Files in this Data Supplement:

• Supplemental file 1 - Fig. S1, Condition tree constructed using all genes on the microarray and all isolates. Fig. S2 Condition tree constructed using all genes on the microarray except MGE genes. Fig. S3, Condition tree constructed using all CV genes on the microarray.
  MS Word document, 414K.
• Supplemental file 2 - Table S1, Genes called manually by microarray.
  Excel document, 30K.
• Supplemental file 3 - Table S2, The 728 core variable PCR products used to cluster isolates into major lineages.
  Excel document, 106K.