Katherine R. O'Brien

Unravelling complexity in seagrass systems for management: Australia as a microcosm

Environmental decision-making applies transdisciplinary knowledge to deliver optimal outcomes. Here we synthesise various aspects of seagrass ecology to aid environmental decision-making, management and policy. Managers often mediate conflicting values and opinions held by different stakeholders. Critical to this role is understanding the drivers for change, effects of management actions and societal benefits. We use the diversity of seagrass habitats in Australia to demonstrate that knowledge from numerous fields is required to understand seagrass condition and resilience. Managers are often time poor and need access to synthesised assessments, commonly referred to as narratives. However, there is no single narrative for management of seagrass habitats in Australia, due to the diversity of seagrass meadows and dominant pressures. To assist the manager, we developed a classification structure based on attributes of seagrass life history, habitat and meadow form. Seagrass communities are formed from species whose life history strategies can be described as colonising, opportunistic or persistent. They occupy habitats defined by the range and variability of their abiotic environment. This results in seagrass meadows that are either transitory or enduring. Transitory meadows may come and go and able to re-establish from complete loss through sexual reproduction. Enduring meadows may fluctuate in biomass but maintain a presence by resisting pressures across multiple scales. This contrast reflects the interaction between the spatial and temporal aspects of species life history and habitat variability. Most management and monitoring strategies in place today favour enduring seagrasses. We adopt a functional classification of seagrass habitats based on modes of resilience to inform management for all seagrass communities. These concepts have world-wide relevance as the Australian case-studies have many analogues throughout the world. Additionally, the approach used to classify primary scientific knowledge into synthesised categories to aid management has value for many other disciplines interfacing with environmental decision-making.

Global analysis of seagrass restoration: the importance of large-scale planting

In coastal and estuarine systems, foundation species like seagrasses, mangroves, saltmarshes or corals provide important ecosystem services. Seagrasses are globally declining and their reintroduction has been shown to restore ecosystem functions. However, seagrass restoration is often challenging, given the dynamic and stressful environment that seagrasses often grow in. From our world-wide meta-analysis of seagrass restoration trials (1786 trials), we describe general features and best practice for seagrass restoration. We confirm that removal of threats is important prior to replanting. Reduced water quality (mainly eutrophication), and construction activities led to poorer restoration success than, for instance, dredging, local direct impact and natural causes. Proximity to and recovery of donor beds were positively correlated with trial performance. Planting techniques can influence restoration success. The meta-analysis shows that both trial survival and seagrass population growth rate in trials that survived are positively affected by the number of plants or seeds initially transplanted. This relationship between restoration scale and restoration success was not related to trial characteristics of the initial restoration. The majority of the seagrass restoration trials have been very small, which may explain the low overall trial survival rate (i.e. estimated 37%). Successful regrowth of the foundation seagrass species appears to require crossing a minimum threshold of reintroduced individuals. Our study provides the first global field evidence for the requirement of a critical mass for recovery, which may also hold for other foundation species showing strong positive feedback to a dynamic environment.Synthesis and applications. For effective restoration of seagrass foundation species in its typically dynamic, stressful environment, introduction of large numbers is seen to be beneficial and probably serves two purposes. First, a large-scale planting increases trial survival - large numbers ensure the spread of risks, which is needed to overcome high natural variability. Secondly, a large-scale trial increases population growth rate by enhancing self-sustaining feedback, which is generally found in foundation species in stressful environments such as seagrass beds. Thus, by careful site selection and applying appropriate techniques, spreading of risks and enhancing self-sustaining feedback in concert increase success of seagrass restoration.

HIV-1 infection induces changes in expression of cellular splicing factors that regulate alternative viral splicing and virus production in macrophages

BackgroundMacrophages are important targets and long-lived reservoirs of HIV-1, which are not cleared of infection by currently available treatments. In the primary monocyte-derived macrophage model of infection, replication is initially productive followed by a decline in virion output over ensuing weeks, coincident with a decrease in the levels of the essential viral transactivator protein Tat. We investigated two possible mechanisms in macrophages for regulation of viral replication, which appears to be primarily regulated at the level of tat mRNA: 1) differential mRNA stability, used by cells and some viruses for the rapid regulation of gene expression and 2) control of HIV-1 alternative splicing, which is essential for optimal viral replication.ResultsFollowing termination of transcription at increasing times after infection in macrophages, we found that tat mRNA did indeed decay more rapidly than rev or nef mRNA, but with similar kinetics throughout infection. In addition, tat mRNA decayed at least as rapidly in peripheral blood lymphocytes. Expression of cellular splicing factors in uninfected and infected macrophage cultures from the same donor showed an inverse pattern over time between enhancing factors (members of the SR family of RNA binding proteins) and inhibitory factors (members of the hnRNP family). While levels of the SR protein SC35 were greatly up-regulated in the first week or two after infection, hnRNPs of the A/B and H groups were down-regulated. Around the peak of virus production in each culture, SC35 expression declined to levels in uninfected cells or lower, while the hnRNPs increased to control levels or above. We also found evidence for increased cytoplasmic expression of SC35 following long-term infection.ConclusionWhile no evidence of differential regulation of tat mRNA decay was found in macrophages following HIV-1 infection, changes in the balance of cellular splicing factors which regulate alternative viral pre-mRNA splicing were observed. These changes correlated with changes in Tat expression and virus production and could play an important role in viral persistence in macrophages. This mechanism could provide a novel target for control of infection in this critical cell type, which would be necessary for eventual eradication of the virus from infected individuals.

The fundamental role of ecological feedback mechanisms for the adaptive management of seagrass ecosystems - a review

Seagrass meadows are vital ecosystems in coastal zones worldwide, but are also under global threat. One of the major hurdles restricting the success of seagrass conservation and restoration is our limited understanding of ecological feedback mechanisms. In these ecosystems, multiple, self‐reinforcing feedbacks can undermine conservation efforts by masking environmental impacts until the decline is precipitous, or alternatively they can inhibit seagrass recovery in spite of restoration efforts. However, no clear framework yet exists for identifying or dealing with feedbacks to improve the management of seagrass ecosystems. Here we review the causes and consequences of multiple feedbacks between seagrass and biotic and/or abiotic processes. We demonstrate how feedbacks have the potential to impose or reinforce regimes of either seagrass dominance or unvegetated substrate, and how the strength and importance of these feedbacks vary across environmental gradients. Although a myriad of feedbacks have now been identified, the co‐occurrence and likely interaction among feedbacks has largely been overlooked to date due to difficulties in analysis and detection. Here we take a fundamental step forward by modelling the interactions among two distinct above‐ and belowground feedbacks to demonstrate that interacting feedbacks are likely to be important for ecosystem resilience. On this basis, we propose a five‐step adaptive management plan to address feedback dynamics for effective conservation and restoration strategies. The management plan provides guidance to aid in the identification and prioritisation of likely feedbacks in different seagrass ecosystems.

Selectively Reduced tat mRNA Heralds the Decline in Productive Human Immunodeficiency Virus Type 1 Infection in Monocyte-Derived Macrophages

ABSTRACT The transcription and splicing of human immunodeficiency virus type 1 (HIV-1) mRNA in primary blood monocyte-derived macrophages (MDM) and CD4+ peripheral blood lymphocytes (PBL) were compared to determine whether any differences might account for the slower noncytopathic infection of cells of the macrophage lineage. The expression of regulatory mRNAs during acute infection of MDM was delayed by about 12 h compared to that of PBL. In each cell type, an increase in spliced viral mRNAs slightly preceded virus production from the culture. Following the peak of productive infection, there was a proportional decrease in the expression of all regulatory mRNAs detected in PBL. In MDM, a dramatic additional decrease specifically in the tat mRNA species heralded a reduction in virus production. This decline in tat mRNA was reflected by a concomitant decrease in Tat activity in the cells and occurred with the same kinetics irrespective of the age of the cells when infected. Addition of exogenous Tat protein elicited a burst of virus production from persistently infected MDM, suggesting that the decrease in virus production from the cultures is a consequence of the reduction in tat mRNA levels. Our results show that modulation of HIV-1 mRNAs in macrophages during long-term infection, which is dependent on the period of infection rather than cell differentiation or maturation, results in a selective reduction of Tat protein levels at the commencement of a persistent, less productive phase of infection. Determination of the mechanism of this mRNA modulation may lead to novel targets for control of replication in these important viral reservoirs.

An ecological footprint for an early learning centre: identifying opportunities for early childhood sustainability education through interdisciplinary research

In this study, engineers and educators worked together to adapt and apply the ecological footprint (EF) methodology to an early learning centre in Brisbane, Australia. Results were analysed to determine how environmental impact can be reduced at the study site and more generally across early childhood settings. It was found that food, transport and energy consumption had the largest impact on the centre’s overall footprint. In transport and energy, early childhood centres can reduce their impact through infrastructure and cultural change, in association with changed curriculum strategies. Building design, the type of energy purchased and appliance usage can all be modified to reduce the energy footprint. The transport footprint can be reduced through more families using active and public transport, which can be encouraged by providing information, support and facilities and appropriate siting of new centres. Introducing the concept of ecological footprint in early childhood education may be an effective way to educate children, staff and parents on the links between the food they eat, land usage and environmental impact. This study responds directly to the call in this journal for research focused on early childhood education and for more to be made of interdisciplinary research opportunities.

Flow events drive patterns of phytoplankton distribution along a river-estuary-bay continuum

Freshwater flow events drive phytoplankton productivity in subtropical coastal river systems. However, few studies have the necessary temporal and spatial resolution to fully characterise the effect of events on the distribution of phytoplankton across the full river-estuary-bay continuum. The present study characterised the response of phytoplank- ton to high-flow events in an Australian subtropical system; and identified the primary drivers of this response. During high-flow events, the concentration of phytoplankton chlorophyll a (Chl a) initially declined in the estuary, a response primarily driven by the shortened water-residence time.In the bay, phytoplanktongrowth in the near-shore zone was light limited;however,nutrientsstimulatedphytoplanktongrowthontheseawardedgeoftheriverplume.Duringthepost-high- flow phase, the concentration of Chl a in the freshwater reaches peaked downstream, where catchment-derived nutrients accumulated. In the estuary, elevated nutrient loads stimulated phytoplankton growth upstream and downstream of the light-limited zone. In the bay, nitrogen availability declined, and Chl a declined with an increasing distance offshore. The phytoplankton response to events documented in the present study can be used to identify when and where phytoplankton in subtropical systems may be strongly influenced by changes in the magnitude of nutrient, sediment and freshwater loads associated with high-flow events which result from anthropogenic pressures within the catchment.

Model fit versus biological relevance: evaluating photosynthesis-temperature models for three tropical seagrass species

When several models can describe a biological process, the equation that best fits the data is typically considered the best. However, models are most useful when they also possess biologically-meaningful parameters. In particular, model parameters should be stable, physically interpretable, and transferable to other contexts, e.g. for direct indication of system state, or usage in other model types. As an example of implementing these recommended requirements for model parameters, we evaluated twelve published empirical models for temperature-dependent tropical seagrass photosynthesis, based on two criteria: (1) goodness of fit, and (2) how easily biologically-meaningful parameters can be obtained. All models were formulated in terms of parameters characterising the thermal optimum (Topt) for maximum photosynthetic rate (Pmax). These parameters indicate the upper thermal limits of seagrass photosynthetic capacity, and hence can be used to assess the vulnerability of seagrass to temperature change. Our study exemplifies an approach to model selection which optimises the usefulness of empirical models for both modellers and ecologists alike.

Primary production of lake phytoplankton, dominated by the cyanobacterium Cylindrospermopsis raciborskii, in response to irradiance and temperature

Abstract We present the first data on the interacting effect of temperature and light on primary production of the toxic cyanobacterium Cylindrospermopsis raciborskii in situ. C. raciborskii can be a dominant component of the phytoplankton community in tropical and subtropical lakes and reservoirs. We examined the interacting effects of a range of light (0, 2, 7, 17, 30, and 100% of ambient light) and temperature (20, 24, 28, and 32 °C) conditions, in terms of primary production rate and primary production irradiance model parameters, for a C. raciborskii-dominated phytoplankton community in a subtropical reservoir. Based on 13C-uptake experiments, phytoplankton preconditioned to temperatures between 24 and 26 °C had highest maximum primary production rates (2.25 ± 0.45 μg C μg Chl-a−1 h−1) at 28 °C and lowest at 32 °C (0.58 ± 0.13 μg C μg Chl-a−1 h−1). Temperature also had an effect on the response to light conditions. Phytoplankton preconditioned to a shallow euphotic depth (~2.3 m deep) had the lowest half saturation of primary production, Ik, at 28 °C and highest at 32 °C, while the highest temperature treatment also had the highest level of photoinhibition at 100% of ambient light. This suggests that the cyanobacterial community is adapted to a low light environment under optimal temperature conditions for primary productivity. These conditions are consistent with other studies showing that C. raciborskii is highly adapted to low light conditions. This work demonstrates the importance of considering temperature when comparing calibrated primary production parameters.

Optimum Temperatures for Net Primary Productivity of Three Tropical Seagrass Species

Rising sea water temperature will play a significant role in responses of the worlds seagrass meadows to climate change. In this study, we investigated seasonal and latitudinal variation (spanning more than 1,500 km) in seagrass productivity, and the optimum temperatures at which maximum photosynthesis and net productivity (for the leaf and the whole plant) occurs, for three seagrass species (Cymodocea serrulata, Halodule uninervis, and Zostera muelleri). To obtain whole plant net production, photosynthesis, and respiration rates of leaves and the root/rhizome complex were measured using oxygen-sensitive optodes in closed incubation chambers at temperatures ranging from 15 to 43°C. The temperature-dependence of photosynthesis and respiration was fitted to empirical models to obtain maximum metabolic rates and thermal optima. The thermal optimum (Topt) for gross photosynthesis of Z. muelleri, which is more commonly distributed in sub-tropical to temperate regions, was 31°C. The Topt for photosynthesis of the tropical species, H. uninervis and C. serrulata, was considerably higher (35°C on average). This suggests that seagrass species are adapted to water temperature within their distributional range; however, when comparing among latitudes and seasons, thermal optima within a species showed limited acclimation to ambient water temperature (Topt varied by 1°C in C. serrulata and 2°C in H. uninervis, and the variation did not follow changes in ambient water temperature). The Topt for gross photosynthesis were higher than Topt calculated from plant net productivity, which includes above- and below-ground respiration for Z. muelleri (24°C) and H. uninervis (33°C), but remained unchanged at 35°C in C. serrulata. Both estimated plant net productivity and Topt are sensitive to the proportion of below-ground biomass, highlighting the need for consideration of below- to above-ground biomass ratios when applying thermal optima to other meadows. The thermal optimum for plant net productivity was lower than ambient summer water temperature in Z. muelleri, indicating likely contemporary heat stress. In contrast, thermal optima of H. uninervis and C. serrulata exceeded ambient water temperature. This study found limited capacity to acclimate: thus the thermal optima can forewarn of both the present and future vulnerability to ocean warming during periods of elevated water temperature.