Transcriptome analysis of differential responses of diploid and haploid yeast to ethanol stress

Journal of Biotechnology

Volumn 148, Issue 4, 2010, Pages 194-203

  Li, Bing Zhi ^a   Cheng, Jing Sheng ^a   Ding, Ming Zhu ^a   Yuan, Ying Jin ^a  

^a TIANJIN UNIVERSITY   (China)

Author keywords

Diploid; Ethanol stress; Haploid; Transcriptome; Yeast

Indexed keywords

CELL WALLS; COMPARATIVE STUDIES; DIFFERENTIAL RESPONSE; DIFFERENTIALLY EXPRESSED GENE; ETHANOL STRESS; ETHANOL TOLERANCE; FOLIC ACIDS; GENE EXPRESSION PROFILES; HAPLOID STRAINS; LIPID SYNTHESIS; METAL TRANSPORT; MOLECULAR INFORMATION; MOLECULAR INSIGHTS; QUANTITATIVE REAL TIME PCR; STRESS RESPONSE; TRANSCRIPTOME ANALYSIS; TRANSCRIPTOME RESPONSE; TRANSCRIPTOMES; YEAST STRAIN;

AMINO ACIDS; ELASTICITY; FITS AND TOLERANCES; GENE EXPRESSION; ORGANIC ACIDS; STRAIN; YEAST;

ETHANOL;

ALCOHOL; BIOTIN; FOLIC ACID; LIPID; TRANSCRIPTOME;

ALCOHOL TOLERANCE; AMINO ACID SYNTHESIS; ARTICLE; BIOGENESIS; CELL WALL; CONTROLLED STUDY; DIPLOIDY; FUNGAL STRAIN; GENE EXPRESSION; LIPOGENESIS; MICROARRAY ANALYSIS; NONHUMAN; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; RNA ANALYSIS; SACCHAROMYCES CEREVISIAE; VITAMIN METABOLISM;

ETHANOL; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, FUNGAL; PROTEOME; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; STRESS, PHYSIOLOGICAL;

EID: 77955058081     PISSN: 01681656     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jbiotec.2010.06.013     Document Type: Article

References (33)

1. Aguilera F., Peinado R.A., Millan C., Ortega J.M., Mauricio J.C. Relationship between ethanol tolerance, h+-atpase activity and the lipid composition of the plasma membrane in different wine yeast strains. Int. J. Food Microbiol. 2006, 110:34-42.
2. Alexandre H., Ansanay-Galeote V., Dequin S., Blondin B. Global gene expression during short-term ethanol stress in Saccharomyces cerevisiae. Febs Lett. 2001, 498:98-103.
3. Alfenore S., Molina-Jouve C., Guillouet S.E., Uribelarrea J.L., Goma G., Benbadis L. Improving ethanol production and viability of Saccharomyces cerevisiae by a vitamin feeding strategy during fed-batch process. Appl. Microbiol. Biotechnol. 2002, 60:67-72.
4. Alimardani P., Régnacq M., Moreau-Vauzelle C., Ferreira T., Rossignol T., Blondin B., Bergès T. SUT1-promoted sterol uptake involves the ABC transporter Aus1 and the mannoprotein Dan1 whose synergistic action is sufficient for this process. Biochem. J. 2004, 381:195-202.
5. Beaven M.J., Charpentier C., Rose A.H. Production and tolerance of ethanol in relation to phospholipid fatty-acyl composition in Saccharomyces cerevisiae ncyc 431. J. Gen. Microbiol. 1982, 128:1447-1455.
6. Bohlscheid J.C., Fellman J.K., Wang X.D., Ansen D., Edwards C.G. The influence of nitrogen and biotin interactions on the performance of Saccharomyces in alcoholic fermentations. J. Appl. Microbiol. 2007, 102:390-400.
7. Chi Z., Kohlwein S.D., Paltauf F. Role of phosphatidylinositol (pi) in ethanol production and ethanol tolerance by a high ethanol producing yeast. J. Ind. Microbiol. Biotechnol. 1999, 22:58-63.
8. de Godoy L.M.F., Olsen J.V., Cox J., Nielsen M.L., Hubner N.C., Frohlich F., Walther T.C., Mann M. Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast. Nature 2008, 455:1251-1260.
9. Ding, M.Z., Li, B.Z., Cheng, J.S., Yuan, Y.J., in press. Metabolome analysis of differential responses of diploid and haploid yeast to ethanol stress. OMICS: A Journal of Integrative Biology.
10. Dinh T.N., Nagahisa K., Yoshikawa K., Hirasawa T., Furusawa C., Shimizu H. Analysis of adaptation to high ethanol concentration in Saccharomyces cerevisiae using DNA microarray. Bioprocess Biosyst. Eng. 2009, 32:681-688.
11. Fazio A., Jewett M.C., Daran-Lapujade P., Mustacchi R., Usaite R., Pronk J.T., Workman C.T., Nielsen J. Transcription factor control of growth rate dependent genes in Saccharomyces cerevisiae: a three factor design. BMC Genomics. 2008, 9:341.
12. Galitski T., Saldanha A.J., Styles C.A., Lander E.S., Fink G.R. Ploidy regulation of gene expression. Science 1999, 285:251-254.
13. Gasch A.P., Spellman P.T., Kao C.M., Carmel-Harel O., Eisen M.B., Storz G., Botstein D., Brown P.O. Genomic expression programs in the response of yeast cells to environmental changes. Mol. Biol. Cell 2000, 11:4241-4257.
14. Griffiths L.M., Doudican N.A., Shadel G.S., Doetsch P.W. Mitochondrial DNA oxidative damage and mutagenesis in Saccharomyces cerevisiae. Methods Mol. Biol. 2009, 554:267-286.
15. Higgins V.J., Bell P.J.L., Dawes I.W., Attfield P.V. Generation of a novel Saccharomyces cerevisiae strain that exhibits strong maltose utilization and hyperosmotic resistance using nonrecombinant techniques. Appl. Environ. Microbiol. 2001, 67:4346-4348.
16. Hirasawa T., Yoshikawa K., Nakakura Y., Nagahisa K., Furusawa C., Katakura Y., Shimizu H., Shioya S. Identification of target genes conferring ethanol stress tolerance to Saccharomyces cerevisiae based on DNA microarray data analysis. J. Biotechnol. 2007, 131:34-44.
17. Izawa S., Kita T., Ikeda K., Inoue Y. Heat shock and ethanol stress provoke distinctly different responses in 3'-processing and nuclear export of HSP mRNA in Saccharomyces cerevisiae. Biochem. J. 2008, 414:111-119.
18. Juresic G.C., Blagovic B., Rupcic J. Ethanol-induced changes in the fatty acid composition of brewer's yeast. Curr. Stud. Biotechnol. 2003, 3:113-119.
19. Katou T., Kitagaki H., Aka T., Shimoi H. Brewing characteristics of haploid strains isolated from sake yeast Kyokai no. 7. Yeast 2008, 25:799-807.
20. Li B.Z., Balan V., Yuan Y.J., Dale B.E. Process optimization to convert forage and sweet sorghum bagasse to ethanol based on ammonia fiber expansion (AFEX) pretreatment. Bioresour. Technol. 2010, 101:1285-1292.
21. Li B.Z., Cheng J.S., Qiao B., Yuan Y.J. Genome-wide transcriptional analysis of Saccharomyces cerevisiae during industrial bioethanol fermentation. J. Ind. Microbiol. Biotechnol. 2010, 37:43-55.
22. Li B.Z., Yuan Y.J. Transcriptome shifts in response to furfural and acetic acid in Saccharomyces cerevisiae. Appl. Microbiol. Biotechnol. 2010, 86:1915-1924.
23. Li C., Wong W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 2001, 98:31-36.
24. Livak K.J., Schmittgen T.D. Analysis of relative gene expression data using real-time quantitative PCR and the 2(t)(-delta delta c) method. Methods 2001, 25:402-408.
25. Ma M., Liu Z.L. Mechanisms of ethanol tolerance in Saccharomyces cerevisiae. Appl. Microbiol. Biotechnol. 2010, 87:829-845.
26. Ogawa Y., Nitta A., Uchiyama H., Imamura T., Shimoi H., Ito K. Tolerance mechanism of the ethanol-tolerant mutant of sake yeast. J. Biosci. Bioeng. 2000, 90:313-320.
27. Phalip V., Kuhn I., Lemoine Y., Jeltsch J.M. Characterization of the biotin biosynthesis pathway in Saccharomyces cerevisiae and evidence for a cluster containing BIO5, a novel gene involved in vitamer uptake. Gene 1999, 232:43-51.
28. Raamsdonk L.M., Teusink B., Broadhurst D., Zhang N., Hayes A., Walsh M.C., Berden J.A., Brindle K.M., Kell D.B., Rowland J.J., Westerhoff H.V., van Dam K., Oliver S.G. A functional genomics strategy that uses metabolome data to reveal the phenotype of silent mutations. Nat. Biotechnol. 2001, 19:45-50.
29. Regenberg B., Grotkjaer T., Winther O., Fausbøll A., Akesson M., Bro C., Hansen L.K., Brunak S., Nielsen J. Growth-rate regulated genes have profound impact on interpretation of transcriptome profiling in Saccharomyces cerevisiae. Genome Biol. 2006, 7:R107.
30. Sajbidor J., Ciesarova Z., Smogrovicova D. Influence of ethanol on the lipid content and fatty acid composition of Saccharomyces cerevisiae. Folia. Microbiol. (Praha) 1995, 40:508-510.
31. Stanley D., Bandara A., Fraser S., Chambers P.J., Stanley G.A. The ethanol stress response and ethanol tolerance of Saccharomyces cerevisiae. J. Appl. Microbiol. 2010, 10.1111/j.1365-2672.2009.04657.x.
32. Tusher V.G., Tibshirani R., Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proc. Natl. Acad. Sci. U.S.A. 2001, 98:5116-5121.
33. Zaldivar J., Nielsen J., Olsson L. Fuel ethanol production from lignocellulose: a challenge for metabolic engineering and process integration. Appl. Microbiol. Biotechnol. 2001, 56:17-34.