Retrosynthetic design of metabolic pathways to chemicals not found in nature

GM Lin, R Warden-Rothman, CA Voigt - Current Opinion in Systems …, 2019 - Elsevier
Biology produces a universe of chemicals whose precision and complexity is the envy of
chemists. Over the last 30 years, the expansive field of metabolic engineering has many …

A review of computational tools for design and reconstruction of metabolic pathways

L Wang, S Dash, CY Ng, CD Maranas - Synthetic and systems …, 2017 - Elsevier
Metabolic pathways reflect an organism's chemical repertoire and hence their elucidation
and design have been a primary goal in metabolic engineering. Various computational …

White biotechnology: state of the art strategies for the development of biocatalysts for biorefining

S Heux, I Meynial-Salles, MJ O'Donohue… - Biotechnology …, 2015 - Elsevier
White biotechnology is a term that is now often used to describe the implementation of
biotechnology in the industrial sphere. Biocatalysts (enzymes and microorganisms) are the …

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 …

Unravelling formaldehyde metabolism in bacteria: road towards synthetic methylotrophy

VJ Klein, M Irla, M Gil López, T Brautaset… - Microorganisms, 2022 - mdpi.com
Formaldehyde metabolism is prevalent in all organisms, where the accumulation of
formaldehyde can be prevented through the activity of dissimilation pathways. Furthermore …

Methanol dehydrogenases as a key biocatalysts for synthetic methylotrophy

TK Le, YJ Lee, GH Han, SJ Yeom - Frontiers in Bioengineering and …, 2021 - frontiersin.org
One-carbon (C1) chemicals are potential building blocks for cheap and sustainable re-
sources such as methane, methanol, formaldehyde, formate, carbon monoxide, and more …

Bioinformatics for the synthetic biology of natural products: integrating across the Design–Build–Test cycle

P Carbonell, A Currin, AJ Jervis, NJW Rattray… - Natural product …, 2016 - pubs.rsc.org
Covering: 2000 to 2016 Progress in synthetic biology is enabled by powerful bioinformatics
tools allowing the integration of the design, build and test stages of the biological …

Designing overall stoichiometric conversions and intervening metabolic reactions

A Chowdhury, CD Maranas - Scientific reports, 2015 - nature.com
Existing computational tools for de novo metabolic pathway assembly, either based on
mixed integer linear programming techniques or graph-search applications, generally only …

Computational approaches to design and test plant synthetic metabolic pathways

A Küken, Z Nikoloski - Plant Physiology, 2019 - academic.oup.com
Successfully designed and implemented plant-specific synthetic metabolic pathways hold
promise to increase crop yield and nutritional value. Advances in synthetic biology have …

Enumerating all possible biosynthetic pathways in metabolic networks

A Ravikrishnan, M Nasre, K Raman - Scientific reports, 2018 - nature.com
Exhaustive identification of all possible alternate pathways that exist in metabolic networks
can provide valuable insights into cellular metabolism. With the growing number of …