During the preparation of the recombinant plasmid, the vector was initially constructed using homologous recombination. For the LacY plasmid, preliminary colony PCR indicated possible insertion of the target fragment. However, a critical issue arose in subsequent transformation validation: after introducing the plasmid into the host strain, no colonies grew on the antibiotic plates (corresponding to the plasmid's selection marker), making it impossible to further verify LacY function.
Upon reviewing the situation, Professor Fan Yuying proposed two targeted troubleshooting strategies:
Control experiment design: Plate the same batch of transformed culture on both non-antibiotic and antibiotic plates to identify the problematic step.
Direct sequencing verification: Extract the constructed LacY plasmid and perform direct sequencing.
When we suggested simplifying the construction by retaining only a short functional fragment of LacY and discarding the larger backbone, Professor Gong Lei emphasized the importance of preserving potential functional domains within the protein structure. Accordingly, we prioritized maintaining the full functional integrity of LacY.
In the plasmid construction and functional validation phase of the ccdB gene, we encountered difficulties in accurately verifying the toxic effect of CcdB after plasmid introduction into the host strain. After discussing with Professor Dai Junbiao, he highlighted the core research principle of “complete first, perfect later”: at this stage, we should not over-optimize for basal expression, but focus first on obtaining proof-of-concept (PoC) data. He also recommended indirectly assessing whether CcdB's toxic function responded properly by comparing the survival curves of engineered bacteria carrying the ccdB plasmid versus empty vector controls under varying AI-2 concentrations.