Cited by 753

The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.

Dosage sensitivity and the evolution of gene families in yeast

Papp, Balázs, Pál, Csaba, Hurst, Laurence D.·2003·Nature

Abstract

According to what we term the balance hypothesis, an imbalance in the concentration of the subcomponents of a protein-protein complex can be deleterious. If so, there are two consequences: first, both underexpression and overexpression of protein complex subunits should lower fitness, and second, the accuracy of transcriptional co-regulation of subunits should reflect the deleterious consequences of imbalance. Here we show that all these predictions are upheld in yeast (Saccharomyces cerevisiae). This supports the hypothesis that dominance is a by-product of physiology and metabolism rather than the result of selection to mask the deleterious effects of mutations. Beyond this, single-gene duplication of protein subunits is expected to be harmful, as this, too, leads to imbalance. As then expected, we find that members of large gene families are rarely involved in complexes. The balance hypothesis therefore provides a single theoretical framework for understanding components both of dominance and of gene family size.

Overview

Integrity signals

Registry

Crossref · 10.1038/nature01771

Cites

4 of 4 references verified0 citation errors · 0 not checkable

Statistics

Recomputing p-values needs the paper’s full text.

Verification

Claims the paper makes

This paper’s full text isn’t openly available, so its claims and self-check weren’t run. The registry and citation checks still apply.

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

  • Proteins participating in multimeric functional complexes are often sensitive to expression levels since the balance of subunits is crucial for correctly assembling the oligomeric structure.

    “Proteins participating in multimeric functional complexes are often sensitive to expression levels since the balance of subunits is crucial for correctly assembling the oligomeric structure (Papp et al., 2003).”

Citations

Cites

Flagged first, then by citations

Research works printed but not linked: 27

  1. Veitia, R. A. Exploring the etiology of haploinsufficiency. BioEssays 24, 175–184 (2002) · DOI
  2. Wright, S. Physiological and evolutionary theories of dominance. Am. Nat. 68, 25–53 (1934)
  3. Kacser, H. & Burns, J. A. The molecular basis of dominance. Genetics 97, 639–666 (1981) · DOI
  4. Mewes, H. W. et al. MIPS: a database for genomes and protein sequences. Nucleic Acids Res. 30, 31–34 (2002) · DOI
  5. Rottensteiner, H., Kal, A. J., Hamilton, B., Ruis, H. & Tabak, H. F. A heterodimer of the Zn2Cys6 transcription factors Pip2p and Oaf1p controls induction of genes encoding peroxisomal proteins in Saccharomyces cerevisiae. Eur. J. Biochem. 247, 776–783 (1997) · DOI
  6. Wu, X., Hart, H., Cheng, C., Roach, P. J. & Tatchell, K. Characterization of Gac1p, a regulatory subunit of protein phosphatase type I involved in glycogen accumulation in Saccharomyces cerevisiae. Mol. Genet. Genomics 265, 622–635 (2001) · DOI
  7. Abruzzi, K. C., Smith, A., Chen, W. & Solomon, F. Protection from free beta-tubulin by the beta-tubulin binding protein Rbl2p. Mol. Cell Biol. 22, 138–147 (2002) · DOI
  8. Yuan, J. et al. The instability of the membrane skeleton in thalassemic red blood cells. Blood 86, 3945–3950 (1995) · DOI
  9. Bray, D. & Lay, S. Computer-based analysis of the binding steps in protein complex formation. Proc. Natl Acad. Sci. USA 94, 13493–13498 (1997) · DOI
  10. Warner, J. R. The economics of ribosome biosynthesis in yeast. Trends Biochem. Sci. 24, 437–440 (1999) · DOI · Paper page
  11. Steinmetz, L. M. et al. Systematic screen for human disease genes in yeast. Nature Genet. 31, 400–404 (2002) · DOI
  12. van Holde, K. E., Johnson, W. C. & Shing Ho, P. Principles of Physical Biochemistry (Prentice Hall, Upper Saddle River, New Jersey, 1998)
  13. Stevens, R. C. & Davis, T. N. Mlc1p is a light chain for the unconventional myosin Myo2p in Saccharomyces cerevisiae. J. Cell Biol. 142, 711–722 (1998) · DOI
  14. Ge, H., Liu, Z., Church, G. M. & Vidal, M. Correlation between transcriptome and interactome mapping data from Saccharomyces cerevisiae. Nature Genet. 29, 482–486 (2001) · DOI
  15. Li, B., Vilardell, J. & Warner, J. R. An RNA structure involved in feedback regulation of splicing and of translation is critical for biological fitness. Proc. Natl Acad. Sci. USA 93, 1596–1600 (1996) · DOI
  16. Wolfe, K. H. & Shields, D. C. Molecular evidence for an ancient duplication of the entire yeast genome. Nature 387, 708–713 (1997) · DOI · Paper page
  17. Kihm, A. J. et al. An abundant erythroid protein that stabilizes free α-haemoglobin. Nature 417, 758–763 (2002) · DOI
  18. Hughes, T. R. et al. Functional discovery via a compendium of expression profiles. Cell 102, 109–126 (2000) · DOI
  19. Carroll, S. B., Grenier, J. K. & Weatherbee, S. D. From DNA to Diversity (Blackwell Science, Malden, Massachusetts, 2001)
  20. Hodgkin, J. Fluxes, doses and poisons—molecular perspectives on dominance. Trends Genet. 9, 1–2 (1993) · DOI
  21. Kratz, E., Dugas, J. C. & Ngai, J. Odorant receptor gene regulation: Implications from genomic organization. Trends Genet. 18, 29–34 (2002) · DOI
  22. Johnston, M. Feasting, fasting and fermenting. Glucose sensing in yeast and other cells. Trends Genet. 15, 29–33 (1999) · DOI
  23. Hodges, P. E., McKee, A. H., Davis, B. P., Payne, W. E. & Garrels, J. I. The Yeast Proteome Database (YPD): A model for the organization and presentation of genome-wide functional data. Nucleic Acids Res. 27, 69–73 (1999) · DOI
  24. Gavin, A. C. et al. Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature 415, 141–147 (2002) · DOI
  25. von Mering, C. et al. Comparative assessment of large-scale data sets of protein–protein interactions. Nature 417, 399–403 (2002) · DOI
  26. Eisen, M. B., Spellman, P. T., Brown, P. O. & Botstein, D. Cluster analysis and display of genome-wide expression patterns. Proc. Natl Acad. Sci. USA 95, 14863–14868 (1998) · DOI · Paper page
  27. Sokal, R. & Rohlf, M. Biometry (Freeman, New York, 1995)

Cited by

Sorted by citations

Metadata

Authors
Papp, B., Pál, C., & Hurst, L. D.
Venue
Nature
Published
2003-07
Volume
424
Issue
6945
Pages
194-197
ISSN
  • 0028-0836
  • 1476-4687
Cited by
753
References
4
Language
en

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review