title: Investigating the effectiveness of DNA microarray analysis for identifying the genes involved in l-lactate production by Saccharomyces cerevisiae.
abstract: In order to determine whether transcriptome data obtained by DNA microarray analysis could be used to identify the genes involved in target metabolite production, we tried to identify the genes involved in L-lactate production by L-lactate-producing recombinant Saccharomyces cerevisiae strains. We obtained DNA microarray data for these strains. Plasmids carrying lactic acid bacteria, bovine, and human L-lactate dehydrogenase (LDH) genes were introduced into PDC1-disrupted S. cerevisiae strains. L-Lactate productivity of the strains harboring the human and bovine LDH genes was higher than that of the strains harboring lactic acid bacteria LDH genes. DNA microarray analysis revealed that the expression of 388 genes was significantly altered in the strains with the human and bovine LDH genes. Of these, the L-lactate productivity of human LDH-harboring deletion strains of 289 genes was compared with that of the standard and 56 randomly selected deletion strains containing the same LDH gene to validate the effectiveness of DNA microarray analysis for identifying the genes responsible for L-lactate production in the recombinant strains. Only deletion strains of the genes selected on the basis of the DNA microarray data showed significantly altered L-lactate production as compared to the standard and the randomly selected deletion strains. Our results indicated that the genes related to L-lactate production could be successfully identified by selecting the genes that exhibited significantly altered expression on DNA microarray analysis, and the effectiveness of DNA microarray analysis for identifying the genes responsible for L-lactate production was discussed.
authors.affiliation: Department of Bioinformatic Engineering, Osaka University, Suita, Japan.
authors.forename: Takashi
authors.initials: T
authors.lastname: Hirasawa
authors.forename: Aki
authors.initials: A
authors.lastname: Ookubo
authors.forename: Katsunori
authors.initials: K
authors.lastname: Yoshikawa
authors.forename: Keisuke
authors.initials: K
authors.lastname: Nagahisa
authors.forename: Chikara
authors.initials: C
authors.lastname: Furusawa
authors.forename: Hideki
authors.initials: H
authors.lastname: Sawai
authors.forename: Hiroshi
authors.initials: H
authors.lastname: Shimizu
mesh_terms: D000818:Animals; D053898:Biosynthetic Pathways / Q000235:genetics*; D002417:Cattle; D004247:DNA / Q000235:genetics; D017353:Gene Deletion; D020869:Gene Expression Profiling; D015966:Gene Expression Regulation, Fungal; D005800:Genes, Fungal; D006801:Humans; D007218:Industrial Microbiology; D007770:L-Lactate Dehydrogenase / Q000235:genetics / Q000378:metabolism; D019344:Lactic Acid / Q000096:biosynthesis*; D020411:Oligonucleotide Array Sequence Analysis; D012441:Saccharomyces cerevisiae / Q000235:genetics / Q000378:metabolism*
chemical_list: D019344:Lactic Acid; D004247:DNA; D007770:L-Lactate Dehydrogenase