Asgard (Archaea)

Asgard
Scientific classification Edit this classification
Domain: Archaea
Kingdom: Proteoarchaeota
Superphylum: Asgard
Katarzyna Zaremba-Niedzwiedzka [Wikidata], et al. 2017
Phyla

see text

Synonyms
  • "Asgardarchaeota" Violette Da Cunha et al. 2017
  • "Asgardaeota" Whitman 2018
  • "Eukaryomorpha" Fournier & Poole 2018[1]
  • Promethearchaeati Imachi et al. 2024
  • Promethearchaeota Imachi et al. 2024

Asgard or Asgardarchaeota[2] is a proposed superphylum belonging to the domain Archaea that contain eukaryotic signature proteins.[3] It appears that the eukaryotes, the domain that contains the animals, plants, and fungi, emerged within the Asgard,[4] in a branch containing the Heimdallarchaeota.[5] This supports the two-domain system of classification over the three-domain system.[6][7]

After including the kingdom category into ICNP, the only validly published name of this group is kingdom Promethearchaeati, containing only one phylum Promethearchaeota. All formerly proposed "phyla" would be de-ranked to classes in this framework.[8]

Discovery and nomenclature

In the summer of 2010, sediments were analysed from a gravity core taken in the rift valley on the Knipovich ridge in the Arctic Ocean, near the Loki's Castle hydrothermal vent site. Specific sediment horizons previously shown to contain high abundances of novel archaeal lineages were subjected to metagenomic analysis.[9][10] In 2015, an Uppsala University-led team proposed the Lokiarchaeota phylum based on phylogenetic analyses using a set of highly conserved protein-coding genes.[11] The group was named for the shape-shifting Norse god Loki, in an allusion to the hydrothermal vent complex from which the first genome sample originated.[12] The Loki of mythology has been described as "a staggeringly complex, confusing, and ambivalent figure who has been the catalyst of countless unresolved scholarly controversies",[13] analogous to the role of Lokiarchaeota in the debates about the origin of eukaryotes.[11][14]

In 2016, a University of Texas-led team discovered Thorarchaeota from samples taken from the White Oak River in North Carolina, named in reference to Thor, another Norse god.[15] Samples from Loki's Castle, Yellowstone National Park, Aarhus Bay, an aquifer near the Colorado River, New Zealand's Radiata Pool, hydrothermal vents near Taketomi Island, Japan, and the White Oak River estuary in the United States contained Odinarchaeota and Heimdallarchaeota;[3] following the Norse deity naming convention, these groups were named for Odin and Heimdall respectively. Researchers therefore named the superphylum containing these microbes "Asgard", after the home of the gods in Norse mythology.[3] Two Lokiarchaeota specimens have been cultured, enabling a detailed insight into their morphology.[16]

Description

Proteins

Asgard members encode many eukaryotic signature proteins, including novel GTPases, membrane-remodelling proteins like ESCRT and SNF7, a ubiquitin modifier system, and N-glycosylation pathway homologs.[3]

Asgard archaeons have a regulated actin cytoskeleton, and the profilins and gelsolins they use can interact with eukaryotic actins.[17][18] In addition, Asgard archaea tubulin from hydrothermal-living Odinarchaeota (OdinTubulin) was identified as a genuine tubulin. OdinTubulin forms protomers and protofilaments most similar to eukaryotic microtubules, yet assembles into ring systems more similar to FtsZ, indicating that OdinTubulin may represent an evolution intermediate between FtsZ and microtubule-forming tubulins.[19] They also seem to form vesicles under cryogenic electron microscopy. Some may have a PKD domain S-layer.[20] They also share the three-way ES39 expansion in LSU rRNA with eukaryotes.[21] Gene clusters or operons encoding ribosomal proteins are often less conserved in their organization in the Asgard group than in other Archaea, suggesting that the order of ribosomal protein coding genes may follow the phylogeny.[22]

Metabolism

Asgard archaea are generally obligate anaerobes, though Kariarchaeota, Gerdarchaeota and Hodarchaeota may be facultative aerobes.[24] They have a Wood–Ljungdahl pathway and perform glycolysis. Members can be autotrophs, heterotrophs, or phototrophs using heliorhodopsin.[23] One member, Candidatus Prometheoarchaeum syntrophicum, is syntrophic with a sulfur-reducing proteobacteria and a methanogenic archaea.[20]

The RuBisCO they have is not carbon-fixing, but likely used for nucleoside salvaging.[23]

Ecology

Asgard are widely distributed around the world, both geographically and by habitat. Many of the known clades are restricted to sediments, whereas Lokiarchaeota, Thorarchaeota and another clade occupy many different habitats. Salinity and depth are important ecological drivers for most Asgard archaea. Other habitats include the bodies of animals, the rhizosphere of plants, non-saline sediments and soils, the sea surface, and freshwater. In addition, Asgard are associated with several other microorganisms.[25]

Eukaryote-like features in subdivisions

The phylum Heimdallarchaeota was found in 2017 to have N-terminal core histone tails, a feature previously thought to be exclusively eukaryotic. Two other archaeal phyla, both outside of Asgard, were found to also have tails in 2018.[26]

In January 2020, scientists found Candidatus Prometheoarchaeum syntrophicum, a member of the Lokiarcheota, engaging in cross-feeding with two bacterial species. Drawing an analogy to symbiogenesis, they consider this relationship a possible link between the simple prokaryotic microorganisms and the complex eukaryotic microorganisms occurring approximately two billion years ago.[27][20]

Phylogeny

The phylogenetic relationships of the Asgard archaea have been studied by several teams in the 21st century.[5][4][28][24] Varying results have been obtained, for instance using 53 marker proteins from the Genome Taxonomy Database.[29][30][31] In 2023, Eme, Tamarit, Caceres and colleagues reported that the Eukaryota are deep within Asgard, as sister of Hodarchaeales within the Heimdallarchaeota.[32]


Eme et al. 2023[32] 09-RS220 (24 April 2024)[29][30][31]
Proteoarchaeota
Thermoproteati

Thermoproteota (TACK)

Promethearchaeati:

"Thorarchaeia" (MBG-B)

"Njordarchaeia"

"Odinarchaeia"

"Jordarchaeia"
"Jordarchaeales"

"Freyrarchaeaceae"

"Jordarchaeaceae"

"Baldrarchaeia"

"Hermodarchaeia"

Promethearchaeia

"Helarchaeales"

Promethearchaeales

"Sigynarchaeaceae"

Promethearchaeaceae
["Lokiarchaeaceae"]

"Sifarchaeia"

"Sifarchaeales"

"Borrarchaeales"

"Wukongarchaeia"

"Heimdallarchaeia"

"Hodarchaeales"

"Gerdarchaeales" (JABLTI01)

"Kariarchaeales"

"Heimdallarchaeales"

Promethearchaeota

Taxonomy

In the theory of symbiogenesis, a merger of an archaean and an aerobic bacterium created the eukaryotes, with aerobic mitochondria; a second merger added chloroplasts, creating the green plants.[33]

In the depicted scenario, the Eukaryota are deep in the tree of Asgard. A favored scenario is syntrophy, where one organism depends on the feeding of the other. An α-proteobacterium was incorporated to become the mitochondrion.[34] In culture, extant Asgard archaea form various syntrophic dependencies.[35] Gregory Fournier and Anthony Poole have proposed that Asgard is part of "the Eukaryote tree", forming a superphylum they call "Eukaryomorpha" defined by "shared derived characters" (eukaryote signature proteins).[36]

The taxonomy is uncertain and the phylum names are therefore somewhat speculative. The list of phyla is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN)[37] and National Center for Biotechnology Information (NCBI).[38]

Genomic elements

Viruses

Several family-level groups of viruses associated with Asgard archaea have been discovered using metagenomics.[39][40][41] The viruses were assigned to Lokiarchaeia, Thorarchaeia, Odinarchaeia and Helarchaeia hosts using CRISPR spacer matching to the corresponding protospacers within the viral genomes. Two groups of viruses (called 'verdandiviruses') are related to archaeal and bacterial viruses of the class Caudoviricetes, i.e., viruses with icosahedral capsids and helical tails;[39][41] two other distinct groups (called 'skuldviruses') are distantly related to tailless archaeal and bacterial viruses with icosahedral capsids of the realm Varidnaviria;[39][40] and the third group of viruses (called wyrdviruses) is related to archaea-specific viruses with lemon-shaped virus particles (family Halspiviridae).[39][40] The viruses have been identified in deep-sea sediments[39][41] and a terrestrial hot spring of the Yellowstone National Park.[40] All these viruses display very low sequence similarity to other known viruses but are generally related to the previously described prokaryotic viruses,[42] with no meaningful affinity to viruses of eukaryotes.[43][39]

Mobile genetic elements

In addition to viruses, several groups of cryptic mobile genetic elements have been discovered through CRISPR spacer matching to be associated with Asgard archaea of the Lokiarchaeia, Thorarchaeia and Heimdallarchaeota lineages.[39][44] These mobile elements do not encode recognizable viral hallmark proteins and could represent either novel types of viruses or plasmids.

See also

References

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Si ce bandeau n'est plus pertinent, retirez-le. Cliquez ici pour en savoir plus. Cet article ne cite pas suffisamment ses sources (mars 2009). Si vous disposez d'ouvrages ou d'articles de référence ou si vous connaissez des sites web de qualité traitant du thème abordé ici, merci de compléter l'article en donnant les références utiles à sa vérifiabilité et en les liant à la section « Notes et références ». En pratique : Quelles sources sont attendues ? Comm...

 

Национальное аэрокосмическое агентство Азербайджана Штаб-квартира Баку, ул. С. Ахундова, AZ 1115 Локация  Азербайджан Тип организации Космическое агентство Руководители Директор: Натиг Джавадов Первый заместитель генерального директора Тофик Сулейманов Основание Осн�...

 

أمينوفيلين الاسم النظامي 1,3-dimethyl-7H-purine-2,6-dione; ethane-1,2-diamine تداخل دوائي إريثروميسين،  وكلاريثروميسين،  وفلوكونازول،  وبنتوكسيفيلين،  وبنتوكسيفيلين،  وبنتوكسيفيلين،  وبنتوكسيفيلين،  ونورفلوكساسين،  ونورفلوكساسين،  ونورفلوكساسين،  ونورفلوكساسين، &...

Unincorporated community in California, United States For any other use, see Dixieland (disambiguation). 32°47′27″N 115°46′13″W / 32.79083°N 115.77028°W / 32.79083; -115.77028 Unincorporated community in California, United StatesDixielandUnincorporated communityDixieland was a stop on the San Diego and Arizona Railroad c. 1915DixielandLocation in CaliforniaShow map of CaliforniaDixielandDixieland (the United States)Show map of the United StatesCoordin...

 

American theoretical physicist (1904–1967) Oppenheimer redirects here. For the 2023 film, see Oppenheimer (film). For other uses, see Oppenheimer (disambiguation). J. Robert OppenheimerOppenheimer in 1944BornJulius Robert Oppenheimer(1904-04-22)April 22, 1904New York City, New York, U.S.DiedFebruary 18, 1967(1967-02-18) (aged 62)Princeton, New Jersey, U.S.Education Harvard University (AB) Christ's College, Cambridge University of Göttingen (PhD) Known for Atomic bomb Oppenheimer�...

 

Municipal building in Castlebar, County Mayo, Ireland Linenhall Arts CentreIonad Ealaíon Halla an LínéadaighLinenhall Arts CentreLinenhall Arts CentreLocation within IrelandGeneral informationArchitectural styleItalianate styleAddressLinenhall Street, CastlebarCountryIrelandCoordinates53°51′29″N 9°17′51″W / 53.8581°N 9.2975°W / 53.8581; -9.2975Completed1790 Linenhall Arts Centre (Irish: Ionad Ealaíon Halla an Línéadaigh), formerly Castlebar Town Hall ...

American TV series or program Blood FeudPromotional imageScreenplay byRobert BorisDirected byMike NewellStarringRobert BlakeCotter SmithTheme music composerFred SteinerCountry of originUnited StatesOriginal languageEnglishProductionProducersJoel GlickmanDaniel SelznickProduction locations20th Century Fox Studios - 10201 Pico Blvd., Century City, Los Angeles, CaliforniaEditorJohn FarrellRunning time210 minutesProduction company20th Century Fox TelevisionOriginal releaseNetworkSyndicationRelea...

 

Italian American DJ and record producer This article has multiple issues. Please help improve it or discuss these issues on the talk page. (Learn how and when to remove these template messages) This biography of a living person needs additional citations for verification. Please help by adding reliable sources. Contentious material about living persons that is unsourced or poorly sourced must be removed immediately from the article and its talk page, especially if potentially libelous.Find so...

 

Overview of place names in New Zealand Captain James Cook's map of New Zealand, showing a mixture of Māori names and names Cook bestowed himself Most New Zealand place names have a Māori or a British origin. Both groups used names to commemorate notable people, events, places from their homeland, and their ships, or to describe the surrounding area. It is unknown whether Māori had a name for the whole of New Zealand before the arrival of Europeans, but post-colonisation the name Aotearoa (...

Para otros usos de este término, véase Julio Verne (desambiguación). Julio Verne Julio Verne en 1878Información personalNombre de nacimiento Jules Gabriel Verne Nacimiento 8 de febrero de 1828Nantes, Reino de FranciaFallecimiento 24 de marzo de 1905 (77 años)Amiens, FranciaSepultura Cimetière de La Madeleine d'Amiens Residencia Nantes, París y Amiens Nacionalidad FrancésReligión Catolicismo Lengua materna Francés FamiliaPadres Pierre Gabriel Verne Sophie Allotte de La Fuye Có...

 

Grand Duke of Baden from 1907 to 1918 You can help expand this article with text translated from the corresponding article in German. (August 2012) Click [show] for important translation instructions. View a machine-translated version of the German article. Machine translation, like DeepL or Google Translate, is a useful starting point for translations, but translators must revise errors as necessary and confirm that the translation is accurate, rather than simply copy-pasting machine-tr...