Genome-scale metabolic network models: From first-generation to next-generation
Over the last two decades, thousands of genome-scale metabolic network models (GSMMs)
have been constructed. These GSMMs have been widely applied in various fields, ranging …
have been constructed. These GSMMs have been widely applied in various fields, ranging …
Automated engineering of synthetic metabolic pathways for efficient biomanufacturing
I Otero-Muras, P Carbonell - Metabolic Engineering, 2021 - Elsevier
Metabolic engineering involves the engineering and optimization of processes from single-
cell to fermentation in order to increase production of valuable chemicals for health, food …
cell to fermentation in order to increase production of valuable chemicals for health, food …
redGEM: Systematic reduction and analysis of genome-scale metabolic reconstructions for development of consistent core metabolic models
M Ataman, DF Hernandez Gardiol… - PLoS computational …, 2017 - journals.plos.org
Genome-scale metabolic reconstructions have proven to be valuable resources in
enhancing our understanding of metabolic networks as they encapsulate all known …
enhancing our understanding of metabolic networks as they encapsulate all known …
A comprehensive genome-scale model for Rhodosporidium toruloides IFO0880 accounting for functional genomics and phenotypic data
Rhodosporidium toruloides is a red, basidiomycetes yeast that can accumulate a large
amount of lipids and produce carotenoids. To better assess this non-model yeast's metabolic …
amount of lipids and produce carotenoids. To better assess this non-model yeast's metabolic …
Characterization of maximal enzyme catalytic rates in central metabolism of Arabidopsis thaliana
A Küken, K Gennermann, Z Nikoloski - The Plant Journal, 2020 - Wiley Online Library
Availability of plant‐specific enzyme kinetic data is scarce, limiting the predictive power of
metabolic models and precluding identification of genetic factors of enzyme properties …
metabolic models and precluding identification of genetic factors of enzyme properties …
Active and machine learning-based approaches to rapidly enhance microbial chemical production
In order to make renewable fuels and chemicals from microbes, new methods are required
to engineer microbes more intelligently. Computational approaches, to engineer strains for …
to engineer microbes more intelligently. Computational approaches, to engineer strains for …
Learning metabolic dynamics from irregular observations by Bidirectional Time-Series State Transfer Network
S Xu, T Xu, Y Yang, X Chen - Msystems, 2024 - journals.asm.org
Modeling microbial metabolic dynamics is important for the rational optimization of both
biosynthetic systems and industrial processes to facilitate green and efficient …
biosynthetic systems and industrial processes to facilitate green and efficient …
Frontiers and opportunities in bioenergy crop microbiome research networks
TIBRCMWCA Howe, G Bonito, MY Chou… - Phytobiomes …, 2022 - Am Phytopath Society
Researchers from across the four United States Department of Energy Bioenergy Research
Centers (BRCs) engaged in a microbiome workshop that focused on identifying challenges …
Centers (BRCs) engaged in a microbiome workshop that focused on identifying challenges …
Computational design and engineering of an Escherichia coli strain producing the nonstandard amino acid para-aminophenylalanine
AR Zomorrodi, C Hemez, P Arranz-Gibert, T Wu… - Iscience, 2022 - cell.com
Introducing heterologous pathways into host cells constitutes a promising strategy for
synthesizing nonstandard amino acids (nsAAs) to enable the production of proteins with …
synthesizing nonstandard amino acids (nsAAs) to enable the production of proteins with …
Dissecting metabolic flux in C4 plants: experimental and theoretical approaches
C 4 photosynthesis is the carbon fixation pathway in specific plant species, so called C 4
plants including maize, sorghum and sugarcane. It is characterized by the carboxylation …
plants including maize, sorghum and sugarcane. It is characterized by the carboxylation …