From Data to Design: Metabolomics-Driven Modeling in Metabolic Engineering

Dear Colleagues,

Metabolomics plays a key role in understanding underlying mechanisms or bottlenecks in engineered biological systems to enhance the production of desired compounds. As biological systems are complex, modeling such metabolomics data can aid in streamlining experiments conducted to efficiently determine optimal metabolic pathways, fermentation conditions, and engineer strains towards improving biomass and/or product yields.

This Special Issue of Metabolites shall publish reviews and original articles covering the latest developments in the following fields:

1. The design rationale of fermentation scale-ups from shake flasks to lab- and pilot-scale bioreactors, including frameworks, e.g., design–build–test–learn (DBTL), quality-by-design/ process analytical technology (QbD/ PAT), etc.;
2. Metabolomics-driven modeling of engineered strains, e.g., algae, bacteria, yeast, fungi, and mammalian cells; this could include cell population heterogeneity aspects;
3. Comparative studies of metabolomics data modeling with other omics data to better understand and propel metabolic engineering developments;
4. The demonstration of computational algorithms utilized in expediting metabolomics-driven modeling, e.g., biokinetics modeling, statistical analyses, machine learning, and artificial intelligence.

Furthermore, experimental and computational breakthroughs in generating metabolomics data for modeling and new approaches in using hybrid modeling in metabolic engineering may be included.

Dr. Wee Chew
Dr. Jasmeet Kaur Khanijou
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Metabolites is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2700 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

• kinetic modeling
• constraint-based modeling
• hybrid modeling
• quantitative metabolomics
• machine learning
• artificial intelligence
• isotopic labeling
• fermentation conditions
• metabolic engineering
• system biology