RNA samples were prepared from frozen cells using the RNeasy Mini-Kit (Qiagen) and adding a DNase I treatment (Qiagen). Resulting RNA samples were treated with a TURBO DNA-free kit (Invitrogen). RNA quality was assessed on a Fragment Analyzer (Agilent Technologies). The RNAs had  RQNs between 9.3 and 9.9. RNA-seq libraries were prepared from 100 ng of total RNA with the Illumina Stranded mRNA Prep reagents (Illumina) using a unique dual indexing strategy, and following the official protocol. The polyA selection step was replaced by an rRNA depletion step with the RiboCop for Bacteria, mixed bacterial samples reagents (Lexogen). Libraries were quantified by a fluorometric method (QubIT, Life Technologies) and their quality assessed on a Fragment Analyzer. Sequencing was performed on an Illumina NovaSeq 6000 for 100 cycles single read. Sequencing data were demultiplexed using the bcl2fastq2 Conversion Software (version 2.20, Illumina).