Improving prediction fidelity of cellular metabolism with kinetic descriptions. (December 2015)

• Record Type: Journal Article
• Authors: Chowdhury, Anupam; Khodayari, Ali; Maranas, Costas D
• Is Part Of: Current opinion in biotechnology. Volume 36(2015)
• Page Start: 57
• Page End: 64
• Publication Date: 2015-12
• Subjects: Biotechnology -- Periodicals; 660.6
• DOI: 10.1016/j.copbio.2015.08.011
• Languages: English
• ISSNs: 0958-1669

Abstract

Graphical abstract: Several modeling frameworks for describing and redirecting cellular metabolism have been developed keeping pace with the rapid development in high-throughput data generation and advances in metabolic engineering techniques. The incorporation of kinetic information within stoichiometry-only modeling techniques offers potential advantages for improved phenotype prediction and consequently more precise computational strain design. In addition to substrate level kinetic regulatory information, the integration of a number of additional layers of regulation at the transcription, translation, and post-translation levels is sought after by many research groups. However, the practical integration of these complex biological processes into a unified framework amenable to design remains an ongoing challenge. Highlights: Kinetic model developments are reviewed. Integration of elementary mechanisms with ensemble parameter sampling techniques is detailed. Integration of regulatory events with kinetic models of metabolism is discussed. Incorporation of kinetic information in stoichiometry-only metabolic models hold promise to improve strain design. Abstract : Several modeling frameworks for describing and redirecting cellular metabolism have been developed keeping pace with the rapid development in high-throughput data generation and advances in metabolic engineering techniques. The incorporation of kinetic information within stoichiometry-only modeling techniques offers potential advantages for improved phenotype prediction and consequently more precise computational strain design. In addition to substrate-level kinetic regulatory information, the integration of a number of additional layers of regulation at the transcription, translation, and post-translation levels is sought after by many research groups. However, the practical integration of these complex biological processes into a unified framework amenable to design remains an ongoing challenge.