Cameron M. Rehmani Seraji Week 10

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Electronic Lab Notebook Week 10

Purpose

Part 1

Biological Terms

Part 2

Outline

  • What is the main result presented in this paper?
    • The overall main result presented in this paper is that S. cerevisiae will have different transcriptional responses to low temperature and low specific growth rate when it is grown in batch cultures and in chemostat cultures.
    • The use of a chemostat cultures helps isolate and study the different physiological phases of S. cerevisiae and its ability to adapt to environmental stress.
  • What is the importance or significance of this work?
    • The importance of this work is
  • Create a flow chart to describe their methods. Answer the following questions if they are relevant to your article.
    • Grow S. cerevisiaein a chemostat --> use of cold shock (12°C) or use of heat shock (30°C) --> limit glucose or limit ammonia
    • This results in there being four types of growth conditions:
      • 12°C, glucose-limited
      • 12°C, ammonium-limited
      • 30°C, glucose-limited
      • 30°C, ammonium-limited
  • How did they treat the cells (what experiment were they doing?)
    • The goal of the study was to investigate steady-state growth of S. cerevisiae at suboptimal temperatures, with emphasis on genome-wide transcriptional regulation.
  • What strain(s) of yeast did they use? Was the strain haploid or diploid?
    • The strain of yeast they used is prototrophic and haploid. The reference for the strain is S. cerevisiae strain CEN.PK113-7D (MATa)
  • What media did they grow them in? Under what conditions and temperatures?
    • Chemostat
      • They grew the yeast in a 2.0 L chemostat with a working volume of 1.0 L.
      • The dilution rate was set at 0.03 h^-1.
      • The pH was kept at 5.0 by automatic addition of 2 M KOH.
      • The stirrer speed was set at 600 rpm.
    • The yeast was grown at 12°C or 30°C.
    • The yeast was nitrogen-limited or glucose-limited.
    • Biomass dry weight, metabolites, dissolved oxygen, and gas profiles were constant for at least three volume changes before sampling occurred.
  • What controls did they use?
  • How many replicates did they perform per condition?
  • What mathematical/statistical method did they use to analyze the data?
  • What transcription factors did they talk about?
  • Table 1
  • Figure 1
  • Figure 2
  • Table 2
  • Table 3
  • Figure 3
  • Figure 4
  • Figure 5
  • Figure 6

Acknowledgments

  • Except for what is noted above, this individual journal entry was completed by me and not copied from another source.

References

  • Week 10 Assignment Page
  • Tai, S. L., Daran-Lapujade, P., Walsh, M. C., Pronk, J. T., & Daran, J. M. (2007). Acclimation of Saccharomyces cerevisiae to low temperature: a chemostat-based transcriptome analysis. Molecular biology of the cell, 18(12), 5100-5112. doi: 10.1091/mbc.E07-02-0131

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