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Appendix S1Symbiodinium diversity in host assemblages from reefs in the Andaman Sea, north-eastern Indian Ocean (Thailand).

Appendix S2Symbiodinium diversity in host assemblages from reefs in the western Indian Ocean (Zanzibar, Tanzania).

Appendix S3 GenBank accession numbers for the sequences of diagnostic bands from denaturing gradient gel electrophoresis fingerprinting of the internal transcribed spacer region 2 (ITS2-DGGE) characterized from the Indian Ocean.

Appendix S4 Pairwise comparisons of ΦPT values (a haploid equivalent to FST) among Clade D Symbiodinium populations differentiated by denaturing gradient gel electrophoresis fingerprinting of the internal transcribed spacer region (ITS-DGGE).

Appendix S5 Pairwise comparisons of ΦPT values (a haploid equivalent to FST) among Symbiodinium D5 populations originating from Montipora, Goniopora and Pocillopora, respectively.

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