A Sampling of the Yeast Proteome

Abstract

In this study, we examined yeast proteins by two-dimensional (2D) gel electrophoresis and gathered quantitative information from about 1,400 spots. We found that there is an enormous range of protein abundance and, for identified spots, a good correlation between protein abundance, mRNA abundance, and codon bias. For each molecule of well-translated mRNA, there were about 4,000 molecules of protein. The relative abundance of proteins was measured in glucose and ethanol media. Protein turnover was examined and found to be insignificant for abundant proteins. Some phosphoproteins were identified. The behavior of proteins in differential centrifugation experiments was examined. Such experiments with 2D gels can give a global view of the yeast proteome.

ACKNOWLEDGMENTS

We thank Neena Sareen and Nick Bizios (CSHL 2D gel laboratory) for production of 2D gels, Tom Volpe for help with some experiments, Corine Driessens for help with calculations and statistics, and Herman Wijnen and Nick Edgington for comments on the manuscript. We especially thank Tim Tully for in-depth statistical analysis and for insightful discussions on statistical interpretations.

This work was supported by grant P41-RR02188 from the NIH Biomedical Research Technology Program, Division of Research Resources, to J.I.G., by Small Business Innovation Research grant R44 GM54110 to Proteome, Inc., by grant DAMD17-94-J4050 from the Army Breast Cancer Program to B.F., and by NIH grant RO1 GM45410 to B.F.