Research graph
References from Automated Mini-Bioreactors Reveal the Temporal Dynamics and Multi-Omics Responses of CRISPRi Knockdowns in <i>Pseudomonas putida</i>. Local targets link to admitted publications; unresolved targets remain external evidence.
Manufacturing Molecules through Metabolic Engineering
10.1126/science.1193990 · 2010 · External reference
A Review of Metabolic and Enzymatic Engineering Strategies for Designing and Optimizing Performance of Microbial Cell Factories
10.1016/j.csbj.2014.08.010 · 2014 · External reference
Microbial Cell Factories: Biodiversity, Pathway Construction, Robustness, and Industrial Applicability
10.3390/microbiolres15010018 · 2024 · External reference
Systems Strategies for Developing Industrial Microbial Strains
10.1038/nbt.3365 · 2015 · External reference
Tools and Strategies of Systems Metabolic Engineering for the Development of Microbial Cell Factories for Chemical Production
10.1039/d0cs00155d · 2020 · External reference
High-Throughput Genetic Engineering Tools for Regulating Gene Expression in a Microbial Cell Factory
10.1080/07388551.2021.2007351 · 2023 · External reference
Gene Regulation and Cellular Metabolism: An Essential Partnership
10.1016/j.tig.2020.09.018 · 2021 · External reference
Application of Different Types of CRISPR/Cas-Based Systems in Bacteria
10.1186/s12934-020-01431-z · 2020 · External reference
Programmable Repression and Activation of Bacterial Gene Expression Using an Engineered CRISPR-Cas System
10.1093/nar/gkt520 · 2013 · External reference
CRISPR Tools To Control Gene Expression in Bacteria
10.1128/mmbr.00077-19 · 2020 · External reference
Harnessing CRISPR Interference to Resensitize Laboratory Strains and Clinical Isolates to Last Resort Antibiotics
10.1038/s41598-024-81989-5 · 2025 · External reference
Multi-Omics Analysis of CRISPRi-Knockdowns Identifies Mechanisms That Buffer Decreases of Enzymes in E. Coli Metabolism
10.1016/j.cels.2020.10.011 · 2021 · External reference
Dynamic and Single Cell Characterization of a CRISPR-Interference Toolset in Pseudomonas Putida KT2440 for β-Ketoadipate Production from p-Coumarate
10.1016/j.mec.2022.e00204 · 2022 · External reference
Pooled CRISPRi Screening of the Cyanobacterium Synechocystis Sp PCC 6803 for Enhanced Industrial Phenotypes
10.1038/s41467-020-15491-7 · 2020 · External reference
CRISPR Interference Screens Reveal Growth−Robustness Tradeoffs in Synechocystis Sp. PCC 6803 across Growth Conditions
10.1093/plcell/koad208 · 2023 · External reference
Automation and Machine Learning Drive Rapid Optimization of Isoprenol Production in Pseudomonas Putida
10.1038/s41467-025-66304-8 · 2025 · External reference
Automation of High-Throughput Workflow for Arrayed CRISPR Activation Library Screening
10.1101/2025.11.10.687722 · 2025 · External reference
Chi.Bio: An Open-Source Automated Experimental Platform for Biological Science Research.
10.1101/796516 · 2019 · External reference
Unresolved reference
External reference
A CRISPRi Screen in E. Coli Reveals Sequence-Specific Toxicity of dCas9
10.1038/s41467-018-04209-5 · 2018 · External reference
A Tn7-Based Broad-Range Bacterial Cloning and Expression System
10.1038/nmeth765 · 2005 · External reference
Mini-Tn7 Transposons for Site-Specific Tagging of Bacteria with Fluorescent Proteins
10.1111/j.1462-2920.2004.00605.x · 2004 · External reference
Tn7-Based Device for Calibrated Heterologous Gene Expression in Pseudomonas Putida
10.1021/acssynbio.5b00058 · 2015 · External reference
Characterization of Context-Dependent Effects on Synthetic Promoters
10.3389/fbioe.2020.00551 · 2020 · External reference
Reliable Genomic Integration Sites in Pseudomonas Putida Identified by Two-Dimensional Transcriptome Analysis
10.1021/acssynbio.3c00747 · 2024 · External reference
Cas9 Off-Target Binding to the Promoter of Bacterial Genes Leads to Silencing and Toxicity
10.1093/nar/gkad170 · 2023 · External reference
Accelerated Genome Engineering of Pseudomonas Putida by I-SceI—mediated Recombination and CRISPR-Cas9 Counterselection
10.1111/1751-7915.13396 · 2020 · External reference
Optimized sgRNA Design to Maximize Activity and Minimize Off-Target Effects of CRISPR-Cas9
10.1038/nbt.3437 · 2016 · External reference
Gene Expression Reprogramming of Pseudomonas Alloputida in Response to Arginine through the Transcriptional Regulator ArgR
10.1099/mic.0.001449 · 2024 · External reference
Molecular Characterization and Regulation of an Operon Encoding a System for Transport of Arginine and Ornithine and the ArgR Regulatory Protein in Pseudomonas Aeruginosa
10.1128/jb.180.21.5559-5566.1998 · 1998 · External reference
Role of the Transcriptional Regulator ArgR in the Connection between Arginine Metabolism and C-Di-GMP Signaling in Pseudomonas Putida
10.1128/aem.00064-22 · 2022 · External reference
Use of Inducible Feedback-Resistant N-Acetylglutamate Synthetase (argA) Genes for Enhanced Arginine Biosynthesis by Genetically Engineered Escherichia Coli K-12 Strains
10.1128/aem.64.5.1805-1811.1998 · 1998 · External reference
Regulation of Arginine Biosynthesis, Catabolism and Transport in Escherichia Coli
10.1007/s00726-019-02757-8 · 2019 · External reference
N-Acetylglutamate Synthetase of Pseudomonas Aeruginosa
10.1111/j.1432-1033.1972.tb02531.x · 1972 · External reference
Exploring the Metabolic Response of Pseudomonas Putida to L-Arginine
10.1007/5584_2024_797 · 2025 · External reference
Eliminating a Global Regulator of Carbon Catabolite Repression Enhances the Conversion of Aromatic Lignin Monomers to Muconate in Pseudomonas Putida KT2440
10.1016/j.meteno.2017.05.002 · 2017 · External reference
Simultaneous Carbon Catabolite Repression Governs Sugar and Aromatic Co-Utilization in Pseudomonas Putida M2
10.1128/aem.00852-23 · 2023 · External reference
The Escherichia Coli Rhamnose Promoter rhaPBADis in Pseudomonas Putida KT2440 Independent of Crp−cAMP Activation
10.1007/s00253-009-2245-8 · 2010 · External reference
The Escherichia Coli rhaSR-PrhaBAD Inducible Promoter System Allows Tightly Controlled Gene Expression over a Wide Range in Pseudomonas Aeruginosa
10.1128/aem.02041-16 · 2016 · External reference
Identification of Drug Resistance Determinants in a Clinical Isolate of Pseudomonas Aeruginosa by High-Density Transposon Mutagenesis
10.1128/aac.01771-19 · 2020 · External reference
Expanding the Genetic Tool Box for Cupriavidus Necator by a Stabilized L-Rhamnose Inducible Plasmid System
10.1016/j.jbiotec.2017.10.002 · 2017 · External reference
An Expression Vector Containing a Rhamnose-Inducible Promoter Provides Tightly Regulated Gene Expression in Burkholderia Cenocepacia
10.1016/j.plasmid.2005.03.004 · 2005 · External reference
Broad-Host-Range ProUSER Vectors Enable Fast Characterization of Inducible Promoters and Optimization of p-Coumaric Acid Production in Pseudomonas Putida KT2440
10.1021/acssynbio.6b00081 · 2016 · External reference
Model of Metabolism and Gene Expression Predicts Proteome Allocation in Pseudomonas Putida
10.1038/s41540-025-00521-1 · 2025 · External reference
Population Dynamics and Competition in Chemostat Models with Adaptive Nutrient Uptake
10.1007/s002850050061 · 1997 · External reference
Reproducibility of Oligonucleotide Microarray Transcriptome Analyses. An Interlaboratory Comparison Using Chemostat Cultures of Saccharomyces Cerevisiae
10.1074/jbc.m204490200 · 2002 · External reference
Arginine Biosynthesis Modulates Pyoverdine Production and Release in Pseudomonas Putida as Part of the Mechanism of Adaptation to Oxidative Stress
10.1128/jb.00454-19 · 2019 · External reference
The Metabolome of an E. Coli CRISPRi Library Identifies Benefits of Minimal Metabolite Levels and Targets for Engineering
10.1016/j.cels.2025.101518 · 2026 · External reference
Accurate DNA Assembly and Genome Engineering with Optimized Uracil Excision Cloning
10.1021/acssynbio.5b00113 · 2015 · External reference
A Robust Isotope Ratio LC−MS/MS Workflow for High-Throughput Metabolic Profiling of Bacteria
10.1021/acs.analchem.5c04931 · 2026 · External reference
Protocol for Absolute Quantification of Proteins in Gram-Negative Bacteria Based on QconCAT-Based Labeled Peptides
10.1016/j.xpro.2023.102060 · 2023 · External reference
Unresolved reference
External reference
QurvE: User-Friendly Software for the Analysis of Biological Growth and Fluorescence Data
10.1038/s41596-023-00850-7 · 2023 · External reference
Growth curves: A Platform for Human-in-the-Loop Analysis of Biological Growth Curves
10.64898/2026.05.23.727125 · 2026 · External reference
Exploring the Metabolic Response of Pseudomonas Putida to L-Arginine
10.1007/5584_2024_797 · ExternalCitation · doi-reference
The Escherichia Coli Rhamnose Promoter rhaPBADis in Pseudomonas Putida KT2440 Independent of Crp−cAMP Activation
10.1007/s00253-009-2245-8 · ExternalCitation · doi-reference
Population Dynamics and Competition in Chemostat Models with Adaptive Nutrient Uptake
10.1007/s002850050061 · ExternalCitation · doi-reference
Regulation of Arginine Biosynthesis, Catabolism and Transport in Escherichia Coli
10.1007/s00726-019-02757-8 · ExternalCitation · doi-reference
Multi-Omics Analysis of CRISPRi-Knockdowns Identifies Mechanisms That Buffer Decreases of Enzymes in E. Coli Metabolism
10.1016/j.cels.2020.10.011 · ExternalCitation · doi-reference
The Metabolome of an E. Coli CRISPRi Library Identifies Benefits of Minimal Metabolite Levels and Targets for Engineering
10.1016/j.cels.2025.101518 · ExternalCitation · doi-reference
A Review of Metabolic and Enzymatic Engineering Strategies for Designing and Optimizing Performance of Microbial Cell Factories
10.1016/j.csbj.2014.08.010 · ExternalCitation · doi-reference
Expanding the Genetic Tool Box for Cupriavidus Necator by a Stabilized L-Rhamnose Inducible Plasmid System
10.1016/j.jbiotec.2017.10.002 · ExternalCitation · doi-reference
Dynamic and Single Cell Characterization of a CRISPR-Interference Toolset in Pseudomonas Putida KT2440 for β-Ketoadipate Production from p-Coumarate
10.1016/j.mec.2022.e00204 · ExternalCitation · doi-reference
Eliminating a Global Regulator of Carbon Catabolite Repression Enhances the Conversion of Aromatic Lignin Monomers to Muconate in Pseudomonas Putida KT2440
10.1016/j.meteno.2017.05.002 · ExternalCitation · doi-reference
An Expression Vector Containing a Rhamnose-Inducible Promoter Provides Tightly Regulated Gene Expression in Burkholderia Cenocepacia
10.1016/j.plasmid.2005.03.004 · ExternalCitation · doi-reference
Gene Regulation and Cellular Metabolism: An Essential Partnership
10.1016/j.tig.2020.09.018 · ExternalCitation · doi-reference
Protocol for Absolute Quantification of Proteins in Gram-Negative Bacteria Based on QconCAT-Based Labeled Peptides
10.1016/j.xpro.2023.102060 · ExternalCitation · doi-reference
A Robust Isotope Ratio LC−MS/MS Workflow for High-Throughput Metabolic Profiling of Bacteria
10.1021/acs.analchem.5c04931 · ExternalCitation · doi-reference
Reliable Genomic Integration Sites in Pseudomonas Putida Identified by Two-Dimensional Transcriptome Analysis
10.1021/acssynbio.3c00747 · ExternalCitation · doi-reference
Tn7-Based Device for Calibrated Heterologous Gene Expression in Pseudomonas Putida
10.1021/acssynbio.5b00058 · ExternalCitation · doi-reference
Accurate DNA Assembly and Genome Engineering with Optimized Uracil Excision Cloning
10.1021/acssynbio.5b00113 · ExternalCitation · doi-reference
Broad-Host-Range ProUSER Vectors Enable Fast Characterization of Inducible Promoters and Optimization of p-Coumaric Acid Production in Pseudomonas Putida KT2440
10.1021/acssynbio.6b00081 · ExternalCitation · doi-reference
Systems Strategies for Developing Industrial Microbial Strains
10.1038/nbt.3365 · ExternalCitation · doi-reference
Optimized sgRNA Design to Maximize Activity and Minimize Off-Target Effects of CRISPR-Cas9
10.1038/nbt.3437 · ExternalCitation · doi-reference
A Tn7-Based Broad-Range Bacterial Cloning and Expression System
10.1038/nmeth765 · ExternalCitation · doi-reference
A CRISPRi Screen in E. Coli Reveals Sequence-Specific Toxicity of dCas9
10.1038/s41467-018-04209-5 · ExternalCitation · doi-reference
Pooled CRISPRi Screening of the Cyanobacterium Synechocystis Sp PCC 6803 for Enhanced Industrial Phenotypes
10.1038/s41467-020-15491-7 · ExternalCitation · doi-reference
Automation and Machine Learning Drive Rapid Optimization of Isoprenol Production in Pseudomonas Putida
10.1038/s41467-025-66304-8 · ExternalCitation · doi-reference
Model of Metabolism and Gene Expression Predicts Proteome Allocation in Pseudomonas Putida
10.1038/s41540-025-00521-1 · ExternalCitation · doi-reference
QurvE: User-Friendly Software for the Analysis of Biological Growth and Fluorescence Data
10.1038/s41596-023-00850-7 · ExternalCitation · doi-reference
Harnessing CRISPR Interference to Resensitize Laboratory Strains and Clinical Isolates to Last Resort Antibiotics
10.1038/s41598-024-81989-5 · ExternalCitation · doi-reference
Tools and Strategies of Systems Metabolic Engineering for the Development of Microbial Cell Factories for Chemical Production
10.1039/d0cs00155d · ExternalCitation · doi-reference
Reproducibility of Oligonucleotide Microarray Transcriptome Analyses. An Interlaboratory Comparison Using Chemostat Cultures of Saccharomyces Cerevisiae
10.1074/jbc.m204490200 · ExternalCitation · doi-reference
High-Throughput Genetic Engineering Tools for Regulating Gene Expression in a Microbial Cell Factory
10.1080/07388551.2021.2007351 · ExternalCitation · doi-reference
Cas9 Off-Target Binding to the Promoter of Bacterial Genes Leads to Silencing and Toxicity
10.1093/nar/gkad170 · ExternalCitation · doi-reference
Programmable Repression and Activation of Bacterial Gene Expression Using an Engineered CRISPR-Cas System
10.1093/nar/gkt520 · ExternalCitation · doi-reference
CRISPR Interference Screens Reveal Growth−Robustness Tradeoffs in Synechocystis Sp. PCC 6803 across Growth Conditions
10.1093/plcell/koad208 · ExternalCitation · doi-reference
Gene Expression Reprogramming of Pseudomonas Alloputida in Response to Arginine through the Transcriptional Regulator ArgR
10.1099/mic.0.001449 · ExternalCitation · doi-reference
Automation of High-Throughput Workflow for Arrayed CRISPR Activation Library Screening
10.1101/2025.11.10.687722 · ExternalCitation · doi-reference
Chi.Bio: An Open-Source Automated Experimental Platform for Biological Science Research.
10.1101/796516 · ExternalCitation · doi-reference
Accelerated Genome Engineering of Pseudomonas Putida by I-SceI—mediated Recombination and CRISPR-Cas9 Counterselection
10.1111/1751-7915.13396 · ExternalCitation · doi-reference
N-Acetylglutamate Synthetase of Pseudomonas Aeruginosa
10.1111/j.1432-1033.1972.tb02531.x · ExternalCitation · doi-reference
Mini-Tn7 Transposons for Site-Specific Tagging of Bacteria with Fluorescent Proteins
10.1111/j.1462-2920.2004.00605.x · ExternalCitation · doi-reference
Manufacturing Molecules through Metabolic Engineering
10.1126/science.1193990 · ExternalCitation · doi-reference
Identification of Drug Resistance Determinants in a Clinical Isolate of Pseudomonas Aeruginosa by High-Density Transposon Mutagenesis
10.1128/aac.01771-19 · ExternalCitation · doi-reference
Role of the Transcriptional Regulator ArgR in the Connection between Arginine Metabolism and C-Di-GMP Signaling in Pseudomonas Putida
10.1128/aem.00064-22 · ExternalCitation · doi-reference
Simultaneous Carbon Catabolite Repression Governs Sugar and Aromatic Co-Utilization in Pseudomonas Putida M2
10.1128/aem.00852-23 · ExternalCitation · doi-reference
The Escherichia Coli rhaSR-PrhaBAD Inducible Promoter System Allows Tightly Controlled Gene Expression over a Wide Range in Pseudomonas Aeruginosa
10.1128/aem.02041-16 · ExternalCitation · doi-reference
Use of Inducible Feedback-Resistant N-Acetylglutamate Synthetase (argA) Genes for Enhanced Arginine Biosynthesis by Genetically Engineered Escherichia Coli K-12 Strains
10.1128/aem.64.5.1805-1811.1998 · ExternalCitation · doi-reference
Arginine Biosynthesis Modulates Pyoverdine Production and Release in Pseudomonas Putida as Part of the Mechanism of Adaptation to Oxidative Stress
10.1128/jb.00454-19 · ExternalCitation · doi-reference
Molecular Characterization and Regulation of an Operon Encoding a System for Transport of Arginine and Ornithine and the ArgR Regulatory Protein in Pseudomonas Aeruginosa
10.1128/jb.180.21.5559-5566.1998 · ExternalCitation · doi-reference
CRISPR Tools To Control Gene Expression in Bacteria
10.1128/mmbr.00077-19 · ExternalCitation · doi-reference
Application of Different Types of CRISPR/Cas-Based Systems in Bacteria
10.1186/s12934-020-01431-z · ExternalCitation · doi-reference
Characterization of Context-Dependent Effects on Synthetic Promoters
10.3389/fbioe.2020.00551 · ExternalCitation · doi-reference
Microbial Cell Factories: Biodiversity, Pathway Construction, Robustness, and Industrial Applicability
10.3390/microbiolres15010018 · ExternalCitation · doi-reference
Growth curves: A Platform for Human-in-the-Loop Analysis of Biological Growth Curves
10.64898/2026.05.23.727125 · ExternalCitation · doi-reference
