title: Ecoli_CK
design: The E.coli DH10B harboring base editors were cultured in a 6-well plate and induced as described above. Overnight cultures were collected in a 50 mL tube and centrifuged in 6500 r.p.m. for 10 min. After resuspending in TRIzol (Thermo Fisher Scientific), the precipitates were frozen in liquid nitrogen.Total RNA was extracted from the cells according to the manufacturer's instructions of TRIzol (Invitrogen), and genomic DNA was removed using DNase I (TaKara). RNA degradation and contamination were monitored on 1% agarose gels.The RNA library was sequenced using Illumina NovaSeq 6000 sequencer in 2150bp read length. The raw paired-end reads were trimmed and quality controlled by fastp with default parameters. Then clean reads were separately aligned to the reference genome with orientation mode using HISAT2 software. StringTie assembled the mapped reads of each sample in a reference-based approach. SNP(Single Nucleotide Polymorphisms) calling analysis was performed by Sentieon Genomics Suite.