part because they activate gene expression through a common site, the stress ..... over replicate runs of a given clustering approach were placed into a separate group and ...... a limited view of the dynamical changes in these gene networks here, we limit our ..... accumulation (e.g., trehalose production instep with ethanol.
MOLECULAR AND CELLULAR BIOLOGY, May 2005, p. 4075–4091 0270-7306/05/$08.00⫹0 doi:10.1128/MCB.25.10.4075–4091.2005 Copyright © 2005, American Society for Microbiology. All Rights Reserved.
Vol. 25, No. 10
Dynamical Remodeling of the Transcriptome during Short-Term Anaerobiosis in Saccharomyces cerevisiae: Differential Response and Role of Msn2 and/or Msn4 and Other Factors in Galactose and Glucose Media† Liang-Chuan Lai,1 Alexander L. Kosorukoff,2 Patricia V. Burke,1 and Kurt E. Kwast1* Department of Molecular & Integrative Physiology1 and Department of Computer Science,2 University of Illinois, Urbana, Illinois Received 16 September 2004/Returned for modification 19 October 2004/Accepted 23 February 2005
In contrast to previous steady-state analyses of the O2-responsive transcriptome, here we examined the dynamics of the response to short-term anaerobiosis (2 generations) in both catabolite-repressed (glucose) and derepressed (galactose) cells, assessed the specific role that Msn2 and Msn4 play in mediating the response, and identified gene networks using a novel clustering approach. Upon shifting cells to anaerobic conditions in galactose medium, there was an acute (⬃10 min) yet transient (