Mapping temperature‐sensitive mutations at a genome scale to engineer growth switches in Escherichia coli

Abstract

Temperature‐sensitive (TS) mutants are a unique tool to perturb and engineer cellular systems. Here, we constructed a CRISPR library with 15,120 Escherichia coli mutants, each with a single amino acid change in one of 346 essential proteins. 1,269 of these mutants showed temperature‐sensitive growth in a time‐resolved competition assay. We reconstructed 94 TS mutants and measured their metabolism under growth arrest at 42°C using metabolomics. Metabolome changes were strong and mutant‐specific, showing that metabolism of nongrowing E. coli is perturbation‐dependent. For example, 24 TS mutants of metabolic enzymes overproduced the direct substrate metabolite due to a bottleneck in their associated pathway. A strain with TS homoserine kinase (ThrB F267D ) produced homoserine for 24 h, and production was tunable by temperature. Finally, we used a TS subunit of DNA polymerase III (DnaX L289Q ) to decouple growth from arginine overproduction in engineered E. coli . These results provide a strategy to identify TS mutants en masse and demonstrate their large potential to produce bacterial metabolites with nongrowing cells. image A CRISPR library with 15,120 E. coli mutants is constructed, 1,269 of which are temperature sensitive (TS). Follow up analyses reveal specific metabolic perturbations in TS mutants and show that TS DNA polymerase decouples growth from arginine overproduction. A CRISPR screen maps temperature‐sensitive mutations in E. coli . Temperature‐sensitive mutations tune growth rates. Temperature‐sensitive mutations function as metabolic valves. Temperature‐sensitive mutations decouple growth from overproduction.