WGS of C. jejuni: FlgX suppressor mutants
Briefly, isolates were grown on Mueller-Hinton agar plates supplemented with 10 mg/ml trimethoprim at 37C under microaerobic conditions.  Bacteria were harvested and genomic DNA was isolated using the Qiagen DNeasy Blood and Tissue kit.  Resulting DNA was treated with RNase If (New England BioLabs) and cleaned using the Zymo Genomic DNA Clean and Concentrator kit.  Prior to submitting for sequencing, DNA samples were run on a 1.0% agarose gel to check DNA integrity. Genomic DNA from above was used to generate bar-coded Bioo NEXTflex DNA libraries at the Indiana University Center for Genomics and Bioinformatics.  These libraries were cleaned and verified using an Agilent 2200 TapeStation before pooling and sequencing on the Illumina NextSeq platform.  Paired-end reads were de-multiplexed before the analysis below.