Elucidating genetic interactions in mycobacterial DNA metabolism using combinatorial CRISPR interference

This dataset accompanies the doctoral research thesis titled “Elucidating genetic interactions in mycobacterial DNA metabolism using combinatorial CRISPR interference.”

Study overview
A high-throughput inducible CRISPR interference (CRISPRi) screening approach was undertaken in the non-pathogenic mycobacterial model, Mycobacterium smegmatis, to map genetic interactions with the DNA repair complex called the mutasome. Whole-genome CRISPRi libraries were screened in six genetic backgrounds, including targeted gene-deletion mutants lacking imuB or dnaE2 or inducible CRISPRi-mediated knockdown of dnaE2. DNA damage was induced by low-dose moxifloxacin (0.031 µg/mL), a fluoroquinolone used in the treatment of drug-resistant tuberculosis.
Linked data:
sgRNA_info: sgRNA sequence and identifiers of the whole-genome CRISPRi library
raw_counts_all: Raw read counts obtained from Illumina sequencing files (FASTQ) of all repeats and conditions of the CRISPRi libraries processed in MAGeCK (version 0.5.9).
Source data of figures: Processes data underlying figures presented in the thesis, including normalized counts, interaction estimates, essentiality calls and significance metrics across experimental conditions.