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Technology Platform Tools
The emerging field of synthetic biology is based on a vast amount of available DNA sequence information and our ability to rapidly and inexpensively synthesize DNA fragments of sufficient length to encode full-length genes, metabolic pathways and even entire genomes. Genes are now routinely designed and synthesized from overlapping, chemically-synthesized single-stranded oligonucleotides, which are then purified and assembled into double-stranded DNA fragments.
Verdezyne's unique computational and synthetic biology "toolbox" allow us to rapidly optimize the design, synthesis and expression of synthetic genes in a heterologous recombinant microorganism. Our synthetic gene design algorithms simultaneously optimize the oligonucleotide sequences, mRNA secondary structure and species-specific codon-usage and codon-pairing context that ensure their expression in a heterologous host. In addition, the algorithms also allows us to design and synthesize high-diversity gene libraries in which we carefully control the mutation frequency and amino acid distribution at targeted residues.
Our protein design algorithms model the protein backbone, side-chain conformations, inter- and intra-molecular binding energies, and subunit interfaces and predict the amino acids substitutions needed to optimize enzyme activity.
Our toolbox also includes metabolic pathway models that define the maximum theoretical product yield, predict the gene modifications needed to maximize yield and productivity and simulate in-silico the effect of these genetic manipulations on metabolic flux.
