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Taxonomy browser (Archaea)

Archaea

Taxonomy ID: 2157 (for references in articles please use NCBI:txid2157)
current name
"Archaea" Woese et al. 1990, effective name 1)
NCBI BLAST name: archaea
Rank: superkingdom
Genetic code: Translation table 11 (Bacterial, Archaeal and Plant Plastid)
Other names:
heterotypic synonym
Mendosicutes
heterotypic synonym
Metabacteria
heterotypic synonym
"Archaebacteria" (sic) Woese and Fox 1977, effective name 1)
in-part
Monera
in-part
Procaryotae
in-part
Prokaryota
in-part
Prokaryotae
in-part
prokaryote
in-part
prokaryotes
blast name
archaea
Lineage( full )
cellular organisms
   Entrez records   
Database name Subtree links Direct links
Nucleotide 872,340 5
Protein 6,187,113 90
Structure 4,960 2
Genome 1,679 -
Popset 4,122 1,214
Conserved Domains 1,656 642
GEO Datasets 4,623 297
PubMed Central 34,451 13,889
Gene 949,971 -
SRA Experiments 5,591 36
GEO Profiles 9,216 -
Protein Clusters 48,665 -
Identical Protein Groups 4,284,596 2
Bio Project 1,924 9
Bio Sample 9,378 47
Bio Systems 32,115 -
Assembly 3,797 -
Probe 190 5
PubChem BioAssay 84 -
Taxonomy 13,278 1

Notes:

Comments and References:

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.
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) 44:174-176.
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.
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.
Woese CR et al. (1990)
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) 87:4576-4579.
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
Show Biotic Interactions taxonomy/phylogenetic Global Biotic Interactions
42 records from this provider organism-specific Integrated Microbial Genomes
Monera taxonomy/phylogenetic Integrated Taxonomic Information System
Archaea taxonomy/phylogenetic Lifemap
10 records from this provider taxonomy/phylogenetic NCBI taxonomy bookmarks
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:
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