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Table S1 (a) Three-way repeated measures ANOVA (Source colony origin, transplant destination, and source colony individual) for protein biomarker concentrations (ubiquitin conjugates, hsp70, MnSOD, and 4HNE) repeated over the five day course of the experiment. (b) Three-way ANOVA for ubiquitin conjugate concentrations analyzed for each day separately.

Table S2 Summary of unique sequences generated for use in this study for each gene fragment under and their corresponding accession numbers. Sequence labels indicate site (B for back reef, F for forereef), an X indicates colonies that were used in the RTE, colony number, followed by clone number.

Fig. S1 Temperatures (°C) in the back reef (black line) and forereef (yellow line) recorded every 30 minutes continuously from 2-November-2006 to 21-May-2007 using Water Temp Pro® temperature loggers (Onset Computer Corp.).

Fig. S2 Salinity measurements taken every 30 minutes in the back reef (black line) and forereef (yellow line) from 21 March 2006 to 1 April 2006.

Fig. S3 Dissolved oxygen (% saturation) measurements taken every 30 min in the back reef (black line) and forereef (yellow line) from 21 March 2006 to 1 April 2006.

Fig. S4 Relative light intensity (Lumens/sf) measurements taken every 30 min in the back reef (black line) and forereef (yellow line) from 21 March 2006 to 1 April 2006.

Fig. S5 Si(OH)4 concentration (μm) of water samples taken every four hours for 48 hours starting at midnight on 31 March 2006 and ending at midnight 2 April 2006.

Fig. S6 Median-joining network construction of entire ITS cloned sequence data set. Mutations are shown in red on the branches (numbers refer to positions in the alignment). The smallest red circles denote unsampled intermediate sequence types. Next size circles and larger are proportional to the number of individual sequences with that sequence type. Red circles are Back Reef samples, Yellow circles are Forereef samples.

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