:10.1111/1462-2920.14800
  5. ↑ Petitjean, C.; Deschamps, P.; López-García, P.; Moreira, D. (2014). "Rooting the domain Archaea by phylogenomic analysis supports the foundation of the new kingdom Proteoarchaeota". Genome Biol. Evol. 7 (1): 191–204. doi:10.1093/gbe/evu274. PMC 4316627. PMID 25527841.
  6. 1 2 3 Cavalier-Smith, Thomas; Chao, Ema E-Yung (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.
  7. ↑ Hogan CM (2010). E. Monosson, C. Cleveland (eds.). "Archaea". Encyclopedia of Earth. National Council for Science and the Environment. Retrieved 18 August 2017.
  8. 1 2 3 4 Bomberg M, Timonen S (October 2007). "Distribution of cren- and euryarchaeota in scots pine mycorrhizospheres and boreal forest humus". Microbial Ecology. 54 (3): 406–16. doi:10.1007/s00248-007-9232-3. PMID 17334967. S2CID 19425171.
  9. ↑ Lincoln SA, Wai B, Eppley JM, Church MJ, Summons RE, DeLong EF (July 2014). "Planktonic Euryarchaeota are a significant source of archaeal tetraether lipids in the ocean". Proceedings of the National Academy of Sciences of the United States of America. 111 (27): 9858–63. Bibcode:2014PNAS..111.9858L. doi:10.1073/pnas.1409439111. PMC 4103328. PMID 24946804.
  10. 1 2 Garrity GM, Holt JG (2015). "Euryarchaeota phy. nov.". In Whitman WB (ed.). Bergey's Manual of Systematics of Archaea and Bacteria. John Wiley & Sons. doi:10.1002/9781118960608. ISBN 9781118960608.
  11. ↑ Iverson V, Morris RM, Frazar CD, Berthiaume CT, Morales RL, Armbrust EV (February 2012). "Untangling genomes from metagenomes: revealing an uncultured class of marine Euryarchaeota". Science. 335 (6068): 587–90. Bibcode:2012Sci...335..587I. doi:10.1126/science.1212665. PMID 22301318. S2CID 31381073.
  12. ↑ Korzhenkov AA, Toshchakov SV, Bargiela R, Gibbard H, Ferrer M, Teplyuk AV, Jones DL, Kublanov IV, Golyshin PN, Golyshina OV (January 2019). "Archaea dominate the microbial community in an ecosystem with low-to-moderate temperature and extreme acidity". Microbiome. 7 (1): 11. doi:10.1186/s40168-019-0623-8. PMC 6350386. PMID 30691532.
  13. 1 2 'The All-Species Living Tree' Project."16S rRNA-based LTP release 121 (full tree)" (PDF). Silva Comprehensive Ribosomal RNA Database. Archived from the original (PDF) on 2015-09-23. Retrieved 2017-08-09.
  14. 1 2 Nina Dombrowski, Jun-Hoe Lee, Tom A Williams, Pierre Offre, Anja Spang (2019). Genomic diversity, lifestyles and evolutionary origins of DPANN archaea. Nature.
  15. 1 2 Jordan T. Bird, Brett J. Baker, Alexander J. Probst, Mircea Podar, Karen G. Lloyd (2017). Culture Independent Genomic Comparisons Reveal Environmental Adaptations for Altiarchaeales. Frontiers.
  16. ↑ Euzéby JP. "Euryarchaeota". List of Prokaryotic names with Standing in Nomenclature (LPSN). Retrieved 2017-08-09.
  17. ↑ Sayers; et al. "Euryarchaeota". Taxonomy Browser. National Center for Biotechnology Information (NCBI) taxonomy database. Retrieved 2017-08-09.
  18. ↑ Mendler, K; Chen, H; Parks, DH; Hug, LA; Doxey, AC (2019). "AnnoTree: visualization and exploration of a functionally annotated microbial tree of life". Nucleic Acids Research. 47 (9): 4442–4448. doi:10.1093/nar/gkz246. PMC 6511854. PMID 31081040.
  19. ↑ "GTDB release 05-RS95". Genome Taxonomy Database.
  20. ↑ NCBI: Candidatus Poseidoniia (class)

Further reading

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