Recent trends in biocatalysis

D Yi, T Bayer, CPS Badenhorst, S Wu… - Chemical Society …, 2021 - pubs.rsc.org
Biocatalysis has undergone revolutionary progress in the past century. Benefited by the
integration of multidisciplinary technologies, natural enzymatic reactions are constantly …

Bioremediation 3.0: engineering pollutant-removing bacteria in the times of systemic biology

P Dvořák, PI Nikel, J Damborský, V de Lorenzo - Biotechnology advances, 2017 - Elsevier
Elimination or mitigation of the toxic effects of chemical waste released to the environment
by industrial and urban activities relies largely on the catalytic activities of microorganisms …

Rhea, the reaction knowledgebase in 2022

P Bansal, A Morgat, KB Axelsen… - Nucleic acids …, 2022 - academic.oup.com
Abstract Rhea (https://www. rhea-db. org) is an expert-curated knowledgebase of
biochemical reactions based on the chemical ontology ChEBI (Chemical Entities of …

[HTML][HTML] RetroPath2. 0: a retrosynthesis workflow for metabolic engineers

B Delépine, T Duigou, P Carbonell, JL Faulon - Metabolic engineering, 2018 - Elsevier
Synthetic biology applied to industrial biotechnology is transforming the way we produce
chemicals. However, despite advances in the scale and scope of metabolic engineering, the …

Engineering biological systems using automated biofoundries

R Chao, S Mishra, T Si, H Zhao - Metabolic Engineering, 2017 - Elsevier
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 …

Genetic biosensor design for natural product biosynthesis in microorganisms

GS Hossain, M Saini, R Miyake, H Ling… - Trends in …, 2020 - cell.com
Low yield and low titer of natural products are common issues in natural product
biosynthesis through microbial cell factories. One effective way to resolve such bottlenecks …

Reinforcement learning for bioretrosynthesis

M Koch, T Duigou, JL Faulon - ACS synthetic biology, 2019 - ACS Publications
Metabolic engineering aims to produce chemicals of interest from living organisms, to
advance toward greener chemistry. Despite efforts, the research and development process …

Plug-and-play metabolic transducers expand the chemical detection space of cell-free biosensors

PL Voyvodic, A Pandi, M Koch, I Conejero… - Nature …, 2019 - nature.com
Cell-free transcription–translation systems have great potential for biosensing, yet the range
of detectable chemicals is limited. Here we provide a workflow to expand the range of …

Evolution-guided engineering of small-molecule biosensors

T Snoek, EK Chaberski, F Ambri, S Kol… - Nucleic acids …, 2020 - academic.oup.com
Allosteric transcription factors (aTFs) have proven widely applicable for biotechnology and
synthetic biology as ligand-specific biosensors enabling real-time monitoring, selection and …

Metabolite–enzyme coevolution: from single enzymes to metabolic pathways and networks

L Noda-Garcia, W Liebermeister… - Annual Review of …, 2018 - annualreviews.org
How individual enzymes evolved is relatively well understood. However, individual enzymes
rarely confer a physiological advantage on their own. Judging by its current state, the …