Early evolutionary relationships among known life forms inferred from elongation factor EF-2/EF-G sequences: phylogenetic coherence and structure of the archaeal domain - PubMed (original) (raw)

. 1992 May;34(5):396-405.

doi: 10.1007/BF00162996.

Affiliations

• PMID: 1602493
• DOI: 10.1007/BF00162996

Early evolutionary relationships among known life forms inferred from elongation factor EF-2/EF-G sequences: phylogenetic coherence and structure of the archaeal domain

P Cammarano et al. J Mol Evol. 1992 May.

Abstract

Phylogenies were inferred from both the gene and the protein sequences of the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria). All treeing methods used (distance-matrix, maximum likelihood, and parsimony), including evolutionary parsimony, support the archaeal tree and disprove the "eocyte tree" (i.e., the polyphyly and paraphyly of the Archaea). Distance-matrix trees derived from both the amino acid and the DNA sequence alignments (first and second codon positions) showed the Archaea to be a monophyletic-holophyletic grouping whose deepest bifurcation divides a Sulfolobus branch from a branch comprising Methanococcus, Halobacterium, and Thermoplasma. Bootstrapped distance-matrix treeing confirmed the monophyly-holophyly of Archaea in 100% of the samples and supported the bifurcation of Archaea into a Sulfolobus branch and a methanogen-halophile branch in 97% of the samples. Similar phylogenies were inferred by maximum likelihood and by maximum (protein and DNA) parsimony. DNA parsimony trees essentially identical to those inferred from first and second codon positions were derived from alternative DNA data sets comprising either the first or the second position of each codon. Bootstrapped DNA parsimony supported the monophyly-holophyly of Archaea in 100% of the bootstrap samples and confirmed the division of Archaea into a Sulfolobus branch and a methanogen-halophile branch in 93% of the bootstrap samples. Distance-matrix and maximum likelihood treeing under the constraint that branch lengths must be consistent with a molecular clock placed the root of the universal tree between the Bacteria and the bifurcation of Archaea and Eukarya. The results support the division of Archaea into the kingdoms Crenarchaeota (corresponding to the Sulfolobus branch and Euryarchaeota). This division was not confirmed by evolutionary parsimony, which identified Halobacterium rather than Sulfolobus as the deepest offspring within the Archaea.

PubMed Disclaimer

Similar articles

• Evolution of translational elongation factor (EF) sequences: reliability of global phylogenies inferred from EF-1 alpha(Tu) and EF-2(G) proteins.
  Creti R, Ceccarelli E, Bocchetta M, Sanangelantoni AM, Tiboni O, Palm P, Cammarano P. Creti R, et al. Proc Natl Acad Sci U S A. 1994 Apr 12;91(8):3255-9. doi: 10.1073/pnas.91.8.3255. Proc Natl Acad Sci U S A. 1994. PMID: 8159735 Free PMC article.
• The archaea monophyly issue: A phylogeny of translational elongation factor G(2) sequences inferred from an optimized selection of alignment positions.
  Cammarano P, Creti R, Sanangelantoni AM, Palm P. Cammarano P, et al. J Mol Evol. 1999 Oct;49(4):524-37. doi: 10.1007/pl00006574. J Mol Evol. 1999. PMID: 10486009
• Origin and early evolution of eukaryotes inferred from the amino acid sequences of translation elongation factors 1alpha/Tu and 2/G.
  Hashimoto T, Hasegawa M. Hashimoto T, et al. Adv Biophys. 1996;32:73-120. doi: 10.1016/0065-227x(96)84742-3. Adv Biophys. 1996. PMID: 8781286 Review. No abstract available.
• Archaeal genomics.
  Gaasterland T. Gaasterland T. Curr Opin Microbiol. 1999 Oct;2(5):542-7. doi: 10.1016/s1369-5274(99)00014-4. Curr Opin Microbiol. 1999. PMID: 10508726 Review.

Cited by

• Genetic analysis reveals a role for the C terminus of the Saccharomyces cerevisiae GTPase Snu114 during spliceosome activation.
  Brenner TJ, Guthrie C. Brenner TJ, et al. Genetics. 2005 Jul;170(3):1063-80. doi: 10.1534/genetics.105.042044. Epub 2005 May 23. Genetics. 2005. PMID: 15911574 Free PMC article.
• The effects of heavy meteorite bombardment on the early evolution--the emergence of the three domains of life.
  Gogarten-Boekels M, Hilario E, Gogarten JP. Gogarten-Boekels M, et al. Orig Life Evol Biosph. 1995 Jun;25(1-3):251-64. doi: 10.1007/BF01581588. Orig Life Evol Biosph. 1995. PMID: 7708385
• Evolution of translational elongation factor (EF) sequences: reliability of global phylogenies inferred from EF-1 alpha(Tu) and EF-2(G) proteins.
  Creti R, Ceccarelli E, Bocchetta M, Sanangelantoni AM, Tiboni O, Palm P, Cammarano P. Creti R, et al. Proc Natl Acad Sci U S A. 1994 Apr 12;91(8):3255-9. doi: 10.1073/pnas.91.8.3255. Proc Natl Acad Sci U S A. 1994. PMID: 8159735 Free PMC article.
• Nucleotide sequence of the genes encoding the subunits H, B, A' and A'' of the DNA-dependent RNA polymerase and the initiator tRNA from Thermoplasma acidophilum.
  Klenk HP, Renner O, Schwass V, Zillig W. Klenk HP, et al. Nucleic Acids Res. 1992 Oct 11;20(19):5226. doi: 10.1093/nar/20.19.5226. Nucleic Acids Res. 1992. PMID: 1408839 Free PMC article. No abstract available.
• The crystal structure of elongation factor G complexed with GDP, at 2.7 A resolution.
  Czworkowski J, Wang J, Steitz TA, Moore PB. Czworkowski J, et al. EMBO J. 1994 Aug 15;13(16):3661-8. doi: 10.1002/j.1460-2075.1994.tb06675.x. EMBO J. 1994. PMID: 8070396 Free PMC article.

References

1. 1. Science. 1967 Jan 20;155(3760):279-84 - PubMed
2. 1. Nature. 1987 May 28;327(6120):348-9 - PubMed
3. 1. Z Naturforsch C. 1989 Jul-Aug;44(7-8):641-50 - PubMed
4. 1. J Mol Evol. 1986;24(1-2):1-11 - PubMed
5. 1. Mol Biol Evol. 1988 May;5(3):217-36 - PubMed

Publication types

MeSH terms

Substances

LinkOut - more resources

• Molecular Biology Databases

  • FlyBase