Cells were inoculated in LB medium and grown at 30 °C overnight. Genomic DNA was extracted from one ml of the culture using the DNeasy Tissue Kit (Qiagen, Hilden, Germany). DNA samples were quantified using a Bioanalyzer (Life Technologies, CA) and sequenced by the NCI CCR genomics sequencing core on the Illumina MiSeq platform. 2-5 million reads were obtained per sample, which were trimmed and mapped to the published N16961 reference genome [52 (link)] on the CLC genomics workbench (Qiagen).
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