TABLE 1.

Cross-classification concordance results

Typing technique% Concordancea between:
MicroarrayMLEEPFGEcoa
spa 88 (lineages/0.5), 97 (types/0.81)87 (lineages/lineages)98 (types/types)97 (lineages/lineages I)
coa 89 (lineages I/0.5), 95 (lineages II/0.31)90 (lineages I/lineages), 87 (types/types)
MLEE87 (lineages/0.5), 85 (lineages/0.31), 83 (types/0.81)
  • a The percent of direct concordance between any two typing schemes is shown where the two intersect on this matrix. A (row/column) descriptor follows each concordance value, as follows. For microarray, 0.31 indicates 0.31 microarray lineages, 0.5 indicates 0.5 microarray lineages, and 0.81 indicates 0.81 microarray groups. For spa typing, lineages and types were separately analyzed. For coa typing, lineages and types were separately analyzed; lineage I includes 11 coa lineages produced by counting coa lineages 7A and 7B separately, and lineage II includes 10 coa lineages produced by counting coa lineages 7A and 7B as one lineage for deeper phylogenetic analysis. For MLEE, lineages and types were separately analyzed. For PFGE, individual types were analyzed. As an example, the concordance between spa typing and the microarray is 88% for spa typing lineages and the 0.5 microarray lineages.