Baiacu: A Tool for the Visual Analysis of the Saccharomyces Cerevisiae Regulatory Network

2011 ◽  
pp. 49-56
Author(s):  
Ricardo S. Aires ◽  
João A. Carriço ◽  
Alexandre P. Francisco ◽  
Sara C. Madeira
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Regulatory Network ◽  
Visual Analysis

scholarly journals Characterizing the memory of the GAL regulatory network in Saccharomyces cerevisiae

2011 ◽  
Vol 5 (3-4) ◽  
pp. 97-104 ◽  
Author(s):  
Vishwesh V. Kulkarni ◽  
Venkatesh Kareenhalli ◽  
Ganesh A. Viswananthan ◽  
Marc Riedel
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Regulatory Network

scholarly journals Regulatory Network Connecting Two Glucose Signal Transduction Pathways in Saccharomyces cerevisiae

2004 ◽  
Vol 3 (1) ◽  
pp. 221-231 ◽  
Author(s):  
Aneta Kaniak ◽  
Zhixiong Xue ◽  
Daniel Macool ◽  
Jeong-Ho Kim ◽  
Mark Johnston
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Signal Transduction ◽  
Transcription Factor ◽  
Regulatory Network ◽  
Target Genes ◽  
Glucose Repression ◽  
Signal Transduction Pathways ◽  
Glucose Signaling ◽  
Genes Encoding ◽  
Glucose Induction

ABSTRACT The yeast Saccharomyces cerevisiae senses glucose, its preferred carbon source, through multiple signal transduction pathways. In one pathway, glucose represses the expression of many genes through the Mig1 transcriptional repressor, which is regulated by the Snf1 protein kinase. In another pathway, glucose induces the expression of HXT genes encoding glucose transporters through two glucose sensors on the cell surface that generate an intracellular signal that affects function of the Rgt1 transcription factor. We profiled the yeast transcriptome to determine the range of genes targeted by this second pathway. Candidate target genes were verified by testing for Rgt1 binding to their promoters by chromatin immunoprecipitation and by measuring the regulation of the expression of promoter lacZ fusions. Relatively few genes could be validated as targets of this pathway, suggesting that this pathway is primarily dedicated to regulating the expression of HXT genes. Among the genes regulated by this glucose signaling pathway are several genes involved in the glucose induction and glucose repression pathways. The Snf3/Rgt2-Rgt1 glucose induction pathway contributes to glucose repression by inducing the transcription of MIG2, which encodes a repressor of glucose-repressed genes, and regulates itself by inducing the expression of STD1, which encodes a regulator of the Rgt1 transcription factor. The Snf1-Mig1 glucose repression pathway contributes to glucose induction by repressing the expression of SNF3 and MTH1, which encodes another regulator of Rgt1, and also regulates itself by repressing the transcription of MIG1. Thus, these two glucose signaling pathways are intertwined in a regulatory network that serves to integrate the different glucose signals operating in these two pathways.

scholarly journals A Thi2p Regulatory Network Controls the Post-glucose Effect of Xylose Utilization in Saccharomyces cerevisiae

2019 ◽  
Vol 10 ◽  
Author(s):  
Shan Wei ◽  
Penggang Bai ◽  
Yanan Liu ◽  
Mengdan Yang ◽  
Juanzhen Ma ◽  
...  
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Regulatory Network ◽  
Xylose Utilization ◽  
Glucose Effect

scholarly journals A comprehensive gene regulatory network for the diauxic shift in Saccharomyces cerevisiae

2013 ◽  
Vol 41 (18) ◽  
pp. 8452-8463 ◽  
Author(s):  
L. Geistlinger ◽  
G. Csaba ◽  
S. Dirmeier ◽  
R. Kuffner ◽  
R. Zimmer
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Gene Regulatory Network ◽  
Regulatory Network ◽  
Diauxic Shift ◽  
Gene Regulatory

scholarly journals A steady-state modeling approach to validate an in vivo mechanism of the GAL regulatory network in Saccharomyces cerevisiae

2004 ◽  
Vol 271 (20) ◽  
pp. 4064-4074 ◽  
Author(s):  
Malkhey Verma ◽  
Paike J. Bhat ◽  
Sharad Bhartiya ◽  
K. V. Venkatesh
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Steady State ◽  
Regulatory Network ◽  
Modeling Approach
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