Analysis of coastal lagoon metabolism as a basis for management

This work was carried out in a shallow eutrophic coastal lagoon (St. André lagoon, SW Portugal) which is artificially opened to the sea each year in early spring. Macrophytes, mainly Ruppia cirrhosa, are keystone species in this ecosystem covering up to 60% of its total area with peak biomasses over 500 g DW m^–2. The main objectives were to study ecosystem metabolism, to evaluate the metabolic contribution to the community of the macrophyte stands and their influence in the development of thermal stratification and bottom oxygen depletion.The work combined an experimental and a modelling methodology. The experimental approach included open water, mesocosm and microcosm seasonal experiments. During these experiments several physical, chemical and biological parameters were monitored in the lagoon and in plastic enclosures (mesocosms) for periods of 24 hours. The microcosm experiments followed the light-dark bottle technique. The simultaneous use of these different methodologies allowed the analysis of the contribution of the planktonic and benthic compartments to the ecosystem's oxygen budget.The modelling work was based on the mathematical simulation of heat and gas exchanges in a vertically resolved water column, under different macrophyte densities. Several simulations were carried out, in order to investigate the importance of the macrophytes in the development of water column stratification and anoxia.The simulation results suggest that macrophytes may greatly influence thermocline and oxycline development. This influence is proportional to their biomass and canopy height. It is suggested that controlled macrophyte biomass removal of up to 25% of available biomass in summer, may be useful in preventing bottom anoxia without compromising benthic net primary production.     

Length–weight relationships for 24 fish species in a coastal lagoon of the Mexican South Pacific

Length–weight relationships were estimated for 24 species belonging to 16 families of fishes, representing a total of 15 312 measured fish, from the Carretas-Pereyra lagoon, Chiapas, Mexico. Significant length–weight relationships were found for all species. For 13 species, length–weight relationships are published for the first time.     

Combinatorial triple-selective labeling as a tool to assist membrane protein backbone resonance assignment

Obtaining NMR assignments for slowly tumbling molecules such as detergent-solubilized membrane proteins is often compromised by low sensitivity as well as spectral overlap. Both problems can be addressed by amino-acid specific isotope labeling in conjunction with ¹⁵N–¹H correlation experiments. In this work an extended combinatorial selective in vitro labeling scheme is proposed that seeks to reduce the number of samples required for assignment. Including three different species of amino acids in each sample, ¹⁵N, 1-¹³C, and fully ¹³C/¹⁵N labeled, permits identification of more amino acid types and sequential pairs than would be possible with previously published combinatorial methods. The new protocol involves recording of up to five 2D triple-resonance experiments to distinguish the various isotopomeric dipeptide species. The pattern of backbone NH cross peaks in this series of spectra adds a new dimension to the combinatorial grid, which otherwise mostly relies on comparison of [¹⁵N, ¹H]–HSQC and possibly 2D HN(CO) spectra of samples with different labeled amino acid compositions. Application to two α-helical membrane proteins shows that using no more than three samples information can be accumulated such that backbone assignments can be completed solely based on 3D HNCA/HN(CO)CA experiments. Alternatively, in the case of severe signal overlap in certain regions of the standard suite of triple-resonance spectra acquired on uniformly labeled protein, or missing signals due to a lack of efficiency of 3D experiments, the remaining gaps can be filled.     

DNA barcoding as a tool for coral reef conservation

DNA Barcoding (DBC) is a method for taxonomic identification of animals that is based entirely on the 5′ portion of the mitochondrial gene, cytochrome oxidase subunit I (COI-5). It can be especially useful for identification of larval forms or incomplete specimens lacking diagnostic morphological characters. DBC can also facilitate the discovery of species and in defining “molecular taxonomic units” in problematic groups. However, DBC is not a panacea for coral reef taxonomy. In two of the most ecologically important groups on coral reefs, the Anthozoa and Porifera, COI-5 sequences have diverged too little to be diagnostic for all species. Other problems for DBC include paraphyly in mitochondrial gene trees and lack of differentiation between hybrids and their maternal ancestors. DBC also depends on the availability of databases of COI-5 sequences, which are still in early stages of development. A global effort to barcode all fish species has demonstrated the importance of large-scale coordination and is yielding promising results. Whether or not COI-5 by itself is sufficient for species assignments has become a contentious question; it is generally advantageous to use sequences from multiple loci.     

Phytoplankton biomass and species composition in a Mediterranean coastal lagoon

Phytoplankton populations were investigated weekly at a central station in the Fusaro lagoon (Mediterranean Sea) from 27 November 1989 to 18 June 1990 to assess species composition, temporal succession and standing stock of the different species. Chlorophyll concentrations varied from 1.2 to 73.2 µg 1^–1 in surface waters, and from 1.3 to 53.5 µg 1^–1 at the 4.5 m depth. Phytoplankton communities were dominated by Prorocentrum micans Ehrenberg in December and January, and by small-sized diatoms in the rest of the sampling period. In surface waters, a maximum biomass of 9.5 mg C 1^–1 was measured in January, in correspondence with high concentrations (8.1 × 10⁶ cells 1^–1) of P. micans, whereas an abundance peak of 159.9 × 10⁶ cells 1^–1 was registered on the last sampling date due to a massive bloom of a very small diatom, Minutocellus polymorphus (Hargraves & Guillard) Hasle, von Stosch & Syvertsen. On the whole, phytoplankton populations of the Fusaro lagoon showed distinct characters as compared to those of southern Tyrrhenian coastal waters and of other lagoons.     

Phosphate and calcium carbonate saturation in a stratified coastal lagoon

Seasonal variation of phosphate concentration and saturation index for calcite in water of a small stratified coastal lagoon have been studied. In surface waters, where salinity was low and pH high, the saturation index increased to values near 20, whereas in bottom water, with high salinity and low pH, they were usually lower. The ionic product for H₃PO₄ was strongly correlated with the ionic product of Ca(OH)₂ in surface and bottom waters, and with the ionic product of CaCO₃ in bottom, which suggested that chemical composition was mainly controlled by a calcium-phosphate solid phase.The low concentrations of phosphate in surface were due to chemical precipitation and organic sedimentation, whereas in bottom, calcium phosphate redissolved and organic matter was mineralized producing high concentrations of soluble phosphate (> 60 µmol l^–1).Decrease of calcium-bound phosphate in the upper layers of sediment was in agreement with a diminution of calcium-phosphate precipitation, probably due to a lower influence of seawater in the past.     

Bayesian Belief Networks as a tool for evidence-based conservation management

Effective conservation management is dependent on accessing and integrating different forms of evidence regarding the potential impacts of management interventions. Here, we explore the application of Bayesian Belief Networks (BBN), which are graphical models that incorporate probabilistic relationships among variables of interest, to evidence-based conservation management. We consider four case studies, namely: (i) impacts of deer grazing on saltmarsh vegetation; (ii) impacts of burning on upland bog vegetation; (iii) control of the invasive exotic plant Rhododendron ponticum; and (iv) management of lowland heathland by burning. Each of these themes is currently a significant conservation issue in the UK, and yet the potential outcomes of management interventions are poorly understood. Through these examples, we demonstrate that BBNs can be used to integrate and explore evidence from a variety of sources, including expert opinion and quantitative results from research investigations. Incorporation of such information in BBNs enables different sources of evidence to be compared, the potential impacts of management interventions to be explored and management trade-offs to be identified. BBNs also offer a highly visual tool for communicating the uncertainty associated with potential management outcomes to conservation practitioners, and they can also be readily updated as new evidence becomes available. Based on these features, we suggest that BBNs have outstanding potential for supporting evidence-based approaches to conservation management.     

Genetic monitoring as a promising tool for conservation and management

In response to ever-increasing anthropogenic changes to natural ecosystems, regional, national and international organizations have established guidelines for monitoring biological diversity. Most monitoring programs, however, do not take full advantage of the potential afforded by molecular genetic markers, which can provide information relevant to both ecological and evolutionary time frames, while costing less and being more sensitive and reliable than traditional monitoring approaches. As several molecular and computational approaches are relatively new, many technical and theoretical issues remain to be resolved. Here, we illustrate how DNA and population genetic data can provide valuable information, often unattainable via other approaches, for monitoring species of management, conservation and ecological interest.     

Plant communities as a tool in temporary ponds conservation in SW Portugal

Temporary ponds are seasonal wetlands annually subjected to extreme and unstable ecological conditions, neither truly aquatic nor truly terrestrial. This habitat and its flora have been poorly studied and documented because of the ephemeral character of the flora, the changeable annual weather that has a great effect on the small, herbaceous taxa and the declining abundance of temporary ponds. The objectives of this study are: (a) to define plant community diversity in terms of floristic composition of ephemeral wetlands in SW Portugal, (b) to identify temporary pond types according to their vegetation composition and (c) to identify those ponds that configure the European community priority habitat (3170* – Mediterranean temporary ponds). Vegetation sampling was conducted in 29 ponds, identifying 168 species grouped among 15 plant communities. Soil texture, pH, organic C and N content were measured, but only N and percent of clay appear to be related with the distribution of each community type. The results showed that ephemeral wetlands could be classified into four type: vernal pools, marshlands, deep ponds and disturbed wetlands. Vernal pools correspond to the Mediterranean temporary ponds (3170*), protected as priority habitat under the EU Habitats Directive. Submersed Isoetes species (Isoetes setaceum and Isoetes velatum) represents, together with Eryngium corniculatum, the indicator species for vernal pools. We identify also indicator plant communities of this priority habitat, namely I. setaceum and E. corniculatum–Baldellia ranunculoides plant communities. In this region, the conservation of temporary ponds has so far been compatible with traditional agricultural activities, but today these ponds are endangered by the intensification of agriculture and the loss of traditional land use practices and by the development of tourism. Guest editors: B. Oertli, R. Cereghino, A. Hull & R. Miracle Pond Conservation: From Science to Practice. 3rd Conference of the European Pond Conservation Network, Valencia, Spain, 14–16 May 2008     

Zooplankton variability related to environmental changes in a eutrophic coastal lagoon in the Po Delta

Zooplankton variability in a lagoon of the Po Delta, the Sacca di Goro, was studied in relation to changes in its hydrodynamic and hydrological features. From 1987 to 1992 the lagoon was affected each summer by severe anoxia due to the decomposition of dense and widespread beds of Ulva rigida. In August 1992 a canal was opened through the sand bank closing off the lagoon from the sea in order to improve the water circulation. This hydraulic intervention led to significant environmental changes in the lagoon: during the two subsequent years the summer dystrophic crises were brief and less severe, due to a sharp decrease in the Ulva cover. At the same time a clear increase in phytoplankton biomass values was observed. Following the opening of the channel, the most remarkable change in zooplankton was a significant density increase of calanoids, particularly of Acartia tonsa.     

The ancient woodland concept as a practical conservation tool in Great Britain

In the 1980s the Nature Conservancy Council created an ancient woodland inventory showing all woods in Great Britain (GB) greater than 2 ha that were believed to have had woodland habitat cover continuously from 1600. Subsequently these lists have been maintained as three separate inventories by NCC's successors, English Nature (now Natural England), Countryside Council for Wales and Scottish Natural Heritage. This paper outlines the concept of ancient woodland as it has developed in GB, and how this idea gave rise to the ancient woodland inventories. The criteria used in compiling the inventories are discussed, including the inception dates and the threshold size, and the difference between ancient woodland and parkland. The inventories have been digitised for use with Geographic Information Systems (GIS), which has made them more accessible to planners and nature conservation bodies; however, the digitising process is more precise than the original definition of the boundaries of the ancient woodland. The three different countries have approached this issue slightly differently, taking account of the differing landscapes within which their ancient woodland exists. As the inventory developed, new legislation has also been brought into play to protect ancient woodland further. The inventory currently lacks detailed information concerning the condition or type of wood, beyond its semi-natural or plantation status. Ascertaining, and then maintaining, the condition of ancient woodland in Great Britain will be a major challenge for the future.     

Benthic community response to a passive fishing gear in a coastal lagoon (South Brazil)

The influence of a passive shrimp fishing gear on benthic communities was studied at Laguna Estuarine System (South Brazil), a shallow choked coastal lagoon. The gear is composed by a group of fyke nets (25 mm mesh size) set in contact to the bottom, fixed with stakes forming a cage-like structure (around 30 m²). Samplings were conducted in the two main fishery areas of the estuarine system, Mirim (sand bottoms) and Imaruí (muddy bottoms) lagoon, in May 2005. In each area, 10 fyke net enclosures and 10 nearby sites without nets (control) were sampled. Microphytobenthos biomass (chlorophyll a and phaeopigments), number of taxa/species, density, Hill’s number N ₁ and N ₂, and estimated number of species (ES₁₀₀) were used as community attributes. For the nematodes, values of the maturity index and abundance of Wieser’s feeding type were used as well. The effects of the small-scale passive shrimp fishing gear on the coastal lagoon bottoms were dependent on the benthic component analyzed and the type of sediment. Whereas macrofauna was not affected by the net enclosures, meiofauna and nematodes, particularly from the mud sites were. At the sand site, the fyke net enclosures caused a decrease in the microphytobenthos biomass and changed the relative abundances of non-selective deposit feeding and epigrowth-feeding nematodes. The results indicated that small-scale static nets, such as the studied fyke enclosures, produced low intensity levels of disturbance. However, the enclosed area by nets at Laguna had already reached around 25,000 m². Given the large proportion of the coastal population involved and the area closed by nets, management policies should consider site-specific differences within the same estuarine system.     

Land cover change and management implications for the conservation of a seabird in an urban coastal zone under climate change

Little Penguin (Eudyptula minor) is one of the most ecologically important seabirds in New Zealand and depends strongly on terrestrial ecosystems for nesting, moulting and breeding. Wellington, New Zealand, is one of the world's most important biodiversity hot spots for this species, mostly in confluence with human urban settlements. This species is currently suffering from the local impacts of climate change associated with urbanisation. Two suburbs of Wellington, New Zealand, that are used seasonally by Little Penguin as terrestrial habitat were selected as the study area to address two issues: (i) how local impacts of climate change may affect the population and habitat structure of species in urban coastal zones where land cover change occurs; and (ii) how landscape management practices may help to mitigate the impacts imposed by climate change on the species in such a context. Remote Sensing and Geographical Information Systems techniques were applied to quantify and measure the extent of the prehuman forests and current land cover classes in the study area to reveal the degree to which land cover has changed from predevelopment to the present time. The research shows that land cover change in the study area has been widespread and partly irreversible, particularly in areas covered by the class Built‐up Area. Results reveal that there are still spatial opportunities to safeguard this vulnerable species against the ill effects of climate change through landscape management practices.     

Distribution of picophytoplankton communities from brackish to hypersaline waters in a South Australian coastal lagoon

Background

Picophytoplankton (i.e. cyanobacteria and pico-eukaryotes) are abundant and ecologically critical components of the autotrophic communities in the pelagic realm. These micro-organisms colonized a variety of extreme environments including high salinity waters. However, the distribution of these organisms along strong salinity gradient has barely been investigated. The abundance and community structure of cyanobacteria and pico-eukaryotes were investigated along a natural continuous salinity gradient (1.8% to 15.5%) using flow cytometry.

Results

Highest picophytoplankton abundances were recorded under salinity conditions ranging between 8.0% and 11.0% (1.3 × 10⁶ to 1.4 × 10⁶ cells ml^-1). Two populations of picocyanobacteria (likely Synechococcus and Prochlorococcus) and 5 distinct populations of pico-eukaryotes were identified along the salinity gradient. The picophytoplankton cytometric-richness decreased with salinity and the most cytometrically diversified community (4 to 7 populations) was observed in the brackish-marine part of the lagoon (i.e. salinity below 3.5%). One population of pico-eukaryote dominated the community throughout the salinity gradient and was responsible for the bloom observed between 8.0% and 11.0%. Finally only this halotolerant population and Prochlorococcus-like picocyanobacteria were identified in hypersaline waters (i.e. above 14.0%). Salinity was identified as the main factor structuring the distribution of picophytoplankton along the lagoon. However, nutritive conditions, viral lysis and microzooplankton grazing are also suggested as potentially important players in controlling the abundance and diversity of picophytoplankton along the lagoon.

Conclusions

The complex patterns described here represent the first observation of picophytoplankton dynamics along a continuous gradient where salinity increases from 1.8% to 15.5%. This result provides new insight into the distribution of pico-autotrophic organisms along strong salinity gradients and allows for a better understanding of the overall pelagic functioning in saline systems which is critical for the management of these precious and climatically-stress ecosystems.     

Benthic response to ammonium pulses in a tropical lagoon: implications for coastal environmental processes

In New Caledonia, the benthic communities living in the coral reef lagoon around Noumea city are subjected to regular shifts from oligotrophic conditions typical of lagoon waters to nutrient enrichment due to waste water inputs. The influence of ammonium pulses on microphytobenthos production was experimentally tested under varying light intensities in the vicinity of Noumea. Benthic oxygen, ammonium and silicon fluxes at the sediment-water interface were measured in situ using benthic enclosures. Three ammonium concentrations were tested. Gross primary production was doubled with a 13.8 μmol l⁻¹ ammonium concentration increase. Fitted PI curves showed that maximum production (F_max) was linearly related to ammonium concentration, but not the optimal irradiance (I_k). Silicon fluxes were characterized by dissolution in the absence of light, a process that declined with increasing illumination. These results were attributed to microphytobenthos activity, mainly diatoms that are nutrient-limited and strongly reactive to ammonium inputs. Production may result from a multiplication of cells, but migration up to the water sediment interface may also be involved. Oxygen consumption was also significantly influenced by ammonium concentration as a positive linear relationship with added ammonium concentration was established. Even during short-term experiments, ammonium enrichment stimulated photoautotrophic production, increasing the energy available to heterotrophs. Furthermore, microbenthic activities as well as nitrate production were increased by ammonia-oxidizing bacteria able to grow chemolithotrophically at the expense of oxygen. Therefore, in the study area, pulses of urban waste waters resulted in a decrease of plant-related autotrophy in benthic communities.     

Presence of Gymnodinium catenatum (Dinophyceae) in a coastal Mediterranean lagoon

The occurrence and abundance of the toxic, chain-forming dinoflagellateGymnodinium catenatum in a Tyrrhenian coastal lagoon, the Fusaro,during an annual sampling cycle are reported. Peak abundanceswere observed from late spring until early autumn Although veryhigh cell numbers were recorded, up to 1 5 x 10⁶ cells l^–1,no monospecific bloom of this species occurred. The first observationof G.catenatum in the Mediterranean occurred in the Fusaro andthe appearance of this species in a traditional shellfish farmingarea, where no shellfish intoxication has been reported to date,is discussed in relation to human interventions in the basin.In particular, intensive dredging in recent years with resuspensionof bottom sediments may have seeded the water body with cysts.A Gymnodinium n d species, illustrated using scanning electronmicroscopy, caused a monospecific bloom in concomitance withmaximum abundances of G.catenatum, apparently outcompeting thislatter species     

Salinity and nutrients in a tropical coastal lagoon with groundwater discharges to the Gulf of Mexico

This study described the nutrient dynamics in a tropical coastal lagoon that is affected by the infiltration of cold nutrient-rich groundwater. The spatial and time variation of physicochemical characteristics (e.g., temperature, salinity, oxygen) and nutrients (e.g., nitrate, ammonium, soluble reactive silicate, soluble reactive phosphorus) are depicted and show changes with respect to weather conditions. The lagoon shows a permanent salinity gradient from the inner zone (14–19). Nitrate and soluble reactive silicate (SRSi) are inversely correlated with salinity. Soluble phosphorus (SRP) shows highest levels in the inner zone during winter months (>9 µM). Ammonium shows two high peaks, one in the rainy season (15 µM) and the other during winter (11 µM). The intensity and quality of rainfall influences the nitrate and SRSi inputs, while biological activity influences the SRP and ammonium levels.