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A Coupled Experiment-finite Element Modeling Methodology for Assessing High Strain Rate Mechanical Response of Soft Biomaterials
Published on: May 18, 2015
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Computational Approaches on Stoichiometric and Kinetic Modeling for Efficient Strain Design
Mohammad Mazharul Islam1, Rajib Saha2
1Chemical and Biomolecular Engineering, University of Nebraska-Lincoln, Lincoln, NE, 68588, USA.
Methods in Molecular Biology (Clifton, N.J.)
|November 25, 2017
Summary
This study presents optimization-based methods for metabolic engineering, enabling the design of biological systems for enhanced product overproduction. These techniques generate genetic intervention hypotheses for improved strain design and microbial community analysis.
Area of Science:
- Biotechnology
- Metabolic Engineering
- Systems Biology
Background:
- The goal of biotechnology is to engineer biological systems for overproducing valuable products.
- Stoichiometric and kinetic models are increasingly available for diverse organisms.
- Model availability has driven the development of optimization-based strain design.
Purpose of the Study:
- To highlight optimization-based frameworks for metabolic engineering.
- To generate testable hypotheses for genetic interventions.
- To address challenges in strain design and microbial community analysis.
Main Methods:
- Presents stoichiometric model-based strain design.
- Details a method integrating kinetic information into stoichiometric models.
- Covers a method for analyzing microbial communities.
Main Results:
- Provides frameworks for designing biological systems for overproduction.
- Enables hypothesis generation for genetic modifications.
- Offers tools for analyzing complex microbial communities.
Conclusions:
- Optimization-based methods are crucial for advancing metabolic engineering.
- These techniques facilitate the rational design of microbial cell factories.
- The presented frameworks support both strain design and community-level analysis.
Keywords:
Computational strain designEnsemble modelingKinetic modelsMetabolic modelingMicrobial communitiesMulti-tissue modelStoichiometric metabolic modelsWhole plant modelMore Related Videos
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