Metabolomic analysis of acid stress response in Saccharomyces cerevisiae

Nugroho, Riyanto Heru; Yoshikawa, Katsunori; Shimizu, Hiroshi

doi:10.1016/j.jbiosc.2015.02.011

Cited by 36 publications

(27 citation statements)

References 72 publications

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“…While such cross-reactivity is at odds with synthetic biology's design goal of precisely controlled output, it could be a positive attribute in an industrial setting where yeast is likely to face multiple stresses at the same time. In fact, it was recently reported that low pH, or even acid accumulation, can induce an oxidative stress response in yeast ( 39 , 57 ). Therefore, two stresses activating the same TF may act synergistically, but this cannot be guaranteed to always be the case.…”

Section: Discussionmentioning

confidence: 99%

Engineering of synthetic, stress-responsive yeast promoters

et al. 2016

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Advances in synthetic biology and our understanding of the rules of promoter architecture have led to the development of diverse synthetic constitutive and inducible promoters in eukaryotes and prokaryotes. However, the design of promoters inducible by specific endogenous or environmental conditions is still rarely undertaken. In this study, we engineered and characterized a set of strong, synthetic promoters for budding yeast Saccharomyces cerevisiae that are inducible under acidic conditions (pH ≤ 3). Using available expression and transcription factor binding data, literature on transcriptional regulation, and known rules of promoter architecture we improved the low-pH performance of the YGP1 promoter by modifying transcription factor binding sites in its upstream activation sequence. The engineering strategy outlined for the YGP1 promoter was subsequently applied to create a response to low pH in the unrelated CCW14 promoter. We applied our best promoter variants to low-pH fermentations, enabling ten-fold increased production of lactic acid compared to titres obtained with the commonly used, native TEF1 promoter. Our findings outline and validate a general strategy to iteratively design and engineer synthetic yeast promoters inducible to environmental conditions or stresses of interest.

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Section: Discussionmentioning

confidence: 99%

Engineering of synthetic, stress-responsive yeast promoters

et al. 2016

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“…Finally, Saccharomyces cerevisiae growth is known to strongly decrease under acidic conditions. A metabolomics approach was used to understand this phenomenon . S. cerevisiae was grown in lactic acid‐containing medium (pH 2.5).…”

Section: Foodomicsmentioning

confidence: 99%

Recent advances in amino acid analysis by capillary electromigration methods: June 2015–May 2017

et al. 2017

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Recent advances in amino acid analysis by capillary electromigration methods: June 2015-May 2017In the tenth edition of this article focused on recent advances in amino acid analysis using capillary electrophoresis, we describe the most important research articles published on this topic during the period from June 2015 to May 2017. This article follows the format of the previous articles published in Electrophoresis. The new developments in amino acid analysis with CE mainly describe improvements in CE associated with mass spectrometry. Focusing on applications, we mostly describe clinical works, although metabolomics studies are also very important. Finally, works focusing on amino acids in food and agricultural applications are also described.

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“…Nugroho et al. used a CE–MS‐based metabolomics approach in order to understand the effect of lactic acid induced stress on the metabolic composition of Saccharomyces cerevisiae . For this purpose, cells were cultured with lactic acid, with or without initial pH control, that is, at pH 6 or 2.5, respectively.…”

Section: Applicationsmentioning

confidence: 99%

CE–MS for metabolomics: Developments and applications in the period 2014–2016

2016

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CE–MS can be considered a useful analytical technique for the global profiling of (highly) polar and charged metabolites in various samples. Over the past few years, significant advancements have been made in CE–MS approaches for metabolomics studies. In this paper, which is a follow‐up of a previous review paper covering the years 2012–2014 (Electrophoresis 2015, 36, 212–224), recent CE–MS strategies developed for metabolomics covering the literature from July 2014 to June 2016 are outlined. Attention will be paid to new CE–MS approaches for the profiling of anionic metabolites and the potential of SPE coupled to CE–MS is also demonstrated. Representative examples illustrate the applicability of CE–MS in the fields of biomedical, clinical, microbial, plant, and food metabolomics. A complete overview of recent CE–MS‐based metabolomics studies is given in a table, which provides information on sample type and pretreatment, capillary coatings, and MS detection mode. Finally, general conclusions and perspectives are given.

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Metabolomic analysis of acid stress response in Saccharomyces cerevisiae

Cited by 36 publications

References 72 publications

Engineering of synthetic, stress-responsive yeast promoters

Engineering of synthetic, stress-responsive yeast promoters

Recent advances in amino acid analysis by capillary electromigration methods: June 2015–May 2017

CE–MS for metabolomics: Developments and applications in the period 2014–2016

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