Figure 1

Identifying gene shuffling. (a) Gene shuffling and how it changes gene structure. The three scenarios of 'domain insertion' represent insertions of domains from gene 2 into gene 1. The reciprocal insertions (gene 1 into gene 2) are not shown. (b) Distinguishing true from spurious recombination events. In a spurious recombination event, reference genome R1 has two separate genes, where both T and R2 have a single, shuffled gene. The most parsimonious explanation for this observation is that the shuffled gene was present in R1 but was lost since R1's divergence from T.