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Genome-wide expression analysis of Saccharomyces pastorianus orthologous genes using oligonucleotide microarrays.
J Biosci Bioeng. 2010 Nov; 110(5):602-7.JB

Abstract

The lager brewing yeast, Saccharomyces pastorianus, an allopolyploid species hybrid, contains 2 diverged sub-genomes; one derived from Saccharomyces cerevisiae (Sc-type) and the other from Saccharomyces bayanus (Sb-type). We analyzed the functional roles of these orthologous genes in determining the phenotypic features of S. pastorianus. We used a custom-made oligonucleotide microarray containing probes designed for both Sc-type and Sb-type ORFs for a comprehensive expression analysis of S. pastorianus in a pilot-scale fermentation. We showed a high degree of correlation between the expression levels and the expression changes for a majority of orthologous gene sets during the fermentation process. We screened the functional categories and metabolic pathways where Sc- or Sb-type genes have higher expression levels than the corresponding orthologous genes. Our data showed that, for example, pathways for sulfur metabolism, cellular import, and production of branched amino acids are dominated by Sb-type genes. This comprehensive expression analysis of orthologous genes can provide valuable insights on understanding the phenotype of S. pastorianus.

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Authors+Show Affiliations

Horinouchi T
Department of Bioinformatic Engineering, Graduate school of Information Science and Technology, Osaka University, 1-5 Yamadaoka, Suita, Osaka 565-0871, Japan.
Yoshikawa K
No affiliation info available
Kawaide R
No affiliation info available
Furusawa C
No affiliation info available
Nakao Y
No affiliation info available
Hirasawa T
No affiliation info available
Shimizu H
No affiliation info available

MeSH

BeerComputational BiologyDNA, FungalFermentationFood MicrobiologyFood TechnologyGenome, FungalGenome-Wide Association StudyMetabolic Networks and PathwaysOligonucleotide Array Sequence AnalysisPhenotypeSaccharomyces

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

20547377

Citation

Horinouchi, Takaaki, et al. "Genome-wide Expression Analysis of Saccharomyces Pastorianus Orthologous Genes Using Oligonucleotide Microarrays." Journal of Bioscience and Bioengineering, vol. 110, no. 5, 2010, pp. 602-7.
Horinouchi T, Yoshikawa K, Kawaide R, et al. Genome-wide expression analysis of Saccharomyces pastorianus orthologous genes using oligonucleotide microarrays. J Biosci Bioeng. 2010;110(5):602-7.
Horinouchi, T., Yoshikawa, K., Kawaide, R., Furusawa, C., Nakao, Y., Hirasawa, T., & Shimizu, H. (2010). Genome-wide expression analysis of Saccharomyces pastorianus orthologous genes using oligonucleotide microarrays. Journal of Bioscience and Bioengineering, 110(5), 602-7. https://doi.org/10.1016/j.jbiosc.2010.05.011
Horinouchi T, et al. Genome-wide Expression Analysis of Saccharomyces Pastorianus Orthologous Genes Using Oligonucleotide Microarrays. J Biosci Bioeng. 2010;110(5):602-7. PubMed PMID: 20547377.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genome-wide expression analysis of Saccharomyces pastorianus orthologous genes using oligonucleotide microarrays. AU - Horinouchi,Takaaki, AU - Yoshikawa,Katsunori, AU - Kawaide,Risa, AU - Furusawa,Chikara, AU - Nakao,Yoshihiro, AU - Hirasawa,Takashi, AU - Shimizu,Hiroshi, Y1 - 2010/06/11/ PY - 2010/03/11/received PY - 2010/04/26/revised PY - 2010/05/20/accepted PY - 2010/6/16/entrez PY - 2010/6/16/pubmed PY - 2011/2/4/medline SP - 602 EP - 7 JF - Journal of bioscience and bioengineering JO - J Biosci Bioeng VL - 110 IS - 5 N2 - The lager brewing yeast, Saccharomyces pastorianus, an allopolyploid species hybrid, contains 2 diverged sub-genomes; one derived from Saccharomyces cerevisiae (Sc-type) and the other from Saccharomyces bayanus (Sb-type). We analyzed the functional roles of these orthologous genes in determining the phenotypic features of S. pastorianus. We used a custom-made oligonucleotide microarray containing probes designed for both Sc-type and Sb-type ORFs for a comprehensive expression analysis of S. pastorianus in a pilot-scale fermentation. We showed a high degree of correlation between the expression levels and the expression changes for a majority of orthologous gene sets during the fermentation process. We screened the functional categories and metabolic pathways where Sc- or Sb-type genes have higher expression levels than the corresponding orthologous genes. Our data showed that, for example, pathways for sulfur metabolism, cellular import, and production of branched amino acids are dominated by Sb-type genes. This comprehensive expression analysis of orthologous genes can provide valuable insights on understanding the phenotype of S. pastorianus. SN - 1347-4421 UR - https://www.unboundmedicine.com/medline/citation/20547377/Genome_wide_expression_analysis_of_Saccharomyces_pastorianus_orthologous_genes_using_oligonucleotide_microarrays_ L2 - https://linkinghub.elsevier.com/retrieve/pii/S1389-1723(10)00185-4 DB - PRIME DP - Unbound Medicine ER -