Transcriptional Profiling Shows that Gcn4p Is a Master Regulator of Gene Expression during Amino Acid Starvation in Yeast

By K. Natarajan, Michael R. Meyer, B. M. Jackson, D. Slade, Christopher J. Roberts, A. Hinnebusch, M. Marton. Molecular and Cellular Biology, 2001

800 citations recorded by the source corpus.

Subfields: Biomedical Engineering, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/f66e9928cb5ef5f668b103a6a1693687079281bd

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In Biomedical Engineering

1. Peter K. Sorger

In Molecular Biology

1. D. Ron
2. H. Harding
3. R. Kaufman
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5. Yuhong Zhang
6. Phoebe D. Lu
7. Chi Y. Yun
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Citations in the corpus

• Towards a Rigorous Assessment of Systems Biology Models: The DREAM3 Challenges (2010, methodology): “Expression levels were assayed separately in the three mutant strains and in the wild type strain at times 0, 10, 20, 30, 45, 60, 90 and 120 minutes following the addition of 3-aminotriazole (3AT) as described [17].”
• The Response to Heat Shock and Oxidative Stress in Saccharomyces cerevisiae (2012, background): “Transcriptional profiling studies have shown that 10% of the yeast genome is regulated by Gcn4 in response to amino acid starvation, suggesting that Gcn4 acts as a master regulator of gene expression (Natarajan et al. 2001).”
• Exploring the conditional coregulation of yeast gene expression through fuzzy k-means clustering (2002, background): “Around 75% of these genes are known to be induced by Gcn4p in response to amino-acid limitation and contain the Gcn4p promoter element [34,35].”
• GCN2 kinase in T cells mediates proliferative arrest and anergy induction in response to indoleamine 2,3-dioxygenase. (2005, positive): “These GCN2-responsive mRNAs include potent transcriptional regulators such as GCN4p in yeast (Natarajan et al., 2001) and ATF4 in animal cells (Harding et al., 2000a; Lu et al., 2004; Vattem and Wek, 2004).”
• Nonsense surveillance regulates expression of diverse classes of mammalian transcripts and mutes genomic noise (2004, background): “, TRP1 , ATG12 (also called APG12 ) and DAL5 ) have been shown experimentally to lack responsiveness to Gcn4p, a master transcriptional activator of amino acid biosynthetic genes in multiple pathway”
• The shikimate pathway and aromatic amino Acid biosynthesis in plants. (2012, background): “In fungi, the expression of DAHP synthase genes (Aro3p and Aro4p) is regulated through a master transcriptional activator (Gcn4p), which is induced under general amino acid starvation (129).”
• The environmental stress response: a common yeast response to diverse environmental stresses (2003, background): “Consistently, many of the genes involved in tRNA processing, and almost all of the genes encoding cytosolic aminoacyl tRNA synthetases, are repressed as part of this program.”
• Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation (2007, background): “More specifically, targets of transcription factor GCN4 (ref”
• An integrated stress response regulates amino acid metabolism and resistance to oxidative stress. (2003, background): “Yeast lack their targets, as both transcription factors regulate a Perk gene and do not activate the general control genes involved in amino acid import, metabolism, and response during pharmacologically induced ER stress assimilation (this study and Natarajan et al., 2001).”
• Regulation Mechanisms and Signaling Pathways of Autophagy (2009, background): “In yeast, selective translation of Gcn4 (rather than the global translational arrest) by eIF2α phosphorylation is essential for autophagy, consistent with a report identifying several autophagy genes, including ATG1, ATG13, and APE1, as downstream transcription activation targets of Gcn4 (97).”
• Direct measurement of DNA affinity landscapes on a high-throughput sequencing instrument (2011, methodology): “Application of HiTS-FLIP to the protein Gcn4 (Gcn4p), the master regulator of the yeast amino acid starvation respons”
• Nutrient sensing and signaling in the yeast Saccharomyces cerevisiae (2014, background): “…of translation initiation and preferential expression of the transcription factor Gcn4, which in turn activates a set of 57 genes, mainly involved in amino acid biosynthesis, nitrogen utilization, signaling, and gene expression (Hinnebusch, 1986; Natarajan et al., 2001; Staschke et al., 2010; Fig.”
• Analyzing time series gene expression data (2004, background): “When cells are faced with a new condition [such as starvation (Natarajan et al., 2001), infection (Nau et al., 2002) and stress (Gasch et al., 2000)], they react by activating a new expression program.”