title: Gene expression and survival changes in Saccharomyces cerevisiae during suspension culture.
abstract: This study explores the connection between changes in gene expression and the genes that determine strain survival during suspension culture, using the model eukaryotic organism, Saccharomyces cerevisiae. The Saccharomyces cerevisiae homozygous diploid deletion pool (HDDP), and the BY4743 parental strain were grown for 18 h in a rotating wall vessel (RWV), a suspension culture device optimized to minimize the delivered shear. In addition to the reduced shear conditions, the RWVs were also placed in a static position or in a shaker in order to change the amount of shear stress on the cells. Using simple linear regression, it was found that there were 140 differentially expressed genes for which >70% of the variation can be explained by shear stress alone. A significant number of these genes are involved in catalytic activity. In the HDDP, shear stress was associated with significant survival changes in 15 deletion strains (R(2>) > 0.7) Interestingly, both analyses uncovered changes in the ribosomal protein machinery. Comparing the changes in gene expression and strain survival under the different shear conditions allows for the insights into the molecular mechanisms behind the cells response to shear stress. This in turn can provide information for the optimization of suspension culture.
authors.affiliation: Nephrology Section, Department of Medicine, Tulane University Health Sciences Center, New Orleans, Louisiana 70112, USA.
authors.forename: Kelly
authors.initials: K
authors.lastname: Johanson
authors.forename: Patricia L
authors.initials: PL
authors.lastname: Allen
authors.forename: Romer A
authors.initials: RA
authors.lastname: Gonzalez-Villalobos
authors.forename: Chasity B
authors.initials: CB
authors.lastname: Baker
authors.forename: Riccardo
authors.initials: R
authors.lastname: D'Elia
authors.forename: Timothy G
authors.initials: TG
authors.lastname: Hammond
mesh_terms: D002455:Cell Division / Q000235:genetics; D015536:Down-Regulation / Q000235:genetics; D004798:Enzymes / Q000235:genetics; D020869:Gene Expression Profiling; D015966:Gene Expression Regulation, Fungal; D009172:Mycology / Q000379:methods; D020411:Oligonucleotide Array Sequence Analysis; D012269:Ribosomal Proteins / Q000235:genetics; D012441:Saccharomyces cerevisiae / Q000166:cytology / Q000235:genetics* / Q000254:growth & development; D029701:Saccharomyces cerevisiae Proteins / Q000235:genetics; D015854:Up-Regulation / Q000235:genetics
chemical_list: D004798:Enzymes; D012269:Ribosomal Proteins; D029701:Saccharomyces cerevisiae Proteins