Advances in engineering and optimization of transcription factor-based biosensors for plug-and-play small molecule detection

Encoding Genetic Circuits with DNA Barcodes Paves the Way for Machine Learning-Assisted Metabolite Biosensor Response Curve Profiling in Yeast

(2022) Yikang Zhou et al.   ACS Synthetic Biology

Evolving a Generalist Biosensor for Bicyclic Monoterpenes

(2022) Simon d’Oelsnitz et al.   ACS Synthetic Biology

Using fungible biosensors to evolve improved alkaloid biosyntheses

(2022) Simon d’Oelsnitz et al.   Nature Chemical Biology

De novo design of modular and tunable protein biosensors

(2021) Alfredo Quijano-Rubio et al.   NATURE

Macrolide Biosensor Optimization through Cellular Substrate Sequestration

(2021) Corwin A. Miller et al.   ACS Synthetic Biology

Genetic circuits combined with machine learning provides fast responding living sensors

(2021) Behide Saltepe et al.   BIOSENSORS & BIOELECTRONICS

Engineering AraC to make it responsive to light instead of arabinose

(2021) Edoardo Romano et al.   Nature Chemical Biology

Highly accurate protein structure prediction with AlphaFold

(2021) John Jumper et al.   NATURE

Wearable materials with embedded synthetic biology sensors for biomolecule detection

(2021) Peter Q. Nguyen et al.   NATURE BIOTECHNOLOGY

An l-2-hydroxyglutarate biosensor based on specific transcriptional regulator LhgR

(2021) Zhaoqi Kang et al.   Nature Communications

Development of a Biosensor Platform for Phenolic Compounds Using a Transition Ligand Strategy

(2021) Lion Konstantin Flachbart et al.   ACS Synthetic Biology

Development of Genetically Encoded Biosensors for Reporting the Methyltransferase-Dependent Biosynthesis of Semisynthetic Macrolide Antibiotics

(2021) Yiwei Li et al.   ACS Synthetic Biology

Computer-Aided Rational Engineering of Signal Sensitivity of Quorum Sensing Protein LuxR in a Whole-Cell Biosensor

(2021) Jinyu Li et al.   Frontiers in Molecular Biosciences

Directed evolution of biofuel-responsive biosensors for automated optimization of branched-chain alcohol biosynthesis

(2021) Maximilian O. Bahls et al.   METABOLIC ENGINEERING

Cheating the Cheater: Suppressing False-Positive Enrichment during Biosensor-Guided Biocatalyst Engineering

(2021) Vikas D. Trivedi et al.   ACS Synthetic Biology

Predicting Composition of Genetic Circuits with Resource Competition: Demand and Sensitivity

(2021) Cameron D. McBride et al.   ACS Synthetic Biology

Evolving Small-Molecule Biosensors with Improved Performance and Reprogrammed Ligand Preference Using OrthoRep

(2021) Alex A. Javanpour et al.   ACS Synthetic Biology

Trade-Offs in Biosensor Optimization for Dynamic Pathway Engineering

(2021) Babita K. Verma et al.   ACS Synthetic Biology

Precise Prediction of Promoter Strength Based on a De Novo Synthetic Promoter Library Coupled with Machine Learning

(2021) Mei Zhao et al.   ACS Synthetic Biology

Development of a Transcription Factor-Based Diamine Biosensor in Corynebacterium glutamicum

(2021) Nannan Zhao et al.   ACS Synthetic Biology

Engineering ligand-specific biosensors for aromatic amino acids and neurochemicals

(2021) Austin G. Rottinghaus et al.   Cell Systems

A genome-wide approach for identification and characterisation of metabolite-inducible systems

(2020) Erik K. R. Hanko et al.   Nature Communications

Development of High-Performance Whole Cell Biosensors Aided by Statistical Modeling

(2020) Adokiye Berepiki et al.   ACS Synthetic Biology

High-Resolution Scanning of Optimal Biosensor Reporter Promoters in Yeast

(2020) Francesca Ambri et al.   ACS Synthetic Biology

A progesterone biosensor derived from microbial screening

(2020) Chloé Grazon et al.   Nature Communications

Engineering Prokaryotic Transcriptional Activator XylR as a Xylose-Inducible Biosensor for Transcription Activation in Yeast

(2020) Wenping Wei et al.   ACS Synthetic Biology

Two-Component Biosensors: Unveiling the Mechanisms of Predictable Tunability

(2020) Eva Gonzalez-Flo et al.   ACS Synthetic Biology

Programmable cross-ribosome-binding sites to fine-tune the dynamic range of transcription factor-based biosensor

(2020) Nana Ding et al.   NUCLEIC ACIDS RESEARCH

Engineering and application of a biosensor with focused ligand specificity

(2020) Dennis Della Corte et al.   Nature Communications

Design, Evolution, and Characterization of a Xylose Biosensor in Escherichia coli Using the XylR/xylO System with an Expanded Operating Range

(2020) Rui-Qi Tang et al.   ACS Synthetic Biology

Machine learning linked evolutionary biosensor array for highly sensitive and specific molecular identification

(2020) Haseong Kim et al.   BIOSENSORS & BIOELECTRONICS

Engineering metabolite-responsive transcriptional factors to sense small molecules in eukaryotes: current state and perspectives

(2019) Xia Wan et al.   Microbial Cell Factories

Machine learning-assisted directed protein evolution with combinatorial libraries

(2019) Zachary Wu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2019) Peter L. Voyvodic et al.   Nature Communications

Opportunities at the Intersection of Synthetic Biology, Machine Learning, and Automation

(2019) Pablo Carbonell et al.   ACS Synthetic Biology

MerR‐fluorescent protein chimera biosensor for fast and sensitive detection of Hg 2+ in drinking water

(2019) Canan Özyurt et al.   BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY

De novo design of programmable inducible promoters

(2019) Xiangyang Liu et al.   NUCLEIC ACIDS RESEARCH

Expanding the Dynamic Range of a Transcription Factor-Based Biosensor in Saccharomyces cerevisiae

(2019) Yasaman Dabirian et al.   ACS Synthetic Biology

Reverse Engineering of an Aspirin-Responsive Transcriptional Regulator in Escherichia coli

(2019) Lummy Maria Oliveira Monteiro et al.   ACS Synthetic Biology

Transcriptional programming using engineered systems of transcription factors and genetic architectures

(2019) Ronald E. Rondon et al.   Nature Communications

Transcription factor-based biosensors and inducible systems in non-model bacteria: current progress and future directions

(2019) Nancy M Kim et al.   CURRENT OPINION IN BIOTECHNOLOGY

Building a minimal and generalizable model of transcription factor-based biosensors: Showcasing flavonoids

(2018) Heykel Trabelsi et al.   BIOTECHNOLOGY AND BIOENGINEERING

Integrating T7 RNA Polymerase and Its Cognate Transcriptional Units for a Host-Independent and Stable Expression System in Single Plasmid

(2018) Xiao Liang et al.   ACS Synthetic Biology

Modularization and Response Curve Engineering of a Naringenin-Responsive Transcriptional Biosensor

(2018) Brecht De Paepe et al.   ACS Synthetic Biology

Biosensor libraries harness large classes of binding domains for construction of allosteric transcriptional regulators

(2018) Javier F. Juárez et al.   Nature Communications

Blueprints for Biosensors: Design, Limitations, and Applications

(2018) Alexander Carpenter et al.   Genes

Design of Protein-Based Biosensors for Selective Detection of Benzene Groups of Pollutants

(2018) Shamayeeta Ray et al.   ACS Sensors

Escherichia coli “Marionette” strains with 12 highly optimized small-molecule sensors

(2018) Adam J. Meyer et al.   Nature Chemical Biology

Chimeric LysR-Type Transcriptional Biosensors for Customizing Ligand Specificity Profiles toward Flavonoids

(2018) Brecht De Paepe et al.   ACS Synthetic Biology

Fundamental Design Principles for Transcription-Factor-Based Metabolite Biosensors

(2017) Ahmad A. Mannan et al.   ACS Synthetic Biology

Development of Transcription Factor-Based Designer Macrolide Biosensors for Metabolic Engineering and Synthetic Biology

(2017) Christian M. Kasey et al.   ACS Synthetic Biology

Design and Selection of a Synthetic Feedback Loop for Optimizing Biofuel Tolerance

(2017) Yik Siu et al.   ACS Synthetic Biology

Structure Guided Design of Protein Biosensors for Phenolic Pollutants

(2017) Shamayeeta Ray et al.   ACS Sensors

Biosensor-based engineering of biosynthetic pathways

(2016) Jameson K Rogers et al.   CURRENT OPINION IN BIOTECHNOLOGY

Tailor-made transcriptional biosensors for optimizing microbial cell factories

(2016) Brecht De Paepe et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Engineering prokaryotic transcriptional activators as metabolite biosensors in yeast

(2016) Mette L Skjoedt et al.   Nature Chemical Biology

SensiPath: computer-aided design of sensing-enabling metabolic pathways

(2016) Baudoin Delépine et al.   NUCLEIC ACIDS RESEARCH

Genetically encoded sensors enable real-time observation of metabolite production

(2016) Jameson K. Rogers et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Efflux Pump Control Alters Synthetic Gene Circuit Function

(2016) Junchen Diao et al.   ACS Synthetic Biology

Development of biosensors and their application in metabolic engineering

(2015) Jie Zhang et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Engineering an allosteric transcription factor to respond to new ligands

(2015) Noah D Taylor et al.   NATURE METHODS

Rosetta comparative modeling for library design: Engineering alternative inducer specificity in a transcription factor

(2015) Ramesh K. Jha et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Evolution-guided optimization of biosynthetic pathways

(2014) Srivatsan Raman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metagenomic Screening for Aromatic Compound-Responsive Transcriptional Regulators

(2013) Taku Uchiyama et al.   PLoS One

Design of a dynamic sensor-regulator system for production of chemicals and fuels derived from fatty acids

(2012) Fuzhong Zhang et al.   NATURE BIOTECHNOLOGY

Novel insights from hybrid LacI/GalR proteins: family-wide functional attributes and biologically significant variation in transcription repression

(2012) Sarah Meinhardt et al.   NUCLEIC ACIDS RESEARCH

Substrate-induced gene expression (SIGEX) screening of metagenome libraries

(2008) Taku Uchiyama et al.   Nature Protocols