ArticleApplied and environmental microbiology2006
Global transcriptional and physiological responses of Saccharomyces cerevisiae to ammonium, L-alanine, or L-glutamine limitation.
Article in Applied and environmental microbiology, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 53 citations in OpenAlex.
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- An updated genome-scale metabolic network reconstruction of Pseudomonas aeruginosa PA14 to characterize mucin-driven shifts in bacterial metabolism.NPJ systems biology and applications · 2021Article
- Alanine Represses γ-Aminobutyric Acid Utilization and Induces Alanine Transaminase Required for Mitochondrial Function inFrontiers in microbiology · 2021Article
- Efficient protein production by yeast requires global tuning of metabolism.Nature communications · 2017Article
- Study of the Plasma Membrane Proteome Dynamics Reveals Novel Targets of the Nitrogen Regulation in Yeast.Molecular & cellular proteomics : MCP · 2017Article
- Deciphering the transcriptomic response of Fusarium verticillioides in relation to nitrogen availability and the development of sugarcane pokkah boeng disease.Scientific reports · 2016Article
- Steady-state and dynamic gene expression programs in Saccharomyces cerevisiae in response to variation in environmental nitrogen.Molecular biology of the cell · 2016Article
- Transposable elements and circular DNAs.Mobile genetic elements · 2016Article
- Computational approaches for microalgal biofuel optimization: a review.BioMed research international · 2014Review
- Anaerobic α-amylase production and secretion with fumarate as the final electron acceptor in Saccharomyces cerevisiae.Applied and environmental microbiology · 2013Article
- Mapping condition-dependent regulation of metabolism in yeast through genome-scale modeling.BMC systems biology · 2013Article
- Integrated pathway modules using time-course metabolic profiles and EST data from Milnesium tardigradum.BMC systems biology · 2012Article
- Genome-scale metabolic reconstructions of Pichia stipitis and Pichia pastoris and in silico evaluation of their potentials.BMC systems biology · 2012Article
- Imbalance of heterologous protein folding and disulfide bond formation rates yields runaway oxidative stress.BMC biology · 2012Article
- Article
- iAB-RBC-283: A proteomically derived knowledge-base of erythrocyte metabolism that can be used to simulate its physiological and patho-physiological states.BMC systems biology · 2011Article
- Adaptation to diverse nitrogen-limited environments by deletion or extrachromosomal element formation of the GAP1 locus.Proceedings of the National Academy of Sciences of the United States of America · 2010Article
- Comparison of next generation sequencing technologies for transcriptome characterization.BMC genomics · 2009Article
- Applications of genome-scale metabolic reconstructions.Molecular systems biology · 2009Review
- Reconstruction of the yeast Snf1 kinase regulatory network reveals its role as a global energy regulator.Molecular systems biology · 2009Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The yeast Saccharomyces cerevisiae encounters a range of nitrogen sources at various concentrations in its environment. The impact of these two parameters on transcription and metabolism was studied by growing S. cerevisiae in chemostat cultures with l-glutamine, l-alanine, or l-ammonium in limitation and by growing cells in an excess of ammonium. Cells grown in l-alanine-limited cultures had higher biomass yield per nitrogen mole (19%) than those from ammonium-limited cultures. Whole-genome transcript profiles were analyzed with a genome-scale metabolic model that suggested increased anabolic activity in l-alanine-limited cells. The changes in these cells were found to be focused around pyruvate, acetyl coenzyme A, glyoxylate, and alpha-ketoglutarate via increased levels of ALT1, DAL7, PYC1, GDH2, and ADH5 and decreased levels of GDH3, CIT2, and ACS1 transcripts. The transcript profiles were then clustered. Approximately 1,400 transcripts showed altered levels when amino acid-grown cells were compared to those from ammonium. Another 400 genes had low transcript levels when ammonium was in excess. Overrepresentation of the GATAAG element in their promoters suggests that nitrogen catabolite repression (NCR) may be responsible for this regulation. Ninety-one genes had transcript levels on both l-glutamine and ammonium that were decreased compared to those on l-alanine, independent of the concentration. The GATAAG element in these genes suggests two groups of NCR-responsive genes, those that respond to high levels of nitrogen and those that respond to levels below 30 muM. In conclusion, our results reveal that the nitrogen source has substantial influence on the transcriptome of yeasts and that transcriptional changes may be correlated to physiology via a metabolic model.
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