Matthew E. Jurek Week 11

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(Acclimation of Saccharomyces cerevisiae to Low Temperature: A Chemostat-based Transcriptome Analyis: fixed bullets)
(Acclimation of Saccharomyces cerevisiae to Low Temperature: A Chemostat-based Transcriptome Analyis: outlined materials and methods)
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#*Chemostat cultures allow for control of specific growth rate independent of culture conditions such as metabolites, pH, and oxygen availability.
#*Chemostat cultures allow for control of specific growth rate independent of culture conditions such as metabolites, pH, and oxygen availability.
#*Overall Goal: Focus on genome-wide transcriptional regulation by exploring steady-state acclimatized growth of yeast at low temps
#*Overall Goal: Focus on genome-wide transcriptional regulation by exploring steady-state acclimatized growth of yeast at low temps
 +
#Materials and Methods
 +
#*Haploid strain CEN.PK113-7D was grown at both 12 and 30 degrees C, anaerobically, in a chemostat
 +
#*The chemstat contained a dilution rate of .03/h, pH of 5.0 and stirrer speed of 600rpm.
 +
#*The cultures were contained in a synthetic medium that limited either carbon or nitrogen.  Every other requirement was in excess.
 +
#*Each growth condition consisted of 3 independent replicates.
 +
#*Microarray data was analyzed using Fisher's exact test with a Bonferroni correction in order to acheive a p value threshold of .01.
 +
#*This data was then compared to previously published low-temperature transcriptome datasets.

Revision as of 23:27, 3 April 2013

Matthew E. Jurek BIOL398-03/S13

Contents

Assignment Page

User Page

Biological Terms

  1. trehalose- also known as mycose or tremalose, is a natural alpha-linked disaccharide formed by an α,α-1,1-glucoside bond between two α-glucose units.
  2. mannoprotein- component of yeast cell walls; protein covalently linked to polymers of mannose.
  3. chromatography- the separation of mixtures into their constituents by preferential adsorption by a solid, as a column of silica (column chromatography) or a strip of filter paper (paper chromatography) or by a gel.
  4. immunoprecipitation- the separation of an antigen from a solution by the formation of a large complex with its specific antibody.
  5. catabolite- a product of catabolic action.
  6. kinetics- the branch of mechanics that deals with the actions of forces in producing or changing the motion of masses.
  7. ceramides- ceramides are a family of lipid molecules. A ceramide is composed of sphingosine and a fatty acid.
  8. orthologue- one of two or more homologous gene sequences found in different species.
  9. ergosterol- a compound present in ergot and many other fungi. A steroid alcohol, it is converted to vitamin D2 when irradiated with ultraviolet light.
  10. transcriptome- the transcriptome is the set of all RNA molecules, including mRNA, rRNA, tRNA, and non-coding RNA produced in one or a population of cells.

via Biology Online Dictionary

Acclimation of Saccharomyces cerevisiae to Low Temperature: A Chemostat-based Transcriptome Analyis

Tai et al. (2007) Acclimation of Saccharomyces cerevisiae to Low Temperature: A Chemostat-based Transcriptome Analysis. Molecular Biology of the Cell 18: 5100–5112.

  1. Introduction
    • On the cellular level, yeast responds in a number of ways to temperature changes (temps outside the 25-30 degree C optimum).
    • Temperatures below the optimum range slow cellular processes.
    • Effects of low temperature depend on exposure time
    • Sudden exposure results in adaptaion
    • Prolonged exposure results in acclimation
    • Previous studies have focused on cold shock (sudden exposure) and found 2 phases of cold-shock response
    • Current low-temp transcriptome databases contain major discrepancies
    • Previous studies have focused on batch culutures: hard to distinguish temp effects on transcription from effects of specific growth rate
    • Chemostat cultures allow for control of specific growth rate independent of culture conditions such as metabolites, pH, and oxygen availability.
    • Overall Goal: Focus on genome-wide transcriptional regulation by exploring steady-state acclimatized growth of yeast at low temps
  2. Materials and Methods
    • Haploid strain CEN.PK113-7D was grown at both 12 and 30 degrees C, anaerobically, in a chemostat
    • The chemstat contained a dilution rate of .03/h, pH of 5.0 and stirrer speed of 600rpm.
    • The cultures were contained in a synthetic medium that limited either carbon or nitrogen. Every other requirement was in excess.
    • Each growth condition consisted of 3 independent replicates.
    • Microarray data was analyzed using Fisher's exact test with a Bonferroni correction in order to acheive a p value threshold of .01.
    • This data was then compared to previously published low-temperature transcriptome datasets.
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