Comparative Genomics

Comparative Genomics

  • August 5, 2016

Together with Kartik Shah from Love Lab at MIT, we assembled, annotated and compared three yeast strains. The study identifed major genomic rearrangements, a novel linear plasmid in K. phaffii, and 35 non-synonymous mutations in the industrial strain GS115. Deep RNA-Seq under diverse growth conditions revealed gene expression dynamics related to metabolism, secretion, and stress responses. Using co-expression analysis and functional enrichment, the study mapped regulatory networks and metabolic pathways. These comprehensive genomic and transcriptomic resources provide a solid foundation for improving strain engineering and optimizing recombinant protein production systems.

  • Kerry R. Love, Kartik A. Shah, Charles A. Whittaker, Jie Wu, M. Catherine Bartlett, Duanduan Ma, Rachel L. Leeson, Margaret Priest, Jonathan Borowsky, Sarah K. Young & J. Christopher Love. Comparative genomics and transcriptomics of Pichia pastoris. BMC Genomics, 2016, link
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