Palaeotemperature trend for Precambrian life inferred from resurrected proteins (original) (raw)

References

  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)
    Article Google Scholar
  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)
    Article ADS Google Scholar
  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)
    Article CAS ADS Google Scholar
  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)
    Article CAS ADS Google Scholar
  5. Robert, F. & Chaussidon, M. A palaeotemperature curve for the Precambrian oceans based on silicon isotopes in cherts. Nature 443, 969–972 (2006)
    Article CAS ADS Google Scholar
  6. Shen, Y., Buick, R. & Canfield, D. E. Isotopic evidence for microbial sulphate reduction in the early Archaean era. Nature 410, 77–81 (2001)
    Article CAS ADS Google Scholar
  7. Gaucher, E. A. in Ancestral Sequence Reconstruction (ed. Liberles, D.A.) 20–33 (Oxford Univ. Press, Oxford, 2007)
    Book Google Scholar
  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)
    Article CAS ADS Google Scholar
  9. Liberles, D. A. Ancestral Sequence Reconstruction (Oxford Univ. Press, Oxford, 2007)
    Book Google Scholar
  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)
    Article ADS Google Scholar
  11. Felsenstein, J. Cases in which parsimony or compatibility methods will be positively misleading. Syst. Zool. 27, 401–410 (1978)
    Article Google Scholar
  12. Kelchner, S. A. & Thomas, M. A. Model use in phylogenetics: nine key questions. Trends Ecol. Evol. 22, 87–94 (2007)
    Article Google Scholar
  13. Brooks, D. J. & Gaucher, E. A. in Ancestral Sequence Reconstruction (ed. Liberles, D.A.) 200–207 (Oxford Univ. Press, Oxford, 2007)
    Book Google Scholar
  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)
    Article CAS Google Scholar
  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)
    Article CAS Google Scholar
  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)
    Article Google Scholar
  17. Ciccarelli, F. D. et al. Toward automatic reconstruction of a highly resolved tree of life. Science 311, 1283–1287 (2006)
    Article CAS ADS Google Scholar
  18. Brochier, C. & Philippe, H. Phylogeny: a non-hyperthermophilic ancestor for Bacteria. Nature 417, 244 (2002)
    Article CAS ADS Google Scholar
  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)
    Book Google Scholar
  20. Hedges, S. B. et al. A genomic timescale for the origin of eukaryotes. BMC Evol. Biol. 1, 4 (2001)
    Article CAS Google Scholar
  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)
    Article CAS Google Scholar
  22. Hoyle, F. History of Earth. Q. J. R. Astron. Soc. 13, 328–345 (1972)
    ADS Google Scholar
  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)
    Article ADS Google Scholar
  24. Kasting, J. F. et al. Paleoclimates, ocean depth, and the oxygen isotopic composition of seawater. Earth Planet. Sci. Lett. 252, 82–93 (2006)
    Article CAS ADS Google Scholar
  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)
    CAS PubMed PubMed Central Google Scholar
  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)
    Article CAS Google Scholar
  27. Yang, Z. H. PAML: a program package for phylogenetic analysis by maximum likelihood. Comput. Appl. Biosci. 13, 555–556 (1997)
    CAS PubMed Google Scholar
  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)
    CAS PubMed Google Scholar
  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)
    Article Google Scholar
  30. Studier, F. W. Protein production by auto-induction in high density shaking cultures. Protein Expr. Purif. 41, 207–234 (2005)
    Article CAS Google Scholar

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