Constraint-based reconstruction and analysis (COBRA) methods at the genome scale have
been under development since the first whole-genome sequences appeared in the mid …

Reconstructed microbial metabolic networks facilitate a mechanistic description of the
genotype–phenotype relationship through the deployment of constraint-based …

Over the past decade, a growing community of researchers has emerged around the use of
constraint-based reconstruction and analysis (COBRA) methods to simulate, analyze and …

Carbon fixation is the process by which CO2 is incorporated into organic compounds. In
modern agriculture in which water, light, and nutrients can be abundant, carbon fixation …

Ecologists have long sought to understand how diversity and structure mediate the stability
of whole ecosystems. For high-diversity food webs, the interactions between species are …

Genome-scale metabolic modeling has become widespread for analyzing microbial
metabolism. Extending this established paradigm to more complex microbial communities is …

As the indispensable role of natural microbial communities in many aspects of life on Earth
is uncovered, the bottom-up engineering of synthetic microbial consortia with novel functions …

The reconstruction and analysis of genome-scale metabolic models constitutes a powerful
systems biology approach, with applications ranging from basic understanding of genotype …

Background Metabolomics has emerged as a powerful tool in the quantitative identification
of physiological and disease-induced biological states. Extracellular metabolome or …

Enzymes are thought to have evolved highly specific catalytic activities from promiscuous
ancestral proteins. By analyzing a genome-scale model of Escherichia coli metabolism, we …