Modeling is a crucial activity in Synthetic biology and Systems biology, which can promote or even replace part of wet lab experiments. Similarly, our models this year not only promoted the progress of wet lab experiments, but also proved the feasibility of RNAlpha system theoretically, laying a foundation for future experimental verification. What’s more, one of the model provide another method solving problems of our project.
Integrated Modeling：
The optimal ratio of four BcABA enzymes required for ABA synthesis was simulated through enzyme kinetics, which helped determine the sequence of four genes on the plasmid in wet lab. Similarly, the method we proposed to predict enzyme kinetic parameters can also help other teams to complete more accurate modeling;
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Fig 1. ABA Model
The system kinetic modeling for eukaryotic and prokaryotic RNAlpha proved the theoretical feasibility and high efficiency of the system, and made up for the lack of wet experiment. In addition, we proposed a series of detailed system kinetic models for both prokaryotic and eukaryotic transcriptional-translation systems, which can provide modeling references for other teams;
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Fig 2. RNAlpha Model
Through structural modeling, we found that the residues of 2A sequence would affect the protein structure (such as BcABA3), which indicated the necessity of mRNA-level polycistron system construction (i.e., RNAlpha) in eukaryotes. Similarly, we also provided 10 new 2A sequences as dry lab improvements to parts library, which also provided more space for subsequent teams to select 2A sequences;
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The late spring cold(LSC) prediction model helps farmers predict the time of late spring cold and reduce agricultural losses together with the wet lab’s product. What’s more, we designed a software for convenience of farmers.
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