Palaeotemperature trend for Precambrian life inferred from resurrected proteins

Nature

Volumn 451, Issue 7179, 2008, Pages 704-707

  Gaucher, Eric A ^a   Govindarajan, Sridhar ^b   Ganesh, Omjoy K ^c  

^a FOUNDATION FOR APPLIED MOLECULAR EVOLUTION   (United States)

^b DNA20 Inc   (United States)

^c UNIVERSITY OF FLORIDA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ELONGATION FACTOR; ISOTOPE; OXYGEN; PROTEIN;

AMINO ACID; CHEMICAL COMPOSITION; EQUILIBRIUM; EXPERIMENTAL STUDY; GEOLOGICAL RECORD; OXYGEN ISOTOPE; PALEOTEMPERATURE; PRECAMBRIAN; PROTEIN; RESEARCH WORK;

AMINO ACID SEQUENCE; ARTICLE; ATMOSPHERIC DEPOSITION; COOLING; ENVIRONMENTAL TEMPERATURE; MODEL; MOLECULAR EVOLUTION; MOLECULAR PHYLOGENY; PRECAMBRIAN; PRIORITY JOURNAL; PROTEIN STABILITY; SEA; STATISTICAL ANALYSIS; THERMOSTABILITY;

EID: 38949093003     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature06510     Document Type: Article

References (30)

1. Buick, R., Dunlop, J. S. R. & Groves, D. I. Stromatolite recognition in ancient rocks - an appraisal of irregularly laminated structures in an early Archean chert-barite unit from North Pole, Western Australia. Alcheringa 5, 161-181 (1981).
2. Hofmann, H. J., Grey, K., Hickman, A. H. & Thorpe, R. I. Origin of 3.45 Ga coniform stromatolites in Warrawoona Group, Western Australia. Geol. Soc. Am. Bull. 111, 1256-1262 (1999).
3. Knauth, L. P. & Lowe, D. R. Oxygen ISOTOPE GEOCHEMISTRY OF CHERTS from Onverwacht Group (3.4 billion years), Transvaal, South Africa, with implications for secular variations in isotopic composition of cherts. Earth Planet. Sci. Lett. 41, 209-222 (1978).
4. Knauth, L. P. & Lowe, D. R. High Archean climatic temperature inferred from oxygen isotope geochemistry of cherts in the 3.5 Ga Swaziland Supergroup, South Africa. Geol. Soc. Am. Bull. 115, 566-580 (2003).
5. Robert, F. & Chaussidon, M. A palaeotemperature curve for the Precambrian oceans based on silicon isotopes in cherts. Nature 443, 969-972 (2006).
6. Shen, Y., Buick, R. & Canfield, D. E. Isotopic evidence for microbial sulphate reduction in the early Archaean era. Nature 410, 77-81 (2001).
7. Gaucher, E. A. in Ancestral Sequence Reconstruction (ed. Liberles, D.A.) 20-33 (Oxford Univ. Press, Oxford, 2007).
8. Gaucher, E. A., Thomson, J. M., Burgan, M. F. & Benner, S. A. Inferring the palaeoenvironment of ancient bacteria on the basis of resurrected proteins. Nature 425, 285-288 (2003).
9. Liberles, D. A. Ancestral Sequence Reconstruction (Oxford Univ. Press, Oxford, 2007).
10. Williams, P. D., Pollock, D. D., Blackburne, B. P. & Goldstein, R. A. Assessing the accuracy of ancestral protein reconstruction methods. PLoS Comput. Biol. 2, e69 (2006).
11. Felsenstein, J. Cases in which parsimony or compatibility methods will be positively misleading. Syst. Zool. 27, 401-410 (1978).
12. Kelchner, S. A. & Thomas, M. A. Model use in phylogenetics: nine key questions. Trends Ecol. Evol. 22, 87-94 (2007).
13. Brooks, D. J. & Gaucher, E. A. in Ancestral Sequence Reconstruction (ed. Liberles, D.A.) 200-207 (Oxford Univ. Press, Oxford, 2007).
14. Cavalier-Smith, T. The neomuran origin of archaebacteria, the negibacterial root of the universal tree and bacterial megaclassification. Int. J. Syst. Evol. Microbiol. 52, 7-76 (2002).
15. Gromiha, M. M., Oobatake, M. & Sarai, A. Important amino acid properties for enhanced thermostability from mesophilic to thermophilic proteins. Biophys. Chem. 82, 51-67 (1999).
16. Battistuzzi, F. U., Feijao, A. & Hedges, S. B. A genomic timescale of prokaryote evolution: insights into the origin of methanogenesis, phototrophy, and the colonization of land. BMC Evol. Biol. 4, 44 (2004).
17. Ciccarelli, F. D. et al. Toward automatic reconstruction of a highly resolved tree of life. Science 311, 1283-1287 (2006).
18. Brochier, C. & Philippe, H. Phylogeny: a non-hyperthermophilic ancestor for Bacteria. Nature 417, 244 (2002).
19. Williams, R. A. D. & da Costa, M. S. in The Prokaryotes (eds Balows, A., Truper, H.G., Dworkin, M., Harder, W. & Schleifer, K.-H.) 3745-3753 (Springer, New York, 1992).
20. Hedges, S. B. et al. A genomic timescale for the origin of eukaryotes. BMC Evol. Biol. 1, 4 (2001).
21. Graur, D. & Martin, W. Reading the entrails of chickens: molecular timescales of evolution and the illusion of precision. Trends Genet. 20, 80-86 (2004).
22. Hoyle, F. History of Earth. Q. J. R. Astron. Soc. 13, 328-345 (1972).
23. Jaffres, J. B. D., Shields, G. A. & Wallmann, K. The oxygen isotope evolution of seawater: a critical review of a long-standing controversy and an improved geological water cycle model for the past 3.4 billion years. Earth Sci. Rev. 83, 83-122 (2007).
24. Kasting, J. F. et al. Paleoclimates, ocean depth, and the oxygen isotopic composition of seawater. Earth Planet. Sci. Lett. 252, 82-93 (2006).
25. Ward, D. M., Ferris, M. J., Nold, S. C. & Bateson, M. M. A natural view of microbial biodiversity within hot spring cyanobacterial mat communities. Microbiol. Mol. Biol. Rev. 62, 1353-1370 (1998).
26. Altekar, G., Dwarkadas, S., Huelsenbeck, J. P. & Ronquist, F. Parallel metropolis coupled Markov chain Monte Carlo for Bayesian phylogenetic inference. Bioinformatics 20, 407-415 (2004).
27. Yang, Z. H. PAML: a program package for phylogenetic analysis by maximum likelihood. Comput. Appl. Biosci. 13, 555-556 (1997).
28. Dillon, P. J. & Rosen, C. A. A rapid method for the construction of synthetic genes using the polymerase chain reaction. Biotechniques 9, 298-300 (1990).
29. Villalobos, A., Ness, J. E., Gustafsson, C., Minshull, J. & Govindarajan, S. Gene Designer: a synthetic biology tool for constructing artificial DNA segments. BMC Bioinformatics 7, 285 (2006).
30. Studier, F. W. Protein production by auto-induction in high density shaking cultures. Protein Expr. Purif. 41, 207-234 (2005).