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Comparative and Functional Genomics
Volume 2, Issue 4, Pages 207-225
Research Article

Comparison of the Proteomes of Three Yeast Wild Type Strains: CEN.PK2, FY1679 and W303

1Centre for Proteome Analysis in Life Sciences, University of Southern Denmark, International Science Park Odense, Forskerparken 10B, Odense M 5230, Denmark
2Deptartment of Cell and Molecular Biology – Microbiology Lundbergs Laboratory, Göteborg University, Medicinaregatan 9C , Göteborg 405 30, Sweden
3Technical University of Munich, Institute of Food Technology and Analytical Chemistry, Proteomics Group, Freising-Weihenstephan D-85350, Germany
4Department of Biochemistry and Molecular Biology, University of Southern Denmark, Odense University, Campusvej 55, Odense M 5230, Denmark
5Institut fuer Biochemie und Molekulare Zellbiologie, Universität Wien, Vienna Dr-Bohrgasse 9 A-1030, Austria

Received 1 May 2001; Accepted 26 June 2001

Copyright © 2001 Hindawi Publishing Corporation. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.


Yeast deletion strains created during gene function analysis projects very often show drastic phenotypic differences depending on the genetic background used. These results indicate the existence of important molecular differences between the CEN.PK2, FY1679 and W303 wild type strains. To characterise these differences we have compared the protein expression levels between CEN.PK2, FY1679 and W303 strains using twodimensional gel electrophoresis and identified selected proteins by mass spectrometric analysis. We have found that FY1679 and W303 strains are more similar to each other than to the CEN.PK2 strain. This study identifies 62 proteins that are differentially expressed between the strains and provides a valuable source of data for the interpretation of yeast mutant phenotypes observed in CEN.PK2, FY1679 and W303 strains.