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.
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 (
