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Entrez PubMed Nucleotide Protein Genome Structure PMC Taxonomy BioCollections
Entrez records
Database name Direct links Subtree links Links from type
BioProject 18 3,717 -
BioSample 47 88,596 -
Conserved Domains 835 1,908 -
GEO DataSets 365 7,034 -
Gene - 2,192,174 -
Identical Protein Groups 33 20,820,926 -
Nucleotide 5 1,714,658 53,163
PubChem BioAssay 2 98 -
PMC 22,006 52,146 -
Protein 528 10,411,865 -
SRA 35 16,698 -
Structure 2 6,252 -
Taxonomy 15,126 15,126 -

Archaea

Taxonomy ID: 2157 (for references in articles please use NCBI:txid2157)
current name
Archaea Woese et al. 2024 in [Göker M & Oren A (2024)]
homotypic synonym:
"Archaea" Woese et al. 1990 , effective name  1) in [Woese CR et al. (1990)]
NCBI BLAST name: archaea
Rank: domain
Genetic code: Translation table 11 (Bacterial, Archaeal and Plant Plastid)
Other names:
heterotypic synonym Metabacteria
heterotypic synonym Mendosicutes
heterotypic synonym "Archaebacteria" (sic) Woese and Fox 1977 , effective name  2)
heterotypic synonym "Archaebiota" Luketa 2012 in [Luketa S (2012)]
in-part Prokaryotae
in-part Prokaryota
in-part Procaryotae
in-part Monera
in-part prokaryotes
in-part prokaryote
blast name archaea
Lineage(full)
cellular organisms

Notes:

  • 1) This taxonomic name has been effectively published but not validly published under the rules of the International Code of Nomenclature of Prokaryotes (Bacteriological Code).
  • 2) This taxonomic name has been effectively published but not validly published under the rules of the International Code of Nomenclature of Prokaryotes (Bacteriological Code).

Comments and References:

Woese CR et al. (1990) , doi: 10.1073/pnas.87.12.4576 , Pubmed: abstract
Woese, C.R., Kandler, O., and Wheelis, M.L. "Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya." Proc. Natl. Acad. Sci. USA (1990) 87(12):4576-4579.
Göker M & Oren A (2024) , Pubmed: abstract
Göker, M., and Oren, A. "Valid publication of names of two domains and seven kingdoms of prokaryotes." Int. J. Syst. Evol. Microbiol. (2024) 74(1):006242.
Luketa S (2012)
Achenbach-Richter L & Woese CR (1988)
Achenbach-Richter, L., and Woese, C.R. "The ribosomal gene spacer region in archaebacteria." Syst. Appl. Microbiol. (1988) 10:211-214.
Christensen H et al. (2000)
Christensen, H., Angen, O., Mutters, R., Olsen, J.E., and Bisgaard, M. "DNA-DNA hybridization determined in micro-wells using covalent attachment of DNA." Int. J. Syst. Evol. Microbiol. (2000) 50:1095-1102.
Christensen H et al. (2001)
Christensen, H., Bisgaard, M., Frederiksen, W., Mutters, R., Kuhnert, P., and Olsen, J.E. "Is characterization of a single isolate sufficient for valid publication of a new genus or species? Proposal to modify recommendation 30b of the Bacteriological Code (1990 Revision)." Int. J. Syst. Evol. Microbiol. (2001) 51:2221-2225.
Clayton RA et al. (1995)
Clayton, R.A., Sutton, G., Hinkle, P.S. Jr, Bult, C., and Fields, C. "Intraspecific variation in small-subunit rRNA sequences in GenBank: why single sequences may not adequately represent prokaryotic taxa." Int. J. Syst. Bacteriol. (1995) 45:595-599.
Dalevi D et al. (2001)
Dalevi, D., Hugenholtz, P., and Blackall, L.L. "A multiple-outgroup approach to resolving division-level phylogenetic relationships using 16S rDNA data." Int. J. Syst. Evol. Microbiol. (2001) 51:385-391.
Euzeby JP (1997b)
Euzeby, J.P. "List of Bacterial Names with Standing in Nomenclature: a folder available on the Internet." Int. J. Syst. Bacteriol. (1997) 47:590-592.
Göker M et al. (2022)
Göker, M., Moore, E.R.B., Oren, A., and Trujillo, M.E. "Status of the SeqCode in the International Journal of Systematic and Evolutionary Microbiology." Int. J. Syst. Evol. Microbiol. (2022) 72(12):005754.
Gurtler V & Mayall BC (2001)
Gurtler, V., and Mayall, B.C. "Genomic approaches to typing, taxonomy and evolution of bacterial isolates." Int. J. Syst. Evol. Microbiol. (2001) 51:3-16
Hansmann S & Martin W (2000)
Hansmann, S., and Martin, W. "Phylogeny of 33 ribosomal and six other proteins encoded in an ancient gene cluster that is conserved across prokaryotic genomes: influence of excluding poorly alignable sites from analysis." Int. J. Syst. Evol. Microbiol. (2000) 50:1655-1663.
Keswani J & Whitman WB (2001)
Keswani, J., and Whitman, W.B. "Relationship of 16S rRNA sequence similarity to DNA hybridization in prokaryotes." Int. J. Syst. Evol. Microbiol. (2001) 51:667-678.
McGill TJ et al. (1986)
McGill, T.J., Jurka, J., Sobieski, J.M., Pickett, M.H., Woese, C.R., and Fox, G.E. "Characteristic archaebacterial 16S rRNA oligonucleotides." Syst. Appl. Microbiol. (1986) 7:194-197.
Murray RG & Schleifer KH (1994)
Murray, R.G., and Schleifer, K.H. "Taxonomic notes: a proposal for recording the properties of putative taxa of procaryotes." Int. J. Syst. Bacteriol. (1994) 44(1):174-176.
Palys T et al. (1997)
Palys, T., Nakamura, L.K., and Cohan, F.M. "Discovery and classification of ecological diversity in the bacterial world: the role of DNA sequence data." Int. J. Syst. Bacteriol. (1997) 47:1145-1156.
Petitjean C et al. (2015)
Petitjean, C., Deschamps, P., Lopez-GarcIa, P., and Moreira, D. "Rooting the domain Archaea by phylogenomic analysis supports the foundation of the new kingdom Proteoarchaeota." Genome Biol. Evol. (2015) 7:191-204.
Stackebrandt E et al. (2002)
Stackebrandt, E., Frederiksen, W., Garrity, G.M., Grimont, P.A., Kampfer, P., Maiden, M.C., Nesme, X., Rossello-Mora, R., Swings, J., Truper, H.G., Vauterin, L., Ward, A.C., and Whitman, W.B. "Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology." Int. J. Syst. Evol. Microbiol. (2002) 52:1043-1047.
Sutcliffe IC et al. (2020)
Sutcliffe, I.C., Dijkshoorn, L., Whitman, W.B., Executive Board OBOTI. "Minutes of the International Committee on Systematics of Prokaryotes online discussion on the proposed use of gene sequences as type for naming of prokaryotes, and outcome of vote." Int. J. Syst. Evol. Microbiol. (2020) 70(7):4416-4417.
Tindall BJ (1999b)
Tindall, B.J. "Proposals to update and make changes to the Bacteriological Code." Int. J. Syst. Bacteriol. (1999) 49:1309-1312. [No abstract available.]
Tindall BJ (1999c)
Tindall, B.J. "Misunderstanding the Bacteriological Code." Int. J. Syst. Bacteriol. (1999) 49:1313-1316.
Tindall BJ (1999d)
Tindall, B.J. "Proposal to change Rule 18a, Rule 18f and Rule 30 to limit the retroactive consequences of changes accepted by the ICSB." Int. J. Syst. Bacteriol. (1999) 49:1321-1322. [No abstract available.]
Tindall BJ (1999e)
Tindall, B.J. "Proposal to change the Rule governing the designation of type strains deposited under culture collection numbers allocated for patent purposes." Int. J. Syst. Bacteriol. (1999) 49:1317-1319. [No abstract available.]
Truper HG (1994)
Truper, H.G., "Taxonomic notes: Names for higher taxa and their impact on the Code of Nomenclature of Bacteria." Int. J. Syst. Bacteriol. (1994) 368-369. [No PubMed record available.]
Winker S & Woese CR (1991)
Winker, S., and Woese, C.R. "A definition of the domains Archaea, Bacteria and Eucarya in terms of small subunit ribosomal RNA characteristics." Syst. Appl. Microbiol. (1991) 14:305-310.
Woese CR & Fox GE (1977)
Woese, C.R., and Fox, G.E. "Phylogenetic structure of the prokaryotic domain: the primary kingdoms." Proc. Natl. Acad. Sci. U S A (1977) 74:5088-5090.
Woese CR & Olsen GJ (1984)
Woese, C.R., and Olsen, G.J. "The phylogenetic relationships of three sulfur dependent archaebacteria." Syst. Appl. Microbiol. (1984) 5:97-105.
Xu HX et al. (2000)
Xu, H.X., Kawamura, Y., Li, N., Zhao, L., Li, T.M., Li, Z.Y., Shu, S., and Ezaki, T. "A rapid method for determining the G+C content of bacterial chromosomes by monitoring fluorescence intensity during DNA denaturation in a capillary tube." Int. J. Syst.Evol. Microbiol. (2000) 50:1463-1469.
Young JM (2000)
Young, J.M. "Suggestions for avoiding on-going confusion from the Bacteriological Code." Int. J. Syst. Evol. Microbiol. (2000) 50:1687-1689. [No abstract available.]
Young JM (2001)
Young, J.M. "Implications of alternative classifications and horizontal gene transfer for bacterial taxonomy." Int. J. Syst. Evol. Microbiol. (2001) 51:945-953.

External Information Resources (NCBI LinkOut)

LinkOut Subject LinkOut Provider
Archaea taxonomy/phylogenetic Encyclopedia of life
GOLD: Go0359038 organism-specific Genomes On Line Database
Show Biotic Interactions taxonomy/phylogenetic Global Biotic Interactions
2721755899: Unclassified archaeon DRTY7 bin_35 organism-specific Integrated Microbial Genomes
2770939354: unclassified Archaeon Obs2_genome_025 Obs2_genome_025 organism-specific Integrated Microbial Genomes
2770939337: unclassified Archaeon Obs2_genome_008 Obs2_genome_008 organism-specific Integrated Microbial Genomes
2721755900: Unclassified archaeon JZ bin_30 organism-specific Integrated Microbial Genomes
2721755898: Unclassified archaeon JZ bin_50 organism-specific Integrated Microbial Genomes
2767802456: Unclassified archaeon Obs2_genome_008 organism-specific Integrated Microbial Genomes
2770939343: unclassified Archaeon Obs2_genome_014 Obs2_genome_014 organism-specific Integrated Microbial Genomes
2770939652: unclassified archaeon BinDm68 organism-specific Integrated Microbial Genomes
2721755897: Unclassified archaeon JZ bin_4 organism-specific Integrated Microbial Genomes
2716884328: Uncultured marine archaeon AG-316-A15 organism-specific Integrated Microbial Genomes
2721755896: Unclassified archaeon DRTY7 bin_37 organism-specific Integrated Microbial Genomes
2770939355: unclassified Archaeon Obs2_genome_026 Obs2_genome_026 organism-specific Integrated Microbial Genomes
2770939332: unclassified Archaeon Obs2_genome_003 Obs2_genome_003 organism-specific Integrated Microbial Genomes
2770939353: unclassified Archaeon Obs2_genome_024 Obs2_genome_024 organism-specific Integrated Microbial Genomes
2770939362: unclassified Archaeon Obs2_genome_033 Obs2_genome_033 organism-specific Integrated Microbial Genomes
2721755901: Unclassified archaeon JZ bin_52 organism-specific Integrated Microbial Genomes
2651870089: unclassified Archaea Bin 62 organism-specific Integrated Microbial Genomes
Monera taxonomy/phylogenetic Integrated Taxonomic Information System
Archaea taxonomy/phylogenetic Lifemap
Bergey's Taxonomic Outline taxonomy/phylogenetic NCBI taxonomy bookmarks
BNU taxonomy/phylogenetic NCBI taxonomy bookmarks
RDP II taxonomy/phylogenetic NCBI taxonomy bookmarks
European rRNA Database taxonomy/phylogenetic NCBI taxonomy bookmarks
The Prokaryotes taxonomy/phylogenetic NCBI taxonomy bookmarks
IJSEM taxonomy/phylogenetic NCBI taxonomy bookmarks
Bergey's Trust taxonomy/phylogenetic NCBI taxonomy bookmarks
SILVA rRNA database taxonomy/phylogenetic NCBI taxonomy bookmarks
ICSP taxonomy/phylogenetic NCBI taxonomy bookmarks
OMA taxonomy/phylogenetic OMA Browser: Orthologous MAtrix
Archaea Woese, Kandler & Wheelis, 1990 taxonomy/phylogenetic Ocean Biogeographic Information System
Archaea | SeqCode Registry taxonomy/phylogenetic SeqCode Registry
ToL taxonomy/phylogenetic Tree of Life
Archaea taxonomy/phylogenetic TreeBase
UCMP taxonomy/phylogenetic UCMP phylogeny exhibit
Archaea Woese, Kandler & Wheelis, 1990 taxonomy/phylogenetic World Register of Marine Species
Wikipedia taxonomy/phylogenetic iPhylo
Notes:
Groups interested in participating in the LinkOut program should visit the LinkOut home page.
A list of our current non-bibliographic LinkOut providers can be found here.

Disclaimer: The NCBI taxonomy database is not an authoritative source for nomenclature or classification - please consult the relevant scientific literature for the most reliable information.

Reference: How to cite this resource - Schoch CL, et al. NCBI Taxonomy: a comprehensive update on curation, resources and tools. Database (Oxford). 2020: baaa062. PubMed: 32761142 PMC: PMC7408187.


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