Microbial production of advanced biofuels
Concerns over climate change have necessitated a rethinking of our transportation
infrastructure. One possible alternative to carbon-polluting fossil fuels is biofuels produced …
infrastructure. One possible alternative to carbon-polluting fossil fuels is biofuels produced …
[HTML][HTML] Automating the design-build-test-learn cycle towards next-generation bacterial cell factories
Automation is playing an increasingly significant role in synthetic biology. Groundbreaking
technologies, developed over the past 20 years, have enormously accelerated the …
technologies, developed over the past 20 years, have enormously accelerated the …
OptCom: a multi-level optimization framework for the metabolic modeling and analysis of microbial communities
AR Zomorrodi, CD Maranas - PLoS computational biology, 2012 - journals.plos.org
Microorganisms rarely live isolated in their natural environments but rather function in
consolidated and socializing communities. Despite the growing availability of high …
consolidated and socializing communities. Despite the growing availability of high …
Computationally efficient flux variability analysis
S Gudmundsson, I Thiele - BMC bioinformatics, 2010 - Springer
Background Flux variability analysis is often used to determine robustness of metabolic
models in various simulation conditions. However, its use has been somehow limited by the …
models in various simulation conditions. However, its use has been somehow limited by the …
OptForce: an optimization procedure for identifying all genetic manipulations leading to targeted overproductions
S Ranganathan, PF Suthers… - PLoS computational …, 2010 - journals.plos.org
Computational procedures for predicting metabolic interventions leading to the
overproduction of biochemicals in microbial strains are widely in use. However, these …
overproduction of biochemicals in microbial strains are widely in use. However, these …
Genome-scale metabolic network modeling results in minimal interventions that cooperatively force carbon flux towards malonyl-CoA
Malonyl-coenzyme A is an important precursor metabolite for the biosynthesis of
polyketides, flavonoids and biofuels. However, malonyl-CoA naturally synthesized in …
polyketides, flavonoids and biofuels. However, malonyl-CoA naturally synthesized in …
The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli
AM Feist, BØ Palsson - Nature biotechnology, 2008 - nature.com
The number and scope of methods developed to interrogate and use metabolic network
reconstructions has significantly expanded over the past 15 years. In particular, Escherichia …
reconstructions has significantly expanded over the past 15 years. In particular, Escherichia …
Engineering biological systems using automated biofoundries
Engineered biological systems such as genetic circuits and microbial cell factories have
promised to solve many challenges in the modern society. However, the artisanal processes …
promised to solve many challenges in the modern society. However, the artisanal processes …
Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments
The advent of rapid complete genome sequencing, and the potential to capture this
information in genome-scale metabolic models, provide the possibility of comprehensively …
information in genome-scale metabolic models, provide the possibility of comprehensively …
DCEO biotechnology: tools to design, construct, evaluate, and optimize the metabolic pathway for biosynthesis of chemicals
Chemical synthesis is a well established route for producing many chemicals on a large
scale, but some drawbacks still exist in this process, such as unstable intermediates …
scale, but some drawbacks still exist in this process, such as unstable intermediates …