Appendix S1 List of references used for building fish checklists (Table S1) and biogeographical data and fish checklists (Table S2) for the 122 locations across the Indo-Pacific.

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Appendix S2 Complementary data analyses: estimation of area for locations and species–area relationships (Figs S1 & S2) and combined effects of surface area and distance from the Indo-Australian Archipelago on fish diversity patterns (Tables S3 & S4, Figs S3 & S4).

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Appendix S3 Dendrograms showing the clustering of 122 locations in the Indo-Pacific based on reef fish assemblages using different methods (Figs S5–S11).

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