Ryan Cardiff
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View article: Cell-Free-Based Thermophilic Biocatalyst for the Synthesis of Amino Acids from One-Carbon Feedstocks
Cell-Free-Based Thermophilic Biocatalyst for the Synthesis of Amino Acids from One-Carbon Feedstocks Open
Bioproduction from one-carbon compounds, such as formate, is an attractive prospect due to reduced energy requirements and the possibility for using CO2 as a sustainable feedstock. Formate-fixing pathways engineered using Escherichia coli …
View article: Systematic Mapping of Bacterial CRISPRa Design Rules and Implications for Synergistic Gene Activation
Systematic Mapping of Bacterial CRISPRa Design Rules and Implications for Synergistic Gene Activation Open
CRISPR gene activation (CRISPRa) tools have shown great promise for bacterial strain engineering but often require customization for each intended application. Our goal is to create generalizable CRISPRa tools that can overcome previous li…
View article: Carbon-conserving Bioproduction of Malate in an<i>E. coli</i>-based Cell-Free System
Carbon-conserving Bioproduction of Malate in an<i>E. coli</i>-based Cell-Free System Open
Formate, a biologically accessible form of CO 2 , has attracted interest as a renewable feedstock for bioproduction. However, approaches are needed to investigate efficient routes for biological formate assimilation due to its toxicity and…
View article: Carbon Negative Synthesis of Amino Acids Using a Cell-Free-Based Biocatalyst
Carbon Negative Synthesis of Amino Acids Using a Cell-Free-Based Biocatalyst Open
Biological systems can directly upgrade carbon dioxide (CO2) into chemicals. The CO2 fixation rate of autotrophic organisms, however, is too slow for industrial utility, and the breadth of engineered metabolic pathways for the synthesis of…
View article: CRISPR Tools for Engineering Prokaryotic Systems: Recent Advances and New Applications
CRISPR Tools for Engineering Prokaryotic Systems: Recent Advances and New Applications Open
In the past decades, the broad selection of CRISPR-Cas systems has revolutionized biotechnology by enabling multimodal genetic manipulation in diverse organisms. Rooted in a molecular engineering perspective, we recapitulate the different …
View article: CRISPR-Cas tools for simultaneous transcription & translation control in bacteria
CRISPR-Cas tools for simultaneous transcription & translation control in bacteria Open
Robust control over gene translation at arbitrary mRNA targets is an outstanding challenge in microbial synthetic biology. The development of tools that can regulate translation will greatly expand our ability to precisely control genes ac…
View article: Guide RNA structure design enables combinatorial CRISPRa programs for biosynthetic profiling
Guide RNA structure design enables combinatorial CRISPRa programs for biosynthetic profiling Open
Engineering bacterial metabolism to efficiently produce chemicals and materials from multi-step pathways requires optimizing multi-gene expression programs to achieve enzyme balance. CRISPR-Cas transcriptional control systems are emerging …
View article: CRISPR-Cas tools for simultaneous transcription & translation control in bacteria
CRISPR-Cas tools for simultaneous transcription & translation control in bacteria Open
Robust control over gene translation at arbitrary mRNA targets is an outstanding challenge in microbial synthetic biology. The development of tools that can regulate translation will greatly expand our ability to precisely control genes ac…
View article: Engineering activatable promoters for scalable and multi-input CRISPRa/i circuits
Engineering activatable promoters for scalable and multi-input CRISPRa/i circuits Open
Dynamic, multi-input gene regulatory networks (GRNs) are ubiquitous in nature. Multilayer CRISPR-based genetic circuits hold great promise for building GRNs akin to those found in naturally occurring biological systems. We develop an appro…
View article: Open-Source Workflow Design and Management Software to Interrogate Duckweed Growth Conditions and Stress Responses
Open-Source Workflow Design and Management Software to Interrogate Duckweed Growth Conditions and Stress Responses Open
Duckweeds, a group of floating aquatic plants, are ideal model plants for laboratory experiments because they are small, easy to cultivate, and reproduce quickly. Duckweed laboratory biology, however, requires that lineages are maintained …