Codon Optimization in Synthetic Biology

Codons are the fundamental information-carrying units found in nucleic acids and proteins. varied animals or genes have varied preferences for synonymous codons, resulting in codon usage bias, which has a complicated impact on protein production levels. Codon optimization is critical in the heterologous production of recombinant proteins.

Codon optimization challenges

Codon optimization in synthetic biology has two challenges: the vast number of potential codon permutations, and the complicated downstream effects of codons on processes such as transcription, translation, protein folding, and function. Traditional empirical rules for codon optimization include strategies such as codon substitution, codon pair preference, and sequence motifs; however, these methods frequently struggle to capture complex long-range patterns in sequences, and the optimization results are not well summarized, making accurate expression-level predictions impossible.

Innovative Approach to Deep Learning

The introduction of deep learning technology opens up new options for codon optimization. Instead of depending simply on traditional empirical methods, we may take a more complete look at codon distribution and other aspects using deep learning techniques. Creative Biogene has launched a service that uses artificial intelligence algorithms in conjunction with codon optimization technology to handle synthetic biology difficulties and give clients efficient and accurate synthetic biology solutions.

codon-optimization-in-synthetic-biology-1 Figure 1. The figure depicts codon optimization flowcharts utilizing sequence annotation models to decode original codon sequences into amino acid sequences. (Fu H, et al., 2020)

Codon Optimization Service Content

Codon Optimization Scheme Design: We employ deep learning to recode and annotate DNA sequences using unique approaches like codon boxes and BiLSTM-CRF.
Biological Experiment Verification: After codon optimization, genes are tested in host species to assess expression levels and protein functioning.
Considering Protein Structure and Function: We utilize deep learning and structural bioinformatics to analyze how synonymous codon alterations affect protein structure and function.
Continuous Optimization and Service Updates: We keep up with synthetic biology breakthroughs to ensure that our codon optimization services are cutting-edge and adaptable to changing needs.

Features and Advantages of Codon Optimization Service

Comprehensive Consideration of Host Biological Information: By examining the codon preference of the host organism, the influence of tRNA concentration, and other expression regulatory variables, we build tailored codon optimization strategies to ensure the best expression effect in a given host.
Diversified Codon Optimization Strategies: Our algorithm does not rely solely on a single codon optimization strategy, but combines multiple methods, including optimization strategies based on codon usage preference, codon pair preference, and sequence motifs. By comprehensively considering these factors, we can optimize the expression level of the target gene more comprehensively.
Real-Time Feedback and Adjustment: We will maintain close communication with customers and provide timely feedback on experimental results and data analysis to facilitate subsequent adjustments and optimization of codon optimization schemes to further improve protein expression levels.
Customer Customized Services: According to the specific needs and research objectives of customers, we design codon optimization schemes that meet their requirements. Whether it is protein expression optimization for a specific host or genetic engineering design for a specific application scenario, we can provide personalized solutions.
Professional Team Support: Our team is composed of professional scientific researchers in the fields of bioinformatics, synthetic biology, and deep learning. Customers can rest assured that hand over the codon optimization task to us, and we will provide high-quality services and technical support.

With the Codon Optimization Service from Creative Biogene, you can revolutionize your synthetic biology projects! Our solution, in contrast to conventional approaches, uses artificial intelligence algorithms to personalize optimization tactics and guarantee accurate and effective gene expression. With the cutting-edge Codon Optimization Service from Creative Biogene, you can realize the full potential of your synthetic biology initiatives.

* For research use only. Not intended for any clinical use.

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