A5031799596- Gene Regulatory Network Analysis
- Microbial Metabolic Engineering and Bioproduction
- Bioinformatics and Genomic Networks
- Gene expression and cancer classification
- Bacterial Genetics and Biotechnology
- CRISPR and Genetic Engineering
- Biofuel production and bioconversion
- Enzyme Catalysis and Immobilization
- Microbial metabolism and enzyme function
- RNA and protein synthesis mechanisms
- Advanced biosensing and bioanalysis techniques
- Plant Pathogenic Bacteria Studies
- Viral Infectious Diseases and Gene Expression in Insects
- Advanced Wireless Communication Techniques
- Plant-Microbe Interactions and Immunity
- Innovative Microfluidic and Catalytic Techniques Innovation
- Plant biochemistry and biosynthesis
- Advanced MIMO Systems Optimization
- Genomics and Phylogenetic Studies
- Ga2O3 and related materials
- Biosensors and Analytical Detection
- Error Correcting Code Techniques
- Bacteriophages and microbial interactions
- Advanced Wireless Network Optimization
- Legume Nitrogen Fixing Symbiosis
Korea Research Institute of Bioscience and Biotechnology
2016-2025
Korea University of Science and Technology
2016-2025
Korea Advanced Institute of Science and Technology
2023-2025
Seoul National University
2007-2023
Pohang University of Science and Technology
2019-2023
Samsung (South Korea)
2021
Chonnam National University
2018-2021
Korea Innotech (South Korea)
2021
Intelligent Synthetic Biology Center
2016-2019
Imperial College London
2009-2014
Biocatalytic cyclization is highly desirable for efficient synthesis of biologically derived chemical substances, such as the commodity chemicals ε-caprolactam and δ-valerolactam. To identify biocatalysts in lactam biosynthesis, we develop a caprolactam-detecting genetic enzyme screening system (CL-GESS). The Alcaligenes faecalis regulatory protein NitR adopted specific detection compounds against biosynthetic intermediates. We further systematically optimize components CL-GESS to enhance...
Large-scale screening of enzyme libraries is essential for the development cost-effective biological processes, which will be indispensable production sustainable biobased chemicals. Here, we introduce a genetic circuit termed Genetic Enzyme Screening System that highly useful high-throughput from diverse microbial metagenomes. The consists two AND logics. first logic, inputs are target and its substrate, responsible accumulation phenol compound in cell. Then, inducible transcription factor,...
Clustered regularly interspaced short palindromic repeats interference (CRISPRi) is an emerging technology for artificial gene regulation. Type II CRISPR-Cas endonuclease Cas9 the most widely used protein regulation with CRISPRi. Here, we present type V-A Cpf1-based We constructed l-rhamnose-inducible CRISPRi system DNase-deactivated Cpf1 from Eubacterium eligens (EedCpf1) and compared its performance catalytically deactivated Streptococcus pyogenes (SpdCas9). In contrast to SpdCas9, EedCpf1...
The current trend in genome-wide association studies is to identify regions where the true disease-causing genes may lie by evaluating thousands of single-nucleotide polymorphisms (SNPs) across whole genome. However, many challenges exist detecting among SNPs. Examples include multicollinearity and multiple testing issues, especially when a large number correlated SNPs are simultaneously tested. Multicollinearity can often occur predictor variables regression model highly correlated, cause...
Isoprene is a valuable precursor for synthetic rubber and signature product of terpenoid pathways. Here, we developed an isoprene biosensor by employing TbuT transcriptional regulator Ralstonia pickettii to express fluorescent reporter gene in response intracellular engineered Escherichia coli. The recognizes as its less-preferred effector molecule; thus, amplified the expression using T7 RNA polymerase-mediated cascade iteratively tuned promoter transcribing tbuT improve sensitivity...
Summary Targeted gene regulation is indispensable for reprogramming a cellular network to modulate microbial phenotype. Here, we adopted the type II CRISPR interference ( i) system simple and efficient of target genes in Pseudomonas putida KT 2440. A single i plasmid was generated express nuclease‐deficient Cas9 designed guide RNA , under control l ‐rhamnose‐inducible P rha BAD constitutive Biobrick J23119 promoter respectively. Two were selected probe i‐mediated regulation: exogenous green...
• Methane conversion to a value-added mevalonate using methanotrophs as biocatalysts. A powerful and tunable synthetic biology toolkit for was developed. CRISPR base editor enabled the efficient markerless single-step genome editing. significantly high production of (2,089 mg/L) achieved. These versatile tools can realize methanotrophic biorefineries. Methanotrophs are promising sustainable cell factory platforms owing their ability convert most potent greenhouse gas, methane valuable...
Gene expression models play a key role to understand the mechanisms of gene regulation whose aspects are grade and switch-like responses. Though many stochastic approaches attempt explain mechanisms, Gillespie algorithm which is commonly used simulate requires additional cascade behaviors In this study, we propose model describing by employing Hill functions conventional algorithm. We assume eight processes their biologically appropriate reaction rates estimated based on published...
As the bioconversion of methane becomes increasingly important for bio-industrial and environmental applications, methanotrophs have received much attention their ability to convert under ambient conditions. This includes extensive reporting methanotroph engineering conversion biochemicals. To further increase usability, we demonstrated a highly flexible efficient modular approach based on synthetic consortium heterotrophs mimicking natural ecosystem produce mevalonate (MVA) from methane. In...
Boolean network (BN) modeling is a commonly used method for constructing gene regulatory networks from time series microarray data. However, its major drawback that computation very high or often impractical to construct large-scale networks. We propose variable selection are not only reduces BN times significantly but also obtains optimal constructions by using chi-square statistics testing the independence in contingency tables.Both and accuracy of structures estimated proposed compared...
Photoelectrochemical (PEC) water splitting is one of the most promising hydrogen production methods because its high efficiency, renewable resources and harmless by-products. Gallium nitride (GaN) suitable for PEC it has excellent stability in electrolyte band gap energy which straddles redox potential (Vredox = 1.23 V). These characteristics allow this material to split stably without external bias. However, GaN still not sufficient practical applications. In study, we investigated...
The engineered Methylococcus capsulatus Bath presents a promising approach for converting methane, potent greenhouse gas, into valuable chemicals. High cell-density culture (HCDC) is necessary high-titer growth-associated bioproducts, but it often requires time-consuming and labor-intensive optimization processes. In this study, we aimed to achieve efficient HCDC of M. by measuring the residual nutrient levels during bioreactor operations analyzing specific uptake each medium component. By...
High-throughput (HT) methodologies are extensively applied in synthetic biology for the rapid enrichment and selection of desired properties from a wide range genetic diversity. In order to effectively analyze these vast variants, HT tools must offer parallel experiments compact reaction capabilities enhance overall throughput. Here, we discuss about various aspects three representative high-throughput screening (HTS) systems: microwell-, droplet-, single cell-based screening. These systems...
Gene regulatory networks provide the systematic view of molecular interactions in a complex living system. However, constructing large-scale gene is one most challenging problems systems biology. Also large burst sets biological data require proper integration technique for reliable network construction. Here we present new reverse engineering approach based on Bayesian model averaging which attempts to combine all appropriate models describing among genes. This with prior Gibbs distribution...
The steady-state behaviour of gene regulatory networks (GRNs) can provide crucial evidence for detecting disease-causing genes. However, monitoring the dynamics GRNs is particularly difficult because biological data only reflects a snapshot dynamical living organism. Also most GRN and methods are used to limited structural inferences. In this study, theory stochastic GRNs, derived from G-Networks, applied in order monitor their behaviours. This approach simulation dataset which generated by...
Bacterial wilt disease caused by several Ralstonia species is one of the most destructive diseases in Solanaceae crops. Only a few functional resistance genes against bacterial have been cloned to date. Here, we show that broadly conserved type III secreted effector RipY recognized Nicotiana benthamiana immune system, leading cell death induction, induction defense-related gene expression, and restriction pathogen growth. Using multiplexed virus-induced gene-silencing-based N....