Biochemical responses to ocean acidification contrast between tropical corals with high and low abundances at volcanic carbon dioxide seeps

At two natural volcanic seeps in Papua New Guinea, the partial pressure of carbon dioxide (pCO2) in the seawater is consistent with projections for 2100. Here, the cover of massive scleractinian corals Porites spp. is twice as high at elevated compared with ambient pCO2, while that of branching corals such as Acropora millepora is greater than twofold reduced. To assess the underlying mechanisms for such community shifts under long-term exposure to elevated pCO2, biochemical parameters related to tissue biomass, energy storage, pigmentation, cell protection, and cell damage were compared between Porites spp. and A. millepora from control (mean pHtotal = 8.1, pCO2 = 323 µatm) and CO2 seep sites (mean pHtotal = 7.8, pCO2 = 803 µatm) each at two reefs. In Porites spp., only one of the biochemical parameters investigated (the ratio of photoprotective to light-harvesting pigments) responded to pCO2, while tissue biomass, total lipids, total proteins, and some pigments differed between the two reefs, possibly reflecting differences in food availability. Furthermore, some fatty acids showed pCO2 –reef interactions. In A. millepora, most pigments investigated were reduced at elevated pCO2, while other parameters (e.g. tissue biomass, total proteins, total lipids, protein carbonyls, some fatty acids and pigments) differed between reefs or showed pCO2–reef interactions. Tissue biomass, total lipids, and cell-protective capacities were distinctly higher in Porites spp. than in A. millepora, indicating higher resistance to environmental stress in massive Porites. However, our data suggest that important biochemical measures remain relatively unaffected in these two coral species in response to elevated pCO2 up to 800 µatm, with most responses being smaller than differences between species and locations, and also when compared with responses to other environmental stressors such as ocean warming.

The impact of grazing by eastern grey kangaroos (macropus giganteus) on vegetation recovery after fire at Reef Hills regional park, Victoria

In southeastern Australia ecological burning is frequently used to maintain a number of plant and animal populations. However, many of these prescribed fires are small, and may focus intense grazing activity on new regrowth. At Reef Hills Regional Park, Victoria shrub species have senesced, presumably due to the absence of fire. Ecological burning may be necessary to promote regeneration, however, the population density of the Eastern Grey Kangaroo (Macropus giganteus) is high (approx 38 per km2), and grazing pressure presents a significant risk to postfire vegetation recovery. An assessment of grazing patterns and their effects on postfire recovery was carried out at Reef Hills Regional Park through grazing exclusion plots. Preferential grazing by Eastern Grey Kangaroos occurred on small burnt plots compared to adjacent unburnt areas as determined by faecal pellet counts. On burnt areas, there was a significant reduction in shrub diversity on grazed plots compared to ungrazed plots. Most observations of kangaroos were of animals grazing on farmland surrounding the Park, and it is likely that any burning might shift grazing from farmland to burnt areas when new growth occurs. This needs to be considered before any ecological burn plan is applied to manage vegetation communities, particularly if the plan requires small areas to be burnt. We recommended that a large area up to 200 ha area be burnt and monitored to determine whether burning larger areas disperses grazing pressure from macropods to a level where impacts on vegetation are reduced and localized plant extinctions do not occur.

From transcriptome to biological function: environmental stress in an ectothermic vertebrate, the coral reef fish Pomacentrus moluccensis

Background
Our understanding of the importance of transcriptional regulation for biological function is continuously improving. We still know, however, comparatively little about how environmentally induced stress affects gene expression in vertebrates, and the consistency of transcriptional stress responses to different types of environmental stress. In this study, we used a multi-stressor approach to identify components of a common stress response as well as components unique to different types of environmental stress. We exposed individuals of the coral reef fish Pomacentrus moluccensis to hypoxic, hyposmotic, cold and heat shock and measured the responses of approximately 16,000 genes in liver. We also compared winter and summer responses to heat shock to examine the capacity for such responses to vary with acclimation to different ambient temperatures.
Results
We identified a series of gene functions that were involved in all stress responses examined here, suggesting some common effects of stress on biological function. These common responses were achieved by the regulation of largely independent sets of genes; the responses of individual genes varied greatly across different stress types. In response to heat exposure over five days, a total of 324 gene loci were differentially expressed. Many heat-responsive genes had functions associated with protein turnover, metabolism, and the response to oxidative stress. We were also able to identify groups of co-regulated genes, the genes within which shared similar functions.
Conclusion
This is the first environmental genomic study to measure gene regulation in response to different environmental stressors in a natural population of a warm-adapted ectothermic vertebrate. We have shown that different types of environmental stress induce expression changes in genes with similar gene functions, but that the responses of individual genes vary between stress types. The functions of heat-responsive genes suggest that prolonged heat exposure leads to oxidative stress and protein damage, a challenge of the immune system, and the re-allocation of energy sources. This study hence offers insight into the effects of environmental stress on biological function and sheds light on the expected sensitivity of coral reef fishes to elevated temperatures in the future.

Heterologous microarray experiments used to identify the early gene response to heat stress in a coral reef fish

Coral reef fishes are expected to experience rising sea surface temperatures due to climate change. How well tropical reef fishes will respond to these increased temperatures and which genes are important in the response to elevated temperatures is not known. Microarray technology provides a powerful tool for gene discovery studies, but the development of microarrays for individual species can be expensive and time-consuming. In this study, we tested the suitability of a Danio rerio oligonucleotide microarray for application in a species with few genomic resources, the coral reef fish Pomacentrus moluccensis. Results from a comparative genomic hybridization experiment and direct sequence comparisons indicate that for most genes there is considerable sequence similarity between the two species, suggesting that the D. rerio array is useful for genomic studies of P. moluccensis. We employed this heterologous microarray approach to characterize the early transcriptional response to heat stress in P. moluccensis. A total of 111 gene loci, many of which are involved in protein processing, transcription, and cell growth, showed significant changes in transcript abundance following exposure to elevated temperatures. Changes in transcript abundance were validated for a selection of candidate genes using quantitative real-time polymerase chain reaction. This study demonstrates that heterologous microarrays can be successfully employed to study species for which specific microarrays have not yet been developed, and so have the potential to greatly enhance the utility of microarray technology to the field of environmental and functional genomics.

Internal structure and paleoecology of the lower Permian Uzunbulak reef complex of the Tarim Basin, Northwest China

The internal construction and biotic communities of the Uzunbulak reef of the northwestern Tarim Basin are studied for the first time. The reef was built during the Sakmarian, while the reef substrate and capping beds are of latest Asselian and earliest Artinskian ages, respectively. The reef substrate beds are composed of skeletal and oncoid grainstone. Those fusulinid-dominated skeletal shoals and oncoid banks indicate a high-energy environment and produced local topographic highs on which the reef grew. Reef framework consists mainly of calcisponge bafflestone, calcisponge-Thartharella framestone, and Tubiphytes, Archaeolithoporella and Girvanella boundstones. Calcisponges were the primary frameconstructors that baffled high-energy currents. Archaeolithoporella, Tubiphytes, Girvanella and possibly microbes acted as the primary binders for the boundstone framework. Fusulinids and brachiopods were common reef dwellers. The interreef facies sediments are composed of skeletal-crinoid wackestone-packstone. Most of bioclasts have thick, micritized envelopes. The back-reef facies deposits consist of alternating skeletal packstone to wackestone and black shale. Sea-level fluctuations were probably accountable for the reef growth and demise.

Of the reefal dwellers, brachiopods are extraordinarily abundant in Uzunbulak. They are assignable to five distinctive associations, one each from the reef substrate, framework and inter-reef facies, respectively, and two from the reef capping facies. The brachiopods in the substrate beds were mostly attached to hard substrates by a pedicle, while a few species rested on soft substrates by support of halteroid spines. Cementation of the ventral valve on hard substrates characterizes attachment of the reef framework brachiopods. All inter-reef species were anchored into the substratum comprising hard material by a strong pedicle. Back-reef brachiopods dominantly rested on the soft substrates by support of halteroid spines. the framework brachiopods had the strongest wave-resistant capability;those from both substrate and inter-reef facies were moderately capable of withstanding agitation; and the backreef species preferred to live in calmwater, organic-rich muddy environments.

Environmental site assessment for abalone ranching on artificial reef

This study investigated the feasibility of ranching the abalone Haliotis rubra (Leach) and Haliotis laevigata (Donovan) on concrete artificial reefs at a site chosen by industry investors on silty bottom off Altona Beach, Port Phillip Bay, Victoria, Australia. The study started from the premise that artificial reef deployment combined with abalone stock enhancement may achieve the dual purpose of habitat and stock improvement. It evaluated the hydrodynamics of the site in relation to artificial reef structural stability and drift algal transport, the development and ecology of the artificial reef assemblage, and abalone enhancement by seeding the reefs with hatchery juvenile abalone and transplanting adult broodstock abalone. Despite a scarcity of reports on culturing abalone on artificial reef, a literature review examined broadly the functions of artificial reefs, particularly in the context of abalone enhancement, and the relationship between artificial reefs, hydrodynamics and ecology. The major finding was that the success of artificial reef projects is highly dependent on the environment of the chosen site, and that preliminary studies are essential to predict their likely success. This consideration alone provided strong justification to undertake this study. The topography at the Altona site was generally flat, with natural patches of low basalt boulder reef, offering low habitat complexity, yet supporting a diverse range of flora and fauna, including a low-density wild stock of H. rubra. Water depth was a mean of 3.3 m at low tide and 4.4 m at high tide. A single, uncomplicated, concrete artificial reef of H-shape design, was tested as abalone habitat. The hydrodynamic analysis confirmed previous studies of Port Phillip Bay, with mild current speeds of mean 0.045 m.s-1, and maximum-modelled wave height (H1/3) of 1.21 m and period (T1/3) of 4.51 sec. Water temperature ranged from 9.9şC during July to 23.8şC during January, with salinity averaging of 35.5 ppt. The site had a low probability of receiving drift algae, necessary as a food source for abalone, because of its geographic location, potentially affecting ranch productivity. Ecological monitoring of the three-year old artificial reef shows complex changes in the flora and fauna over time, particularly in respect of the sessile fauna. Key differences between the artificial reef and a nearby natural reef community were: lower cover of corallines and late colonisers, such as sponges. High levels of sedimentation were recorded at the Altona site. Hatchery juvenile H. laevigata, with mean survival of 15% after two years and a mean annual growth rate of 39 mm, showed the most promise for outplanting. In comparison, for hatchery juvenile H. rubra, mean survival was 9% after three years and mean annual growth rate was 22 mm. No natural recruitment of H. laevigata was recorded on artificial reef despite transplants of adult broodstock on the reefs. Natural recruitment of H. rubra was also low and insufficient to reliably contribute to abalone ranch stock. Having examined the hydrodynamic, ecological and enhancement attributes of the Altona site, the study concluded that the site was marginally viable for abalone ranching, and that an alternative site near Werribee, 20 km further southwest, had superior attributes for growth and survival of abalone.

Asexual reproduction does not produce clonal populations of the brooding coral Pocillopora damicornis on the Great Barrier Reef, Australia

We have investigated the relationship between genotypic diversity, the mode of production of brooded larvae and disturbance in a range of reef habitats, in order to resolve the disparity between the reproductive mode and population structure reported for the brooding coral Pocillopora damicornis. Within 14 sites across six habitats, the ratio of the observed (G o) to the expected (G e) genotypic diversity ranged from 69 to 100% of that expected for random mating. At three other sites in two habitats the G o /G e ranged from 35 to 53%. Two of these sites were recently bleached, suggesting that asexual recruitment may be favoured after disturbance. Nevertheless, our data suggest that brooded larvae, from each of five habitats surveyed, were asexually produced. While clonal recruitment may be important in disturbed habitats, the lack of clonality detected, both in this and earlier surveys of 40 other sites, implies that a disturbance is normally insufficient to explain this species’ continued investment in clonal reproduction.

Reductions in nutrient discharge from aquaculture through recycling of water utilising floating media and activated carbon filtration

Nutrient discharge into coastal areas, such as the Great Barrier Reef can result in the degradation of coastal ecosystems. For example, excess nitrogen and phosphorus can damage corals through inducing algal bloom and subsequent shading. Excessive phosphorus can further weaken coral skeletons making them susceptible to damage. Land based industries such as aquaculture can contribute to such problems. This study set out to develop a system whereby water from aquaculture can be constantly reused resulting in minimized waste discharge. A three-stage filtration system utilizing floating media and activated carbon was designed to harness bacterial processes that could reduce both particulate and dissolved compounds to the extent whereby approximately 100% reuse of the wastewater became possible. This involved efficient and effective particulate and biological removal mechanisms in both aerobic and anaerobic zones of the filtration system. This design reduced dissolved nitrogen levels by up to 70% and maintained low phosphorus levels, which allowed the reuse of water for the successful culture of barramundi with a survival rate of 97% over 25 days. This pilot scale study demonstrated the potential of reusing aquaculture wastewater from the viewpoint of reducing nutrient input into coastal environments. Future research will refine these processes and assess the performance of the system at several commercial scale applications.

Field evaluation of a suite of biomarkers in an Australian Tropical Reef Species, Stripey Seaperch (Lutjanus carponotatus) : Assessment of Produced Formation water from the Harriet A Platform

There is paucity of data regarding hydrocarbon exposure of tropical fish species inhabiting the waters near oil and gas platforms on the Northwest Shelf of Australia. A comprehensive field study assessed the exposure and potential effects associated with the produced water (PW) plume from the Harriet A production platform on the northwest shelf in a local reef species, Stripey seaperch (Lutjanus carponotatus). This field study was a continuation of an earlier pilot study which concluded that there were “warning signs” of potential biological effects on fish populations exposed to PW. A 10-day field caging study was conducted deploying 15 individual fish into 6 separate steel cages set 1-m subsurface at 3 stations in a concentration gradient moving away from the platform. A battery of biomarkers were evaluated including hepatosomatic index (HSI), total cytochrome P450, bile metabolites, CYP1A-, CYP2K- and CYP2M-like proteins, cholinesterase (ChE) activity, and histopathology of liver and gill tissues. Water column and PW effluent samples was also collected. Results confirmed that PAH metabolites in bile, CYP1A-, CYP2K-, and CYP2M-like proteins and liver histopathology provided evidence of significant exposure and effects after 10 days at the near-field site (~200 m off the Harriet A platform). Hepatosomatic index, total cytochrome P450, and ChE did not provide site-specific differences by day 10 of exposure to PW. CYP proteins were shown by principal component analysis (PCA) to be the best diagnostic tool for determining exposure and associated biological effects of PW on L. carponotatus. Using a suite of biomarkers has been widely advocated as a vital component in environmental risk assessments worldwide. This study demonstrates the usefulness of biomarkers for assessing the Harriet A PW discharge into Australian waters with broader applications for other PW discharges. This approach has merit as a valuable addition to environmental management strategies for protecting Australia’s tropical environment and its rich biodiversity.

Small within-day increases in temperature affects boldness and alters personality in coral reef fish

Consistent individual differences in behaviour, termed personality, are common in animal populations and can constrain their responses to ecological and environmental variation, such as temperature. Here, we show for the first time that normal within-daytime fluctuations in temperature of less than 3°C have large effects on personality for two species of juvenile coral reef fish in both observational and manipulative experiments. On average, individual scores on three personality traits (PTs), activity, boldness and aggressiveness, increased from 2.5- to sixfold as a function of temperature. However, whereas most individuals became more active, aggressive and bold across temperature contexts (were plastic), others did not; this changed the individual rank order across temperatures and thus altered personality. In addition, correlations between PTs were consistent across temperature contexts, e.g. fish that were active at a given temperature also tended to be both bold and aggressive. These results (i) highlight the importance of very carefully controlling for temperature when studying behavioural variation among and within individuals and (ii) suggest that individual differences in energy metabolism may contribute to animal personality, given that temperature has large direct effects on metabolic rates in ectotherms.

An intraspecific killing in adult Pacific reef egrets (Egretta sacra)

Intraspecific killing without cannibalism is rare in birds. I report an observation of an adult Pacific Reef Egret (Egretta sacra) killing an adult conspecific at One Tree Island, Great Barrier Reef, Australia. The motivation and context for the killing were not apparent. To the best of my knowledge, this is the first report of intraspecific killing in Pacific Reef Egrets.

Residency and spatial use by reef sharks of an isolated seamount and its implications for conservation

Although marine protected areas (MPAs) are a common conservation strategy, these areas are often designed with little prior knowledge of the spatial behaviour of the species they are designed to protect. Currently, the Coral Sea area and its seamounts (north-east Australia) are under review to determine if MPAs are warranted. The protection of sharks at these seamounts should be an integral component of conservation plans. Therefore, knowledge on the spatial ecology of sharks at the Coral Sea seamounts is essential for the appropriate implementation of management and conservation plans. Acoustic telemetry was used to determine residency, site fidelity and spatial use of three shark species at Osprey Reef: whitetip reef sharks Triaenodon obesus, grey reef sharks Carcharhinus amblyrhynchos and silvertip sharks Carcharhinus albimarginatus. Most individuals showed year round residency at Osprey Reef, although five of the 49 individuals tagged moved to the neighbouring Shark Reef (∼14 km away) and one grey reef shark completed a round trip of ∼250 km to the Great Barrier Reef. Additionally, individuals of white tip and grey reef sharks showed strong site fidelity to the areas they were tagged, and there was low spatial overlap between groups of sharks tagged at different locations. Spatial use at Osprey Reef by adult sharks is generally restricted to the north-west corner. The high residency and limited spatial use of Osprey Reef suggests that reef sharks would be highly vulnerable to targeted fishing pressure and that MPAs incorporating no-take of sharks would be effective in protecting reef shark populations at Osprey and Shark Reef.