Electronic supplement

Table 1. Symbiodinium rDNA ITS1 genotypes observed in three species of hard corals collected from several inshore and mid-shelf reefs along a north-south gradient of the Great Barrier Reef. The number before the slash indicates the number of colonies observed with a particular zooxanthella type, the number after the slash indicates the total number of colonies sampled at a that location. Where the total number of genotypes observed add up to more than the sample size, some colonies harbor multiple zooxanthella clades simultaneously. Zooxanthella subtypes observed are listed between parentheses behind the location name, where Cn is used for a number of unnamed subclades. TheCn groups within a single site can represent varying combinations. Two indicators of heat stress at each of the sampling sites are given in the second column. The first is the three day maximum estimated from AVHRR satellite 1 km resolution sea surface temperature data received and archived at AIMS/ The second is the number of days that each pixel is > 1 standard deviation above its long term mean. Details of the indicators are provided in Berkelmans et al. (2004) and Wooldridge and Done (2004).

Location / Site heat stress indicators (3 day maximum (o C)/ days above threshold) / Zooxanthella phylogenetic clade based on the rDNA ITS1 region
C / D / A / G (sensu Pawlowski et al. 2001)
Stylophora pistillata
Chicken Reef (C1, Cn) / 35.0/63 / 23/23
Darley Reef (C1, Cn) / 34.2/36 / 26/26
Dingo Reef (C1, Cn) / 31.2/75 / 22/22
Charity Reef (C1, Cn) / 32.6/66 / 24/24
Girder Reef (C1, Cn) / 30.1/36 / 10/10
Credlin Reef (Cn) / 32.3/75 / 15/15
UN 21-056 (C1, Cn) / 32.0/48 / 4/4
MumfordIsland (C1, Cn) / 32.0/54 / 9/9
BramptonIsland (C1, G) / 34.0/63 / 3/3 / 1/3
Acropora millepora
Chicken Reef (C2) / 35.0/63 / 3/3
Darley Reef (C1, C2) / 34.2/36 / 23/23
Dingo Reef (C2) / 31.2/75 / 1/1
Charity Reef (C2, A) / 32.6/66 / 17/18 / 1/18
UN 19-165 (C2) / 30.1/33 / 2/2
Credlin Reef (C2) / 32.3/75 / 11/11
UN 21-056 (C2) / 32.0/48 / 3/3
NorthKeppelIsland (C1, C2, D) / 32.6/60 / 10/10 / 2/10
MiallIsland (C2, D) / 32.9/57 / 5/9 / 4/9
StoneIsland (C1, D) / 37.0/75 / 3/10 / 7/10
KeswickIsland (C1, C2) / 34.6/60 / 10/10
BramptonIsland (C2) / 34.0/63 / 3/3
AllonbyIsland (C2) / 33.5/69 / 7/7
DaydreamIsland (C1, C2) / 33.4/63 / 6/6
Acropora tenuis
Chicken Reef (C2) / 35.0/63 / 13/13
Darley Reef (C2) / 34.2/36 / 11/11
Dingo Reef (C1, C2, C3, Cn) / 31.2/75 / 21/21
Girder Reef (C2) / 30.1/36 / 10/10
Credlin Reef (C1, C2, C3) / 32.3/75 / 17/17
UN 21-056 (C1, C2, C3, Cn) / 32.0/48 / 10/10
Paul Reef (C1) / 31.6/54 / 2/2
MiallIsland - (C1) / 32.9/57 / 6/6
StoneIsland (C1) / 37.0/75 / 9/9
KeswickIsland (C1, C2) / 34.6/60 / 1/1
BramptonIsland (C2) / 34.0/63 / 1/1
AllonbyIsland (C1, C2) / 33.5/69 / 10/10
DaydreamIsland (C1, C2) / 33.4/63 / 10/10

References to Table 1

Berkelmans R, De'ath G, Kininmonth S, Skirving WJ (2004) A comparison of the 1998 and 2002 coral bleaching events on the Great Barrier Reef: spatial correlation, patterns, and predictions. Coral Reefs 23:74-83

Pawlowski J, Holzmann M, FahrniJF, Pochon X, Lee JJ (2001) Molecular identification of algal endosymbionts in large miliolid foraminifera: 2. Dinoflagellates. Journal of Eukaryotic Microbiology 48: 368-373.

Wooldridge S, Done TJ (2004). Learning to predict large-scale coral bleaching from past events: A Bayesian approach using remotely sensed data, in-situ data, and environmental proxies. Coral Reefs 23: 96 – 108.
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Table 2: Clade C ITS1 sequences with an identical topological position to representative sequences shown in the phylogenetic tree (Figure 3).

Representative sequences in Fig. 3 / Sequences with an identicial topological position in phylogenetic tree
A. tenuis 36.10-d Credlin Reef / A. millepora 15.2-a Darley Reef
A. millepora 17.1-b Darley Reef
A. millepora 36.7-c Darley Reef
A. tenuis 21.4-e Dingo Reef
A. tenuis 23.3-d Charity Reef
A. tenuis 36.10-b Credlin Reef
A. millepora 46.6-c NorthKeppelIsland / A. millepora 59.1.1 KeswickIsland
A. millepora 61.1.3 AllonbyIsland
A. millepora 63.1.11 DaydreamIsland
A. millepora 63.1.12-a DaydreamIsland
A. tenuis 35.5-a Credlin Reef
A. tenuis 61.1.7-c AllonbyIsland
A. tenuis 61.1.7-e AllonbyIsland
A. tenuis 62.1 Allonby Island
A. millepora 36.7-e Credlin Reef / A. millepora 36.8 Credlin Reef
A. tenuis 35.6-b Credlin Reef / A. tenuis 37.1 Credlin Reef
A. tenuis 41.6 UN 21-056
A. tenuis 48.1 Miall Island
A. tenuis 57.1.2 StoneIsland
A. tenuis 57.1.3 StoneIsland
S. pistillata 45.9-d MumfordIsland
S. pistillata 61.1.6-b BramptonIsland
S. pistillata 61.1.6-c BramptonIsland
S. pistillata 9.6-a Chicken Reef / S. pistillata 7.7-d Chicken Reef
S. pistillata 8.8-b Chicken Reef
S. pistillata 17.2-d Darley Reef
S. pistillata 19.7-c Dingo Reef
S. pistillata 22.2-a Charity Reef
S. pistillata 23.12-b Charity Reef
S. pistillata 23.10-d Charity Reef
S. pistillata 30.1-b Girder Reef
S. pistillata 30.1-d Girder Reef
S. pistillata 34.1-d Credlin Reef
S. pistillata 41.5-d UN 21-056
S. pistillata 41.5-e UN 21-056
A. tenuis 21.4-c Dingo Reef / A. tenuis 34.5-d Credlin Reef
A. tenuis 21.4-b Dingo Reef / A. tenuis 34.5-b Credlin Reef

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