Table 1.

The predicted origin of alleles is given for haplotypes assigned to C. jejuni and C. coli clades 1 to 3. Assignment of haplotypes to C. jejuni or C. coli was on the basis of the Structure analysis, and the three clades of C. coli were defined by the ClonalFrame genealogy. Individual alleles were assigned to a predicted source on the basis of the neighbor-joining trees for each allele (Fig. 1).

Percentage of distinct alleles (total number of alleles)
Likely originC. jejuni (1218)C. coli clade 1 (290)C. coli clade 2 (82)C. coli clade 3 (131)
C. jejuni 97.7 18.6 1.2 0.8
C. coli clade 1 2.1 75.9 12.2 0.8
C. coli clade 2 0.1 1.7 84.4 0.8
C. coli clade 3 0.1 3.8 2.4 97.7