Protein material costs: single atoms can make an evolutionary difference

Trends in Genetics

Volumn 25, Issue 1, 2009, Pages 5-8

  Bragg, Jason G ^a,b   Wagner, Andreas ^c,d,e  

^a UNIVERSITY OF NEW MEXICO   (United States)

^b Massachusetts Institute of Technology Cambridge   (United States)

^c UNIVERSITY OF ZURICH   (Switzerland)

^d SANTA FE INSTITUTE   (United States)

^e SWISS INSTITUTE OF BIOINFORMATICS   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA;

AMINO ACID SUBSTITUTION; ATOM; GENE EXPRESSION; GENE MUTATION; MOLECULAR EVOLUTION; NATURAL SELECTION; PRIORITY JOURNAL; PROTEIN SYNTHESIS; SACCHAROMYCES CEREVISIAE; SHORT SURVEY;

AMINO ACID SUBSTITUTION; EVOLUTION, MOLECULAR; GENE EXPRESSION; GENES, FUNGAL; MUTATION; RNA, FUNGAL; RNA, MESSENGER; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SELECTION (GENETICS);

SACCHAROMYCES CEREVISIAE;

EID: 58149354386     PISSN: 01689525     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tig.2008.10.007     Document Type: Short Survey

References (23)

1. Sterner R.W., and Elser J.J. Ecological Stoichiometry (2002), Princeton University Press
2. Mazel D., and Marlière P. Adaptive eradication of methionine and cysteine from cyanobacterial light-harvesting proteins. Nature 341 (1989) 245-248
3. Baudouin-Cornu P., et al. Molecular evolution of protein atomic composition. Science 293 (2001) 297-300
4. Fauchon M., et al. Sulfur sparing in the yeast proteome in response to sulfur demand. Mol. Cell 9 (2002) 713-723
5. Panina E.M., et al. Comparative genomics of bacterial zinc regulons: enhanced ion transport, pathogenesis and rearrangement of ribosomal proteins. Proc. Natl. Acad. Sci. U. S. A. 100 (2003) 9912-9917
6. Elser J.J., et al. Signatures of ecological resource availability in the animal and plant proteomes. Mol. Biol. Evol. 23 (2006) 1946-1951
7. Bragg J.G., and Wagner A. Protein carbon content evolves in response to carbon availability and may influence the fate of duplicated genes. Proc. R. Soc. Lond. B. Biol. Sci. 274 (2007) 1063-1070
8. Holstege F.C.P., et al. Dissecting the regulatory circuitry of a eukaryotic genome. Cell 95 (1998) 717-728
9. Arava Y., et al. Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. U. S. A. 100 (2003) 3889-3894
10. Förster J., et al. Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network. Genome Res. 13 (2003) 244-253
11. Ghaemmaghami S., et al. Global analysis of protein expression in yeast. Nature 425 (2003) 737-741
12. Kimura M. The Neutral Theory of Molecular Evolution (1983), Cambridge University Press
13. Hartl D.L., et al. Limits of adaptation: the evolution of selective neutrality. Genetics 111 (1985) 655-674
14. Petrov D.A., and Hartl D.L. Pseudogene evolution and natural selection for a compact genome. J. Hered. 91 (2000) 221-227
15. Johnson L.J., et al. Population genetics of the wild yeast Saccharomyces paradoxus. Genetics 166 (2004) 43-52
16. Drake J.W., et al. Rates of spontaneous mutation. Genetics 148 (1998) 1667-1686
17. Akashi H., and Gojobori T. Metabolic efficiency and amino acid composition in the proteomes of Escherichia coli and Bacillus subtilis. Proc. Natl. Acad. Sci. U. S. A. 99 (2002) 3695-3700
18. Wagner A. Energy constraints on the evolution of gene expression. Mol. Biol. Evol. 22 (2005) 1365-1374
19. Papp B., et al. Evolution of cis-regulatory elements in duplicated genes of yeast. Trends Genet. 19 (2003) 417-422
20. Vitkup D., et al. Influence of metabolic network structure and function on enzyme evolution. Genome Biol. 7 (2006) R39
21. Force A., et al. Preservation of duplicate genes by complementary, degenerative mutations. Genetics 151 (1999) 1531-1545
22. Pardee A.B. Purification and properties of a sulfate-binding protein from Salmonella typhimurium. J. Biol. Chem. 241 (1966) 5886-5892
23. Scheibel T., et al. S. cerevisiae and sulfur: a unique way to deal with the environment. FASEB J. 11 (1997) 917-921