Industrial applications of bioinformatics and genome editing

This review describes industrial applications of bioinformatics and genome editing technologies developed at PtBio Inc., a start-up spun out of Hiroshima University that pursues data-driven manufacturing. The pioneering case is ovomucoid-free chickens, developed using Platinum TALEN to knock out the gene encoding ovomucoid, a major egg allergen; commercialization is now proceeding with support from MAFF SBIR3 funding. The approach has subsequently expanded to non-model organisms, including red perilla, farmed fish, stress-tolerant turfgrass, and industrial microorganisms. To accelerate biomarker discovery, we developed a meta-analysis pipeline that combines public RNA-Seq data with automated curation algorithms. This pipeline has been extended to screen functional ingredients by comparing gene-expression profiles. In addition, a genome-variation monitoring platform for industrial microorganisms is being developed to shift manufacturing quality control from reactive correction to predictive prevention. By integrating genomic and phenotypic data through AI-driven feedback and providing user-friendly analytical tools, including those for metagenomics, we seek to establish an accessible ecosystem that supports food science, agriculture, aquaculture, and bio-manufacturing.