title: GSM4781725: Healed rep1; Mycobacterium ulcerans; Mus musculus; RNA-Seq
library_construction_protocol: RNA was extracted from infected tail skin at the edema stage (30 days post-infection) and at the healing stage (60-75 days post-infection), by the differential lysis method, as previously described (Robbe-Saule M and al., An Optimized Method for Extracting Bacterial RNA from Mouse Skin Tissue Colonized by Mycobacterium ulcerans. Front Microbiol. 2017;8:512). Ribosomal RNA was first removed from the total RNA using the RiboZero Epidemiology Illumina kit and the libraries were prepared with the TruSeq Stranded Total RNA LT Sample Prep kit (Illumina), according to manufacturer's protocol respectively. The quality of all libraries was checked with the DNA-1000 kit (Agilent) on a 2100 Bioanalyzer and quantification was performed with Quant-It assays on a Qubit 1.0 fluorometer (Invitrogen). Clusters were generated for the resulting libraries, with Illumina HiSeq SR Cluster Kit v4 reagents. Sequencing was performed with the Illumina HiSeq 2500 system and HiSeq SBS kit v4 reagents. Runs were carried out over 65 cycles, including seven indexing cycles, to obtain 65-bp single-end reads. Sequencing data were processed with Illumina Pipeline software (Casava version 1.9).