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Summary  Bacterial populations differentiate at the subspecies level into clonal complexes. Intraclonal genome diversity was studied in 100 isolates of the two dominant   P   seudomonas aeruginosa  clones  C  and  PA 14 collected from the inanimate environment, acute and chronic infections. The core genome was highly conserved among clone members with a median pairwise within‐clone single nucleotide sequence diversity of 8 × 10 −6  for clone  C  and 2 × 10 −5  for clone  PA 14. The composition of the accessory genome was, on the other hand, as variable within the clone as between unrelated clones. Each strain carried a large cargo of unique genes. The two dominant worldwide distributed   P  .  aeruginosa  clones combine an almost invariant core with the flexible gain and loss of genetic elements that spread by horizontal transfer.

Intraclonal genome diversity of the major Pseudomonas aeruginosa clones C and PA 14