DNA Optimization
Cluster Design

Why optimize synthetic genes?

While in many instances it will suffice to extract a coding sequence, stick a promoter and terminator on it and use that in an expression plasmid, state-of-the-art approaches invest a great deal of biocomputational calculations to streamline and optimize expression constructs.

This is especially necessary if promoters and other control elements from diverse organisms are incorporated into heterologous expression constructs as is the case in metabolic engineering where endogenous genes may either not exist, are too weakly expressed or too tightly controlled.

ATG has developed in-house expertise and tools for optimization of genes, gene cassettes and entire gene clusters.

The EvoMAG (in silico evolution-mediated artificial genetics) platform is used to optimize various gene and gene cluster parameters (restriction site preferences, codon use, codon adaption indices, 5'-mRNA superstructures, cryptic splice sites, etc.) in parallel. Selected parameters can receive more weight than others before the sequence runs through repeated rounds of an evolutionary "tournament" that will return one (or a few) winner sequence(s).
The customer can view a pre-post comparison and discuss the results with our biocomputing specialists.

DNA Optimization:
EvoMag combines Synthetic Bioinformatics with GeneCluster Designs for Multi-Protein Expression and Minimal Molecular Function.

Based on years of service to and feed-back from our customers and as a response to their specific requirements, ATG has continuously developed the evoMAG - GeneIntelligence software to optimize constructive (overall design, synthesis efficiency) and functional (expression, solubility, etc.) aspects.

Cluster Design
DNA design and optimization are extremely critical as research has shown that individual genes and gene cassettes in multi-gene operons and other assemblies can be differentially expressed thus leading to unbalanced expression of the protein products.
This can be a factor in protein complexes that are sensitive to a specific stoichiometry of their component proteins.

More to come...