title: Genomic DNA of suppressor mutant 5
design: Purified genomic DNA was then treated with RNase If (New England BioLabs) and cleaned using the Zymo Genomic DNA Clean and Concentrator kit. 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. Reads obtained from the parent (ABT501) and suppressor mutant genomes were mapped to the C. jejuni 81-176 reference genome (GCA_000015525.1) using Geneious R10.2.6. Single nucleotide polymorphisms (SNPs) with a minimum variant frequency of 20% were identified in regions of the parent and suppressor mutant genomes with at least 5X coverage.  SNPs identified in suppressor mutant genomes were individually compared to those identified within the parent genome. SNPs that were unique to the suppressor mutant genomes were presumed to be associated with the suppressor mutant phenotypes and investigated further.