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Transcriptomics analysis of Pichia pastoris strains engineered for enhanced branched-chain amino acids production

ABSTRACT: Transcriptomics analysis revealed that Ilv3 gene overexpression regulates the metabolic networks of branched-chain amino acid synthesis, the TCA cycle, methanol assimilation, and carbon‑nitrogen co‑utilization in Pichia pastoris. This study compared the global gene expression differences between the wild‑type and engineered strains under methanol induction.

ORGANISM(S): Komagataella pastoris

PROVIDER: GSE315188 | GEO | 2026/01/06

REPOSITORIES: GEO

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Project description:Over the past three decades, due to the universal application of Pichia yeast in the fermentation industry as well as the establishment of Pichia pastoris fermentation process for more than 30 years, the technology of the whole process has become very mature and has now reached a stagnated period of growth. However, studies and research conducted on the genomics of the classic fermentation process and the uncovering of the biological phenomena in the fermentation process from the point of view of high-throughput gene or protein is still in its early stages, and there is still insufficient data within this field. First, in collaboration with Agilent Company, we designed and prepared an expression microarray that could be used for the detection of Pichia pastoris transcriptomics. The transcriptomic changes in the five key technology steps (time points), during the fermentation process of Pichia pastoris would then be detected with the aid of an expression microarray. The five key steps of technology described above formed two important biological processes, namely, the limiting carbon source replacement and secondly, the fermentative production of exogenous proteins. The biological phenomena involved in these two processes were displayed and analyzed at the transcriptional level. In addition to this, with regard to the most important function in the fermentation process of Pichia pastoris, oxid-reduction, the metabolic drift process was analyzed and the important genes that might dominate the changes in the metabolic flux were discovered creatively by using the function tree method in this paper. This study was undertaken from the point of view of the transcriptome and the biological phenomena in the fermemntation process of Pichia pastoris. Both of which, were thoroughly explained during this study. The hope is for many more researchers to optimize the strain fermentation process, to produce proteins at the genetic level, as well as providing and obtaining new perspectives and detailed scientific data for the continued development within this field.

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Transcriptomics analysis of Pichia pastoris strains engineered for enhanced branched-chain amino acids production

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