Nelly Bay is one of the larger embayments on the eastern coast of Magnetic Island approximately 7 km from Townsville and faces SE into Cleveland Bay (Figure 2). The approximate size of the reef at Nelly Bay is 43 hectares. Within Nelly Bay the reef rises sharply from the general Cleveland Bay floor to form a wide

reef flat that dries at lowest low tides (Figure 2). The reef slope area contains areas of abundant coral cover mixed with other areas dominated by brown algae. The study site (146˚51'N, 19˚10.5'E) was approximately 700 m directly offshore. This site was chosen since it could be easily accessed from the shore, and contained many species of corals that contained high concentrations of DMSP, and so produced high concentrations of DMS_w compared with phytoplankton production [3] . Human impacts such as increased suspended sediments from dredging and enhanced nutrient levels from sewage discharge into Cleveland Bay affect this site [42] [43] .

Orpheus Island (lat. 18˚35'S, long. 146˚29'E) is ~70 km NE of Townsville on the east coast of Queensland (Figure 2). A major seasonal study was conducted at this site over 19 months, with 18 regular visits to the James Cook University marine research station at Pioneer Bay Reef between 7 December 1992 and 25 February 1994, and one further visit on 19 July 1994 [28] . The DMS results of this study are summarised here in order to make comparisons with Nelly Bay reef, and because the two reefs together give a more accurate idea of the flux of DMS from coral reefs in the local area during the study period. The sampling location for the present study was at the edge of the fringing coral reef in the northern part of Pioneer Bay. The fringing reef flat is ~400 m wide and the sampling site was specifically chosen because both the flooding and ebbing tide travel parallel with the coast over a significant amount of reef before reaching the sampling point [44] . At this site, there was enough water above the reef that even at the lowest of tides, the reef was just covered, enabling water sampling at all tidal heights. The reef flat and slope at Pioneer Bay contain a diverse assemblage of corals, although the coral community is likely impoverished because of human impacts from the marine station.

The 1994 coral bleaching event at Nelly Bay, Magnetic Island was first observed by the Great Barrier Reef Marine Park Authority (GBRMPA) on 16^th January [44] . Underwater observations of the 1994 bleaching event at Nelly Bay from 28^th January to 14^th February have been reported [44] [45] . Jones (1995) [44] observed that the most pronounced bleaching occurred at this site in the arborescent and tabulate acroporids, the montiporids and the pocilloporids from 8^th January. In some cases heavily bleached colonies were observed immediately adjacent to normal coloured colonies of the same species. In the heavily bleached branching coral species, there were usually slight tinges of yellow/brown colour on the undersides of the branches, especially those in the interior of the colonies. Preferential loss of colour on the upward facing surfaces of the corals repre- sented a frequent bleaching response and indicated an effect from increased levels of solar radiation [46] . The first signs of recovery from the bleaching event were noted on a dive conducted on 24^th February 1994 [44] . Mottled or paler patches on partially bleached colonies appeared slightly browner and colonies readily regained their colouration in the 3 - 4 months after the bleaching event. By May 1994 few discoloured colonies could be observed at Nelly Bay, although pale yellow colonies of Pocillopora damicornis were observed as late in the year as July 1994 [31] [45] . Many colonies of P. damicornis lost in excess of 90% of their zooxanthellae, and bleached to a bone white colour. Six months after the bleaching event many colonies of P. damicornis were still bleached with zooxanthellae densities up to 10 times lower than unbleached colonies (1.22 × 10⁵ compared to 2.67 × 10⁶ cm⁻²). Changes in intracellular DMSP concentrations in this coral have been recently reported [31] . In contrast to Nelly Bay no bleaching of corals at Pioneer Bay was observed during our study period.

Continuous sea surface temperatures (SST) were measured at Geoffrey Bay (next bay to Nelly Bay), Magnetic Island by staff from AIMS which enabled heating and cooling periods to be expressed as degree heating week (DHW) or degree cooling weeks (DCW) over the November to March period. Average daily air temperatures, cloud cover and rainfall were recorded by the Townsville Bureau of Meteorology (TBM). Daily global solar radiation and low level cloud (LLC) cover was measured at Townsville airport, about 5 km from Nelly Bay by the Bureau of Meteorology (BoM) and downloaded from the BoM website. LLC was the amount of the sky covered by cloud present in the marine boundary layer (MBL = upper 500 - 1000 m) and is an estimate of marine cumulous and stratocumulus cloud which DMS_a is reputed to form [7] . LLC measurements were made every 3 hours and averaged to give daily mean values. The daily global solar exposure is the total solar energy for a day falling on a horizontal surface. It is measured from midnight to midnight. The BoM’s computer radiation model uses visible images from geostationary meteorological satellites to estimate daily global solar exposures at ground level. At each location the image brightness is used to provide an estimate of the solar irradiance at the ground or sea surface. Essentially, the irradiance at the surface can be calculated from the irradiance at the top of the earth’s atmosphere, the amount absorbed in the atmosphere (dependent on the amount of water vapour present), the amount reflected from the surface (surface albedo) and the amount reflected from clouds (cloud albedo). These instantaneous irradiance values are integrated over the day to give daily solar exposure in MJ・m⁻² and are clearly a reflection of cloud cover, aerosol concentrations and water vapour in the atmosphere. Both LLC and solar radiation measurements whilst measured at Townsville airport are assumed to reflect conditions in the local geographical area.

Water samples from Nelly Bay, Magnetic Island were collected via a small boat about 700 m offshore and over the coral reef. The site was marked by a small buoy [43] . Seawater was gently filtered using a 50 mL silanized glass syringe, with Teflon plunger, through a pre-rinsed 0.45 µm cellulose acetate filter (Minisart, Sartorius). Water samples from Nelly Bay and Pioneer Bay were collected and analysed for DMS_w according to procedures already described [28] [46] . The flux of DMS from Nelly Bay and Pioneer Bay fringing reefs was calculated using the method of Liss and Merlivat (1986) [9] and calculated as reported in Curran and Jones (2000) [47] . More continuous measurements of DMS_w and DMS flux at Nelly Bay reef were obtained by using the regression equations between DMS_w and SSTs (DMS_w = 0.5539 SST − 12.074; r² = 0.44, p < 0.001), and DMS_w and DMS flux (DMS flux = 2.247 DMS_w − 1.6945; r² = 0.67, p < 0.01), enabling comparison with actual measurements. Calculated DMS_w and DMS flux values compared very favorably with values obtained from seawater DMS measurements and application of the transfer velocity equation [9] (in prepn.). Samples collected from Nelly Bay were analyzed for by AIMS [43] .

Zooxanthellae densities in A. formosa have been reported [44] . They are replotted here as a proxy of the stresses that affected corals at Nelly Bay and provide some insights on the influence of A. formosa on DMS in seawater given that coral zooxanthellae produce large amounts of DMS [20] . Zooxanthellae densities in Pocillopera damicornis, which was still bleached at Nelly Bay in June 1994, have recently been reported, as well as intracellular levels of DMSP [3] [31] .

SPSS 11 was used for the statistical analysis of the data sets. For the seawater data, statistically significant differences between treatments were tested using a Pearson’s Product Linear Correlation analysis (parametric, normally distributed) with significance determined at the 0.01 to 0.001 level.

Periods of very high solar radiation levels occurred over 29 days (>29 MJ・m⁻²) in November (DOY 1-31), December (DOY 31-61) and early January (DOY 62- 72), with 9 consecutive days of extreme solar radiation levels from 27^th November to 5^th December (DOY 27-36) when values ranged from 29.2 to 30.9 MJ・m⁻²・d⁻¹ (mean 30.3) (Figure 3(a)). From 1^st to 6^th January (DOY 62-71) prior to the bleaching event on 8^th January (DOY 69), extreme solar radiation levels ranged from 28.3 to 29.9 MJ・m⁻²・d⁻¹ (mean 29.4). The mean solar radiation levels over Nelly Bay reef in January (mean = 26.7 MJ・m⁻²・d⁻¹), with the early January and late November to early December values, were higher than the mean January levels for the 1990-2012 period (24.7 MJ・m⁻²・d⁻¹), and higher than the highest monthly mean for all 22 years (28.4 MJ・m⁻²・d⁻¹) (BoM online data). From 4-9^th January (DOY 65-70), daily air temperatures averaged over 30˚C, and included a series of exceptionally high maximum daytime temperatures in excess of 36˚C recorded by the Townsville Bureau of Meteorology (TBM). On 7^th January 1994, the maximum air temperature was 44.3˚C, the highest air temperature recorded at the time by the TBM since 1942 [44] . From 19^th-23^rd January

(DOY 80-84), daily air temperatures also averaged over 30˚C, and included a series of unusually high minimum daily temperatures, including the second highest minimum air temperature (29˚C) recorded locally since 1942. Daily air temperatures then fell sharply from 29.3˚C on 24^th January, to 24.8˚C on 31^st January 1994 [44] .

Regular pulses of LLC cover occurred in November and December that lasted for about a week (Figure 3(b)). From November-December mean daily LLC generally averaged 2 - 3 oktas with pulses often coinciding with low tides and rainfall (Figure 3(c)). These pulses of LLC coincided with relatively stable SSTs of 27.5˚C - 29.5˚C (mean 28.37˚C), except from 19-28^th December when SSTs reached 30.3˚C. From the 2^nd to 9^th January (DOY 63-70) mean daily LLC cover markedly decreased (~1 okta) and coincided with the extreme solar radiation levels that caused corals to bleach white on their upper surfaces at Nelly Bay reef [44] with SSTs increasing to 32˚C - 34˚C which continued to 23^rd January (Figure 3(c)). From 10^th January to 26^th February (DOY 71-118) increasing pulses of LLC cover occurred (2 - 6 oktas) as the corals slowly recovered, and then remained low and relatively constant (daily mean ~2 - 3 oktas) up to 9^th March (DOY 118-129). As LLC increased in February, and low tides increased in height from February-March, SSTs gradually decreased (Figure 3(c)). Stable SSTs often coincided with significant rainfall that occurred in November (monthly mean 102 mm) (Figure 3(c)), with lower, but more regular, and smaller amounts falling in December (monthly mean 44 mm), which often fell during low tides. On the 10^th and 12^th January 54 and 12 mm of rain occurred, with 70 mm falling on 31^st January, yielding a monthly mean rainfall of 149 mm. In February very high rainfall occurred on 1^st and 2^nd February (66, 25 mm), with smaller amounts occurring throughout the month, yielding a monthly mean of 212 mm. From 9-13^th March (DOY 129-133) mean daily LLC cover rapidly decreased to zero and then rapidly increased to ~ 4.5 oktas over 9 days to 22^nd March (DOY 142) when the mean daily LLC cover decreased gradually to about 1.5 oktas on 31^st March (DOY 151) (Figure 3(b)). No rainfall occurred in March, and in April only 0.6 mm of rainfall was recorded on 28^th April.

DMS_w concentrations at Nelly Bay Reef ranged from nd-3.9 nM (mean 2.2 nM) with generally elevated concentrations (>1 µM) occurring from 6^th November to the 3^rd February, decreasing to very low concentrations (<1 µM) from 13^th February to 2^nd May (Figure 4(a)). During mid-February to early May DMS_w concentrations were particularly low at Nelly Bay (nd-0.6 nM, mean = 0.2 nM) (Figure 4(a)). DMS flux concentrations ranged from nd-4.8 µmol・m⁻²・d⁻¹ (mean 1.64) with high values before the bleaching event (Figure 4(a)), and elevated flux levels after the bleaching event on 21^st January, decreasing to nd-0.8 µmol・m⁻²・d⁻¹ from 3^rd February to 2^nd May. A measure of DMS emitted from coral reefs in the wider local region was obtained by combining the DMS_w and DMS flux measurements from the fringing coral reef at Nelly Bay fringing reef (Magnetic Island) with those of Pioneer Bay (Orpheus Island) (Figure 4(b)). These measurements again highlight increasing pulses of DMS_w and DMS flux that occurred at these two reefs over the period November to the end of February. For example from 4^th November-17^th November DMS flux emitted from these two coral reefs ranged from 0.4 - 4.4 µmol・m⁻²・d⁻¹ (mean = 2.4). From 8^th January to 3^rd February much more DMS was emitted from Pioneer Bay reef than Nelly Bay reef with fluxes ranging from 0.4 - 14 µmol・m⁻²・d⁻¹ (mean 4.1). On the 24^th January the huge pulse of DMS_a emitted from Pioneer Bay reef (14 µmol・m⁻²・d⁻¹) occurred when significant rainfall occurred in the region (10 mm at Townsville airport on 23^rd January) and low tides occurred at night (0.9 m) (Figure 3(c)).

Similarly on 25^th February an even higher flux of DMSa was emitted from the fringing reef at Pioneer Bay ranging from 19 - 20 µmol・m⁻²・d⁻¹ (mean 19.5), when medium low tides occurred (0.8 m) (Figure 4(b)). These huge fluxes of DMS emitted from Pioneer Bay reef were in contrast to the very low fluxes of DMS that were emitted from 3^rd February to 2^nd May from the Nelly Bay fringing reef (nd-0.8 µmol・m⁻²・d⁻¹) where coral bleaching occurred (Figure 4(a)), and calculated fluxes from 10th January to 23rd January (Figure 4(d)). As the lowest nighttime tides decreased at both Nelly Bay and Pioneer Bay reefs seawater

DMS_w increased (Figure 4(c)), suggesting that DMS fluxes increase from reefs as more of the reefs are exposed at low tides. Ammonium concentrations in Nelly Bay from 6^th November 1993 to 2^nd May 1994 ranged from 0.03 - 1.83 µM (Figure 4(e)), with elevated levels in early November, decreasing to very low levels in early to mid-December, and then a huge increase from the 8^th January (1.83 µM) during the coral bleaching period. Very high concentrations (>1 µM) occurred up to 31^st March, with levels decreasing again to very low levels in April and May (Figure 4(e)). Zooxanthellae densities in Acropora formosa started to rapidly decrease on 8^th January as this coral started to bleach, reaching lowest levels on 13^th February [44] (Figure 4(f)). On 31^st March as SSTs decreased to 27˚C at Nelly Bay, zooxanthellae densities reached 6.5 × 10⁴ zooxanthellae per polyp, and then slowly increased their numbers, stabilizing at 10.5 × 10⁴ zooxanthellae per polyp on 2^nd May (Figure 4(f)). These concentrations are still very low for this coral suggesting this coral had not completely recovered from the bleaching, and may even have been bleaching in November to December. At Pioneer Bay, Orpheus Island no bleaching of corals was reported.

A continuous record of SSTs was recorded by AIMS at Geoffrey Bay (Magnetic Island) at 2.1 m depth on the reef flat. Several warming, cooling and stable periods of SSTs were evident over the November to March period (Figure 5). For example, from 1^st-9^th November SSTs increased from 27.55˚C - 28.81˚C at a rate of 0.11˚C per day. SSTs then remained relatively stable from 9^th-17^th November

(mean 28.61˚C ± 0.16˚C) until another warming period occurred from 17^th-22^nd November with a heating rate of 0.17˚C per day. From 22^nd-25^th November another stable SST period occurred (mean 29.49˚C ± 0.11˚C), followed by a cooling period from 25^th November to 1^st December when SSTs cooled from 29.52˚C to 27.31˚C at a rate of 0.28˚C per day. This was followed by yet another period of stable SSTs from 2^nd-10^th December (Mean 28.11˚C ± 0.38˚C). From 10^th-14^th December another cooling period occurred with SSTs decreasing from 28.32˚C to 27.2˚C at a cooling rate of 0.22˚C per day. From 15^th-19^th December SSTs were relatively stable at 27.54˚C ± 0.25˚C. From the 18^th December to 27^th December, a period of 10 days, SSTs increased from 27.37˚C to 30.32˚C (Figure 5) increasing at a rate of ~0.30˚C per day. From 28^th to 31^st December a stable period of SSTs again occurred ranging from 28.02˚C - 29.40˚C (mean = 28.71˚C ± 0.6˚C). SSTs from 2^nd to 9^th January rapidly increased from 30.3˚C to 34˚C (mean 31.7˚C) at a rate of ~0.46˚C per day. From 10^th-15^th January SSTs cooled significantly (0.38˚C per day) to 30.71˚C on 15^th January. Another stable but high SST period then occurred from 15^th to 21^st January, with SSTs stabilizing at 31.87˚C ± 0.25˚C (above the coral bleaching threshold), followed by a short, sharp warming period from 21^st-23^rd January when SSTs reached 31.95˚C (increasing at 0.22˚C per day). A sustained and rapid cooling period then occurred from 23^rd January to 3^rd February, decreasing to 27.75˚C at a rate of 0.20˚C per day (Figure 5). From 3^rd-6^th February SSTs rapidly increased at the highest warming rate of 0.39˚C per day, peaking at 29.56˚C on 6^th February. This was followed by the longest stable period of SST s from 6^th February to 23^rd February (mean 29.30˚C ± 0.28˚C) when more regular pulses of LLC occurred (DOY 98-125; Figure 3(b)), and when significant amounts of rain fell over this period (Figure 3(d)). From 24^th February to 12^th March a second warming period occurred at a much lower warming rate of 0.1˚C per day (28.72˚C - 30.46˚C), followed by decreasing SSTs from 12^th March (30.26˚C) to 29^th March (25.81˚C). SSTs then cooled to 24.9˚C on 4^th May.

Mean daily LLC cover over Cleveland Bay reefs was compared with changes in the lowest nighttime and daytime tides (Figures 6(a)-(e)), and presence of rainfall (Figure 3(d)), as these natural factors can release large amounts of DMS_a from coral reefs [10] [29] . These large pulses of DMS_a can potentially assist LLC formation (see Figure 1). Increasing pulses of LLC occurred from 1-25^th November and often coincided with very low nighttime tides (−0.1 to 0.8 m) (Figure 6(a)), with 25 mm rain falling between 13^th-17^th November during some of the lowest nighttime tides of the month (−0.1 - 0.5 m) (Figure 3(c)). Pulses of LLC cover also occurred from 16^th-21^st November on rising tides of 0.2 m to 1 m (no rainfall), whilst from 23^rd-26^th November a large pulse of LLC occurred during low nighttime tides of 0.5 - 0.6 m and high rainfall (77 mm) (Figure 6(a), Figure 3(c)). On 30^th November high levels of LLC coincided with a low nighttime tide of 0.5 m and 4 mm of rainfall. The lowest daytime tides from November-February were always higher than the lowest nighttime tides with both low tides often coinciding with elevated LLC (Figures 6(a)-(e)). In December, tides were again very low, mostly at night. Pulses of LLC cover often coincided with decreasing lowest nighttime tides (Figure 6(b)) and very high DMS fluxes of 6 - 8.6 µmol・m⁻²・d⁻¹ (Figure 4(d)), in the more continuous flux profile, and more regular rainfall (Figure 3(c)). Rainfall was not as high as in November but occurred intermittently throughout December and often occurred during periods of the lowest nighttime tides (−0.1 to 0.6 m; Figure 3(c)). In the first week of January when corals bleached at Nelly Bay there was almost no LLC cover in the Townsville region (Figure 6(c)), whilst DMS fluxes were low ranging from 0.4 - 3.4 µmol・m⁻²・d⁻¹ (Figure 4(a)) during medium low nighttime tides of ~1 m. From 9^th January increasing pulses of LLC cover occurred over coral reefs in the Townsville region and again often occurred during periods of the lowest nighttime tides (0.3 and 0.4 m) and intense bursts of tropical rainfall on 10^th January (54.4 mm) and 12^th January (9.8 mm) (Figure 3(c)). From 22^nd to 30^th January rainfall ranged from 0.2 mm to 10.4 mm with the highest rainfall occurring on a 1m low tide on 23^rd January (Figure 3(c)). On 31^st January to 2^nd February the highest levels of LLC cover occurred (3 - 5 oktas) during intense bursts of tropical rainfall and coincided with relatively high nighttime low tides (1 - 1.3 m) (Figure 6(c), Figure 6(d), Figure 3(c)). More regular pulses of LLC cover

often occurred during low tides after 2^nd February, and often coincided with rainfall bursts of <10 mm (Figure 6(d)). Smaller differences in low tides occurred between the lowest nighttime tides and lowest daytime tides in February (Figure 6(d)) and these prolonged periods of low tides and heavy rainfall (>70 mm) may have caused the extremely large DMS fluxes (20 µmol・m⁻²・d⁻¹) from Pioneer Bay on 25^th February (Figure 6(d), Figure 4(b), Figure 3(c)). In March the lowest nighttime tides ranged from 0.6 - 0.8 m with pulses of LLC cover often coinciding with lowest tides from 1^st-6^th March (Figure 6(e)), whilst high LLC cover occurred in the third week of March during decreasing daytime and nighttime low tides (1.5 m - 0.5 m) (e.g. 18^th-24^th March). No rainfall occurred in March.

The heating and cooling periods of the Nelly Bay reef flat over the 5 month period (Figure 5) were first calculated as changes in SST per day and then were scaled up to “Degree Heating Week” (DHW) or “Degree Cooling Week” (DCW) as coral ecologists often use a similar index to compare coral bleaching events around the world. We have done this so that we can compare each warming and cooling period over a standard amount of time (i.e. 7 days). For example, the first heating period from 1-9^th November (DHW +0.77˚C) was followed by relatively stable SSTs from 9-17^th November (28.61˚C ± 0.16˚C) (Figure 7). This was followed by a heating period from 17-22^nd November with a DHW of +1.19˚C followed by a SST stabilization period from 22-25^th November of 29.49˚C ± 0.10˚C, followed by a significant cooling period from 25^th November to 1^st December with a DCW of −1.96˚C which surprisingly was equal to the sum of the two previous DHWs (i.e. +0.77 +1.19 = +1.96˚C). These SST heating and cooling periods in November (Figure 7) were generally accompanied by elevated levels of DMS_w, DMS flux at Nelly Bay and Pioneer Bay (Figure 4(a), Figure 4(b)), elevated LLC (Figure 6(a)) and intermittent rainfall (Figure 3(c)), during periods of low daytime and nighttime tides (0.26 - 0.83 m, mean 0.59 m) (Figure 6(a)). Over 9 days from 2-10^th December (Figure 7) another SST stabilization period occurred (28.11˚C ± 0.38˚C). From 10-14^th December another cooling period occurred with a DCW of −1.54˚C, which was again followed by a SST stabilization period from 15-19^th December (27.54˚C ± 0.25˚C) (Figure 7). From 19-28^th December the second highest warming event occurred (Figure 5) giving a DHW of +2.31˚C, with SSTs at 30.3˚C, just over the thermal bleaching threshold of Acropora. This was followed by a SST stabilization period from 28-31^st December when SSTs were ~28.7˚C. From 15^th-31^st December DMS_w and DMS flux gradually increased at Nelly Bay reef (Figure 4(d)) in the more continuous record, whilst LLC increased from 17-23^rd and 28-31^st December (Figure 6(b)). These periods of enhanced DMS_w and DMS flux in December often occurred during the lowest nighttime tides (0.1 - 0.7 m; mean 0.52 m) and periods of high LLC (Figure 6(b)). From 2-9^th January mean SSTs reached 31.7˚C with a DHW of +1.4˚C, followed by a short rapid cooling period from 10-15^th January of

−2.66˚C (Figure 7). This was followed by high mean SSTs from 15-21^st January of 31.9˚C and relatively high DMS_w and DMS fluxes from the reefs (Figure 4(a), Figure 4(b), Figure 4(d)).

From 21-23^rd January a short warming period occurred with a DHW of +1.54˚C coinciding with enhanced DMS fluxes from Pioneer Bay reef (14 µmol・m⁻²・d⁻¹) (Figure 4(b)), and increasing levels of LLC from 21^st January to 3^rd February (Figure 6(c), Figure 6(d)). This was followed by a similar magnitude cooling period from 23^rd January to 3^rd February of −1.4˚C (Figure 7). A short intense warming period from 3-6^th February recorded the highest DHW of +2.73˚C when DMS_w and DMS fluxes were very low on 3^rd February (0.7 µmol・m⁻²・d⁻¹) (Figure 4(a)) and corals were still stressed as evidenced by low zooxanthellae counts in Acropora (Figure 4(f)). From 6^th-23^rd February an exceptionally long period of stable SSTs of 29.3˚C ± 0.28˚C occurred (Figure 7), coinciding with regular pulses of LLC (Figure 6(d)) and high DMS fluxes at Pioneer Bay reef (14 µmol・m⁻²・d⁻¹) in late January, and on 25^th February) (20 µmol・m⁻²・d⁻¹) (Figure 4(b)), and in the more continuous flux record (Figure 4(d)). The Pioneer Bay reef did not experience bleaching since SSTs were < 30˚C over the 19 month study, whilst at Nelly Bay reef in early to mid-February DMS flux was very low at ~0.4 µmol・m⁻²・d⁻¹ and SSTs were exceptionally high 30˚C - 34˚C. A small warming period of +0.7˚C DHW occurred from 24 February-12^th March, followed by a cooling period of −0.42˚C as the region exited the warm summer months.

Solar radiation was significantly positively correlated with DMS_w and DMS flux (p < 0.05) indicating that as solar radiation increases both DMS_w and DMS flux also increase (see Table 1). One of the most interesting findings in this work was

Units: DMS_w = seawater DMS (nM). SR = Solar radiation (MJ・m⁻²). DMS flux = µmol・m⁻²・d⁻¹. = µmol. Zooxanthellae concentration = zooxanthellae polyp⁻¹ × 10⁴. LLC = Low Level Cloud (oktas). LNT = Lowest night-time tide (m). NB = Nelly Bay. PB = Pioneer Bay. * = highly significant. # = Highest DMS flux values for PB omitted in correlation. ## = SST < 30˚C.

the very significant positive correlation of DMS_w with SST (r² = 0.44, p < 0.001) for Pioneer Bay fringing reef (see Table 1). However, there was no significant correlation of DMS_w and SSTs for Nelly Bay reef if we included SSTs > 30˚C. However, when SSTs > 30˚C are excluded there was a significant positive correlation between DMS_w and SSTs for Nelly Bay reef (r² = 0.83, p < 0.01). Interestingly almost the same linear regression equation was obtained for the DMS_w- solar radiation correlation for Nelly Bay reef as the DMS_w-SST correlation for Pioneer Bay reef (see Table 1). However, the DMS_w-SST linear regression equation for Nelly Bay had a much greater slope by as much as 162%, compared with Pioneer Bay. It is interesting that the regression equation that correlates the lowest nighttime tide with DCW and DHW (Figure 8(a)), although just short of significance at p > 0.1, indicates that cooling of reef flat waters generally occurs during low nighttime tides that ranged from 0.5 - 0.9 m (mean 0.5 m). In contrast warming of reef flat waters generally occurred during tides that ranged from 0.7 - 1.4 m (mean 0.97 m) which seems the reverse of what you might expect. Also the regression equation that describes the significant (p < 0.10) relationship between DMS flux and DCW and DHW (Figure 8(b)) indicates that cooling of reef flat waters generally occurred at lower DMS fluxes that ranged from 0.1 - 7.48 µmol・m⁻²・d⁻¹ (mean 4.8), whilst warming of reef flat waters generally occurred at slightly higher DMS fluxes that ranged from 4.4 - 7.8 µmol・m⁻²・d⁻¹ (mean 6.4). DMS flux decreased linearly with DCW, although the correlation was not significant at p > 0.10 (Figure 8(b)). DMS flux was very significantly (p < 0.001) correlated with reef flat SSTs (r² = 0.80) for SSTs ranging

from 27.5˚C to 33.3˚C, with the correlation described by a polynomial equation (n = 2) (Figure 8(c)). As SSTs breached the coral bleaching threshold and reached maximum SSTs of 33.3˚C, DMS flux decreased to nd levels (Figure 8(c)). When SSTs > 30˚C were omitted from the correlation DMS flux was significantly (p < 0.01) linearly correlated with increases in SSTs from 27.5˚C to 29.68˚C (Figure 8(c)). Seawater was also significantly positively correlated with SSTs at Nelly Bay reef (r² = 0.56, p < 0.05) (Table 1). DMS_w measured at Nelly Bay and Pioneer Bay reefs was significantly positively correlated with the lowest nighttime tides (r² = 0.57, p < 0.02) with the correlation predicting that as the lowest nighttime tide decreases, DMS_w often increases. Also of interest was the highly significant positive correlation of DMS_w and DMS flux for Nelly Bay and Pioneer Bay (r² = 0.67, p < 0.001) (see Table 1). Whilst the correlation between zooxanthellae counts in Acropora formosa and DMS flux was not quite significant (p > 0.10), more data points may establish a statistically significant correlation. However, the correlation suggests that as zooxanthellae counts decrease in Acropora coral the flux of DMS from reefs decreases. There was also a significant correlation of with zooxanthellae counts (r² = 0.50, p < 0.10), and an almost significant correlation between DMS_w and zooxanthellae counts (r² = 0.43, p > 0.10). Whilst the overall correlation between and DMS_w was not significant, when data points from the 13^th February are not included (i.e. when Acropora reached it’s lowest zooxanthellae concentrations) the correlation was highly statistically significant (r² = 0.99, p < 0.001). Whilst more data points are needed the DMS_w-LLC correlation is highly significant (p < 0.001) and suggests that as DMS_w in reef environments increases LLC cover also increases (see Table 1). The correlation between DMS flux and LLC is also highly significant (Figure 8(d)) (see Table 1).

Different LLC-SST correlations occurred for different cooling and heating periods experienced at the Nelly Bay fringing reef. For example, for cooling periods not affected by coral bleaching (i.e. cooling periods 1, 2, 5), increasing levels of LLC from ~0.5 - 4.5 oktas were positively correlated with SSTs (p < 0.001) when SSTs were < 30˚C (Figure 9(a)). However, for cooling periods after coral bleaching (i.e. cooling periods 3, 4), SSTs were negatively correlated with LLC (p < 0.01) and indicated that SSTs could be extremely high (>30˚C) at very low levels of LLC cover (i.e. 2 - 3 oktas) (Figure 9(b)). The regression equation also indicated that this cooling took some time to reduce SSTs to < 30˚C. For the heating periods (i.e. periods 1, 2, 3, 5, 6, 7) that did not include the coral bleaching period 4 (i.e. 2-9^th January), increasing LLC was significantly positively correlated with increased SSTs up to 33.5˚C (p < 0.01) (Figure 9(c)). For heating periods that included the coral bleaching event (i.e. periods 1, 2, 3, 4, 7), but not period 5 (21-23^rd January) and period 6 (the highest heating rate from the 3^rd-6^th February), decreasing levels of LLC were accompanied by increases in SSTs as you might expect (Figure 9(d)). Solar radiation levels were significantly correlated with LLC (p < 0.001) (Figure 10). However, although increasing LLC generally attenuated solar radiation there were clearly occasions when extreme

solar radiation (~29 - 30 MJ・m⁻²) occurred at both low levels of LLC (<2 oktas) and medium levels of LLC (3 - 4 oktas) (circled area, Figure 10).