New synthetic biology tools for metabolic control. 2022

Xueqin Lv, and Angeles Hueso-Gil, and Xinyu Bi, and Yaokang Wu, and Yanfeng Liu, and Long Liu, and Rodrigo Ledesma-Amaro
Key Laboratory of Carbohydrate Chemistry and Biotechnology, Ministry of Education, Jiangnan University, Wuxi 214122, China; Science Center for Future Foods, Jiangnan University, Wuxi 214122, China.

In industrial bioprocesses, microbial metabolism dictates the product yields, and therefore, our capacity to control it hasĀ an enormous potential to help us move towards a bio-based economy. The rapid development of multiomics data has accelerated our systematic understanding of complex metabolic regulatory mechanisms, which allow us to develop tools to manipulate them. In the last few years, machine learning-based metabolic modeling, Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) derived synthetic biology tools, and synthetic genetic circuits have been widely used to control the metabolism of microorganisms, manipulate gene expression, and build synthetic pathways for bioproduction. This review describes the latest developments for metabolic control, and focuses on the trends and challenges of metabolic engineering strategies.

UI MeSH Term Description Entries
D000072669 Gene Editing Genetic engineering or molecular biology techniques that involve DNA REPAIR mechanisms for incorporating site-specific modifications into a cell's genome. Base Editing,Genome Editing,Editing, Base,Editing, Gene,Editing, Genome
D053263 Gene Regulatory Networks Interacting DNA-encoded regulatory subsystems in the GENOME that coordinate input from activator and repressor TRANSCRIPTION FACTORS during development, cell differentiation, or in response to environmental cues. The networks function to ultimately specify expression of particular sets of GENES for specific conditions, times, or locations. Gene Circuits,Gene Modules,Gene Networks,Transcriptional Networks,Gene Module,Circuit, Gene,Circuits, Gene,Gene Circuit,Gene Network,Gene Regulatory Network,Module, Gene,Modules, Gene,Network, Gene,Network, Gene Regulatory,Network, Transcriptional,Networks, Gene,Networks, Gene Regulatory,Networks, Transcriptional,Regulatory Network, Gene,Regulatory Networks, Gene,Transcriptional Network
D058615 Synthetic Biology A field of biological research combining engineering in the formulation, design, and building (synthesis) of novel biological structures, functions, and systems. Biologies, Synthetic,Biology, Synthetic,Synthetic Biologies
D060847 Metabolic Engineering Methods and techniques used to genetically modify cells' biosynthetic product output and develop conditions for growing the cells as BIOREACTORS. Engineering, Metabolic
D064112 Clustered Regularly Interspaced Short Palindromic Repeats Repetitive nucleic acid sequences that are principal components of the archaeal and bacterial CRISPR-CAS SYSTEMS, which function as adaptive antiviral defense systems. CRISPR Arrays,CRISPR Clusters,CRISPR Elements,CRISPR Loci,CRISPR Locus,CRISPR Sequences,CRISPR Spacer Sequences,CRISPR Spacers,CRISPR-Cas Loci,CRISPRs,Clustered Regularly Interspaced Short Palindromic Repeat,Array, CRISPR,Arrays, CRISPR,CRISPR,CRISPR Array,CRISPR Cas Loci,CRISPR Cluster,CRISPR Element,CRISPR Sequence,CRISPR Spacer,CRISPR Spacer Sequence,CRISPR-Cas Locus,Cluster, CRISPR,Clusters, CRISPR,Element, CRISPR,Elements, CRISPR,Loci, CRISPR,Loci, CRISPR-Cas,Locus, CRISPR,Locus, CRISPR-Cas,Sequence, CRISPR,Sequence, CRISPR Spacer,Sequences, CRISPR,Sequences, CRISPR Spacer,Spacer Sequence, CRISPR,Spacer Sequences, CRISPR,Spacer, CRISPR,Spacers, CRISPR
D064113 CRISPR-Cas Systems Adaptive antiviral defense mechanisms, in archaea and bacteria, based on DNA repeat arrays called CLUSTERED REGULARLY INTERSPACED SHORT PALINDROMIC REPEATS (CRISPR elements) that function in conjunction with CRISPR-ASSOCIATED PROTEINS (Cas proteins). Several types have been distinguished, including Type I, Type II, and Type III, based on signature motifs of CRISPR-ASSOCIATED PROTEINS. CRISPR Cas Systems,CRISPR-Cas System,System, CRISPR-Cas,Systems, CRISPR-Cas

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