title: RNAseq of HG003(S.aureus NCTC8325) SPL9
design: Cells were lysed using lysostaphin (Sigma, Cat# L7386) and RNA purified using the RNeasy mini kit (Qiagen, Cat# 74104) and sample quality was affirmed via Bio analyzer (Agilent). Ribosomal RNA was depleted using RiboCop for bacterial META Removal Kit (Lexogen). cDNA libraries were generated at the University of Michigan Microbiome core using the CORALL RNA-seq Library Prep Kit (Lexogen). Samples were barcoded, pooled and sequenced in 125125 paired-end reads on an Illumina HiSeq 2000 sequencer. Raw sequencing reads in fastq format were aligned and annotated to the S. aureus NCTC8325 reference genome with annotated sRNA(66) using QiagenCLC Genomics Workbench default settings (version 21.0.5)