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Inferring the palaeoenvironment of ancient bacteria on the basis of resurrected proteins

Nature volume 425, pages 285288 (18 September 2003) | Download Citation

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Abstract

Features of the physical environment surrounding an ancestral organism can be inferred by reconstructing sequences1,2,3,4,5,6,7,8,9 of ancient proteins made by those organisms, resurrecting these proteins in the laboratory, and measuring their properties. Here, we resurrect candidate sequences for elongation factors of the Tu family (EF-Tu) found at ancient nodes in the bacterial evolutionary tree, and measure their activities as a function of temperature. The ancient EF-Tu proteins have temperature optima of 55–65 °C. This value seems to be robust with respect to uncertainties in the ancestral reconstruction. This suggests that the ancient bacteria that hosted these particular genes were thermophiles, and neither hyperthermophiles nor mesophiles. This conclusion can be compared and contrasted with inferences drawn from an analysis of the lengths of branches in trees joining proteins from contemporary bacteria10, the distribution of thermophily in derived bacterial lineages11, the inferred G + C content of ancient ribosomal RNA12, and the geological record combined with assumptions concerning molecular clocks13. The study illustrates the use of experimental palaeobiochemistry and assumptions about deep phylogenetic relationships between bacteria to explore the character of ancient life.

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Acknowledgements

We thank M. Miyamoto, J. Aris, A. Falcon, S. Sassi, C. West and Z. Yang for discussions and assistance with our research. We also thank C. Knudson and A. M. Sanangelantoni for providing EF clones. Funding is provided by the National Research Council and NASA's Astrobiology Institute (E.A.G.), and the NIH and NASA (S.A.B.).

Author information

Author notes

    • J. Michael Thomson

    Present address: Department of Cell and Developmental Biology, University of North Carolina, Chapel Hill, North Carolina 27599, USA

Affiliations

  1. NASA Astrobiology Institute, University of Florida, Gainesville, Florida 32611-7200, USA

    • Eric A. Gaucher
    •  & Steven A. Benner
  2. Department of Anatomy and Cell Biology, College of Medicine, University of Florida, Gainesville, Florida 32611-7200, USA

    • J. Michael Thomson
    •  & Steven A. Benner
  3. Department of Chemistry, University of Florida, Gainesville, Florida 32611-7200, USA

    • Michelle F. Burgan
    •  & Steven A. Benner

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Competing interests

The authors declare that they have no competing financial interests.

Corresponding author

Correspondence to Eric A. Gaucher.

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https://doi.org/10.1038/nature01977

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