The bacterial flagellum has often been presented as a major example of irreducible complexity. However, comparative genomics has identified relationships among flagellar proteins, evidence of gene duplication, and connections with other bacterial molecular systems.
Researchers have proposed stepwise histories in which an ancestral core was modified, duplicated, and expanded over evolutionary time.
If the major example used to illustrate irreducible complexity has a well-supported evolutionary history, that would weaken the claim that its organization requires intelligent causation.
The evolutionary evidence should be taken seriously. Comparative studies support common ancestry among flagellar components and provide evidence for duplication, divergence, loss, transfer, and modification. This makes a simple claim that "the flagellum could not have evolved" too strong.
There is nevertheless a distinction between demonstrating evolutionary relationships and recovering every stage in the origin of the complete system. Ancient events must largely be reconstructed from surviving organisms and genomes.
How much of flagellar evolution is strongly reconstructed from evidence, and which stages in the origin of its integrated machinery remain uncertain?