Physiological and transcriptional responses of Saccharomyces cerevisiae to zinc limitation in chemostat cultures

Raffaele De Nicola, Lucie A. Hazelwood, Erik A. F. De Hulster, Michael C. Walsh, Theo A. Knijnenburg, Marcel J. T. Reinders, Graeme M. Walker, Jack T. Pronk, Jean-Marc Daran, Pascale Daran-Lapujade

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Abstract

Transcriptional responses of the yeast Saccharomyces cerevisiae to Zn availability were investigated at a fixed specific growth rate under limiting and abundant Zn concentrations in chemostat culture. To investigate the context dependency of this transcriptional response and eliminate growth rate-dependent variations in transcription, yeast was grown under several chemostat regimens, resulting in various carbon (glucose), nitrogen (ammonium), zinc, and oxygen supplies. A robust set of genes that responded consistently to Zn limitation was identified, and the set enabled the definition of the Zn-specific Zap1p regulon, comprised of 26 genes and characterized by a broader zinc-responsive element consensus (MHHAACCBYNMRGGT) than so far described. Most surprising was the Zn-dependent regulation of genes involved in storage carbohydrate metabolism. Their concerted down-regulation was physiologically relevant as revealed by a substantial decrease in glycogen and trehalose cellular content under Zn limitation. An unexpectedly large number of genes were synergistically or antagonistically regulated by oxygen and Zn availability. This combinatorial regulation suggested a more prominent involvement of Zn in mitochondrial biogenesis and function than hitherto identified.
Original languageEnglish
Pages (from-to)7680-7692
Number of pages13
JournalApplied and Environmental Microbiology
Volume73
Issue number23
DOIs
StatePublished - Dec 2007

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Saccharomyces cerevisiae
Zinc
Genes
genes
gene
zinc
chemostat
Yeasts
Oxygen
yeasts
oxygen
yeast
Mitochondrial Turnover
Regulon
Trehalose
Carbohydrate Metabolism
Glycogen
Ammonium Compounds
Nitrogen
Carbon

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Nicola, R. D., Hazelwood, L. A., Hulster, E. A. F. D., Walsh, M. C., Knijnenburg, T. A., Reinders, M. J. T., ... Daran-Lapujade, P. (2007). Physiological and transcriptional responses of Saccharomyces cerevisiae to zinc limitation in chemostat cultures. Applied and Environmental Microbiology, 73(23), 7680-7692. DOI: 10.1128/AEM.01445-07

Nicola, Raffaele De; Hazelwood, Lucie A.; Hulster, Erik A. F. De; Walsh, Michael C.; Knijnenburg, Theo A.; Reinders, Marcel J. T.; Walker, Graeme M.; Pronk, Jack T.; Daran, Jean-Marc; Daran-Lapujade, Pascale / Physiological and transcriptional responses of Saccharomyces cerevisiae to zinc limitation in chemostat cultures.

In: Applied and Environmental Microbiology, Vol. 73, No. 23, 12.2007, p. 7680-7692.

Research output: Contribution to journalArticle

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abstract = "Transcriptional responses of the yeast Saccharomyces cerevisiae to Zn availability were investigated at a fixed specific growth rate under limiting and abundant Zn concentrations in chemostat culture. To investigate the context dependency of this transcriptional response and eliminate growth rate-dependent variations in transcription, yeast was grown under several chemostat regimens, resulting in various carbon (glucose), nitrogen (ammonium), zinc, and oxygen supplies. A robust set of genes that responded consistently to Zn limitation was identified, and the set enabled the definition of the Zn-specific Zap1p regulon, comprised of 26 genes and characterized by a broader zinc-responsive element consensus (MHHAACCBYNMRGGT) than so far described. Most surprising was the Zn-dependent regulation of genes involved in storage carbohydrate metabolism. Their concerted down-regulation was physiologically relevant as revealed by a substantial decrease in glycogen and trehalose cellular content under Zn limitation. An unexpectedly large number of genes were synergistically or antagonistically regulated by oxygen and Zn availability. This combinatorial regulation suggested a more prominent involvement of Zn in mitochondrial biogenesis and function than hitherto identified.",
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Nicola, RD, Hazelwood, LA, Hulster, EAFD, Walsh, MC, Knijnenburg, TA, Reinders, MJT, Walker, GM, Pronk, JT, Daran, J-M & Daran-Lapujade, P 2007, 'Physiological and transcriptional responses of Saccharomyces cerevisiae to zinc limitation in chemostat cultures' Applied and Environmental Microbiology, vol 73, no. 23, pp. 7680-7692. DOI: 10.1128/AEM.01445-07

Physiological and transcriptional responses of Saccharomyces cerevisiae to zinc limitation in chemostat cultures. / Nicola, Raffaele De; Hazelwood, Lucie A.; Hulster, Erik A. F. De; Walsh, Michael C.; Knijnenburg, Theo A.; Reinders, Marcel J. T.; Walker, Graeme M.; Pronk, Jack T.; Daran, Jean-Marc; Daran-Lapujade, Pascale.

In: Applied and Environmental Microbiology, Vol. 73, No. 23, 12.2007, p. 7680-7692.

Research output: Contribution to journalArticle

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T1 - Physiological and transcriptional responses of Saccharomyces cerevisiae to zinc limitation in chemostat cultures

AU - Nicola,Raffaele De

AU - Hazelwood,Lucie A.

AU - Hulster,Erik A. F. De

AU - Walsh,Michael C.

AU - Knijnenburg,Theo A.

AU - Reinders,Marcel J. T.

AU - Walker,Graeme M.

AU - Pronk,Jack T.

AU - Daran,Jean-Marc

AU - Daran-Lapujade,Pascale

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AB - Transcriptional responses of the yeast Saccharomyces cerevisiae to Zn availability were investigated at a fixed specific growth rate under limiting and abundant Zn concentrations in chemostat culture. To investigate the context dependency of this transcriptional response and eliminate growth rate-dependent variations in transcription, yeast was grown under several chemostat regimens, resulting in various carbon (glucose), nitrogen (ammonium), zinc, and oxygen supplies. A robust set of genes that responded consistently to Zn limitation was identified, and the set enabled the definition of the Zn-specific Zap1p regulon, comprised of 26 genes and characterized by a broader zinc-responsive element consensus (MHHAACCBYNMRGGT) than so far described. Most surprising was the Zn-dependent regulation of genes involved in storage carbohydrate metabolism. Their concerted down-regulation was physiologically relevant as revealed by a substantial decrease in glycogen and trehalose cellular content under Zn limitation. An unexpectedly large number of genes were synergistically or antagonistically regulated by oxygen and Zn availability. This combinatorial regulation suggested a more prominent involvement of Zn in mitochondrial biogenesis and function than hitherto identified.

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Nicola RD, Hazelwood LA, Hulster EAFD, Walsh MC, Knijnenburg TA, Reinders MJT et al. Physiological and transcriptional responses of Saccharomyces cerevisiae to zinc limitation in chemostat cultures. Applied and Environmental Microbiology. 2007 Dec;73(23):7680-7692. Available from, DOI: 10.1128/AEM.01445-07