Functional indicators of stream health: a river‐basin approach

1. The efficacy of leaf‐litter decomposition, sediment respiration, biofilm biomass, growth, chlorophyll a concentration and the autotrophic index (biofilm ash‐free dry mass/chlorophyll a) and fungal biomass for detecting human‐induced change was evaluated using 24 references and 15 disturbed stream sites located in central Portugal. 2. Decomposition rates of alder (Alnus glutinosa) and oak (Quercus robur) leaves and sediment respiration rates were effective in discriminating impairment. Decomposition was negatively correlated with abiotic factors, such as ammonium and nitrite concentrations, connectivity and alterations in the hydrological regime, and positively correlated with nitrate concentration and oxygen concentration. Sediment respiration rates were correlated with organic contamination, land use and morphological changes. 3. Growth rates of biofilm, concentration of chlorophyll a and the autotrophic index, although 41–73% higher at disturbed compared to reference sites, were not significantly different. These three variables were significantly correlated with total organic carbon, oxygen concentration, pH, nitrite and the presence of dams. Fungal biomass on leaves and biofilm biomass on natural substrata did not differ between reference and disturbed sites. 4. Our findings lend support to the use of functional variables like decomposition and sediment respiration in monitoring and when used together with structural variables should give a more holistic measure of stream health.     

Paleoenvironment of Ankilitelo Cave (late Holocene, southwestern Madagascar): implications for the extinction of giant lemurs

Following human arrival, Madagascar suffered well-documented megafaunal extinctions and widespread deforestation. Although humans are widely considered to be the primary cause of the extinctions, the relative contributions of climate change and human activities to this ecological transformation remain uncertain. Reconstructing the habitats of the giant lemurs of Madagascar can provide key information for understanding the evolutionary mechanisms involved in their extinction. In this study, I present a faunal analysis of the subfossil assemblage from Ankilitelo Cave, southwestern Madagascar. This assemblage documents the latest known occurrence of five species of extinct giant lemur, in association with abundant well-preserved small mammal remains. I compared the small mammal fauna at Ankilitelo with 27 extant Malagasy mammal communities spanning the range of Madagascar's habitat types. Similarities in species composition between modern communities and Ankilitelo were assessed using cluster analysis. Ecological similarities were examined by assigning each species to dietary, locomotor, activity pattern, and body size categories. Multiple discriminant analysis was then used to classify Ankilitelo relative to modern habitat types in Madagascar, based on the ecological structure of the subfossil fauna. Results indicate that the habitat surrounding Ankilitelo during the late Holocene was similar to the succulent woodlands of modern southwestern Madagascar. This suggests that approximately 500 yr BP, these semi-arid habitats supported a subfossil lemur community that included the highly-suspensory Palaeopropithecus, and deliberate slow-climber Megaladapis, as well as Archaeolemur, Pachylemur, and Daubentonia robusta. In such environments, these giant lemurs would likely have been highly vulnerable to increasing human pressure in southwestern Madagascar.     

Redox potential of the Rieske iron-sulfur protein: Quantum-chemical and electrostatic study

Quantum-chemical study of structures, energies, and effective partial charge distribution for several models of the Rieske protein redox center is performed in terms of the B3LYP density functional method in combination with the broken symmetry approach using three different atomic basis sets. The structure of the redox complex optimized in vacuum differs markedly from that inside the protein. This means that the protein matrix imposes some stress on the active site resulting in distortion of its structure. The redox potentials calculated for the real active site structure are in a substantially better agreement with the experiment than those calculated for the idealized structure. This shows an important role of the active site distortion in tuning its redox potential. The reference absolute electrode potential of the standard hydrogen electrode is used that accounts for the correction caused by the water surface potential. Electrostatic calculations are performed in the framework of the polarizable solute model. Two dielectric permittivities of the protein are employed: the optical permittivity for calculation of the intraprotein electric field, and the static permittivity for calculation of the dielectric response energy. Only this approach results in a reasonable agreement of the calculated and experimental redox potentials.     

A lead dependent ischemic episodes detection strategy using Hermite functions

In this work a new strategy for automatic detection of ischemic episodes is proposed. A new measure for ST deviation based on the time–frequency analysis of the ECG and the use of a reduced set of Hermite basis functions for T wave and QRS complex morphology characterization, are the key points of the proposed methodology.Usually, ischemia manifests itself in the ECG signal by ST segment deviation or by QRS complex and T wave changes in morphology. These effects might occur simultaneously. Time–frequency methods are especially adequate for the detection of small transient characteristics hidden in the ECG, such as ST segment alterations. A Wigner–Ville transform-based approach is proposed to estimate the ST shift. To characterize the alterations in the T wave and the QRS morphologies, each cardiac beat is described by expansions in Hermite functions. These demonstrated to be suitable to capture the most relevant morphologic characteristics of the signal. A lead dependent neural network classifier considers, as inputs, the ST segment deviation and the Hermite expansion coefficients. The ability of the proposed method in ischemia episodes detection is evaluated using the European Society of Cardiology ST–T database. A sensitivity of 96.7% and a positive predictivity of 96.2% reveal the capacity of the proposed strategy to perform ischemic episodes identification.     

Investigating species incidence over habitat fragments of different areas—a look at error estimation

The use of incidence functions and their error structure is explored as a means of interpreting patterns present in fragmented systems. Incidence functions describe the probability of a species' presence on a fragment. The only information required for an incidence function is presence/absence data for a number of fragments of known size. Methods are developed for establishing prediction bounds on the incidence function. The example developed uses data from mammals on isolated mountaintops. Distributions of number of species expected on a fragment predicted the actual number of species well, but prediction of identities of species on small fragments was poor. Although the number of species expected on an assembly of small fragments compared to a single large fragment of the same total area was nearly always equal, the identity of species differed. Species with large area requirements were never found on any number of small fragments; species which occurred with a medium probability over most fragments had a higher probability of being present in an assembly of small fragments than on a single large fragment.     

Response of nitrogen dynamics in semi-natural and agricultural grassland soils to experimental variation in tide and salinity

In the framework of rehabilitation efforts to enhance the ecological value of closed-off estuaries, we studied the effects of restoring a tidal movement and seawater incursion on soil nitrogen conversion rates and vegetation response of semi-natural and agricultural grasslands in an outdoor mesocosm experiment. Intact soil monoliths including vegetation were collected in June 2004 on two locations on the shores of the Haringvliet lagoon in the south-western part of the Netherlands, which used to be a well-developed estuary before closure in 1970. For more than 1 year, soil monoliths were continuously subjected to a full-factorial combination of tidal treatment [stagnant/tidal (0.20 m amplitude)] and water type [(freshwater, oligohaline (salinity = 3)]. Soil, soil moisture and water nitrogen concentrations were monitored for a year, as well as vegetation response and nitrogen conversion rates in the soil. As expected, nitrogen mineralization rates were enhanced by the tidal treatment in comparison with the stagnant treatment. Denitrification rates however, were much less affected by tide and were even lower in the tidal treatments after 3 months in the agricultural grassland soils, implying that in general, soils were more oxic in the tidal treatments. Oligohaline treatments had virtually no effect on soil nitrogen conversion rates compared to freshwater treatments. Vegetation performance, however, was lower under saline conditions, especially in the semi-natural grassland. No further significant differences in response to the tidal and oligohaline treatments were found between the two soils although they differed strongly in soil characteristics. We conclude that if the rehabilitation measures in the former Haringvliet estuary are carried out as planned, drastic changes in soil nitrogen processes and vegetation composition will not occur.     

Relationships between benthic macrofauna and biogeochemical properties of sediments at different spatial scales and among different habitats in mangrove forests

In muddy intertidal sediments, there are reported complex interactions between the biological, physical and chemical properties of the sediment and the benthos that live in and on it. These are expected to be reflected in strong relationships between benthic animals and particular properties of the sediment, although some research has shown these relationships to be relatively weak. This study investigates the relationships between benthic macrofauna and biogeochemical properties of sediments within and among different habitats in multiple mangrove forests in a temperate estuary, in order to address the generality of any such relationships. Matched samples of benthos and sediment were collected from three habitats, which differed with respect to shading, the amounts of algae and leaf litter and the presence of pneumatophores. The sediment was sampled for water content, grain size, organic matter, chlorophylls a and b and colloidal and total carbohydrate.Spatial variation in sediment and benthos were significantly correlated across habitats in two of the three bays, but the sediment properties that contributed to differences between habitats and those that best correlated with the benthos varied among bays. In all bays, the single taxon that best correlated with the sediment was spionid polychaetes, but correlations were generally weak. There was no generality in the patterns of variation among the benthos or sedimentary properties among habitats. The benthos differed significantly among bays in all habitats, with large variation within and among sites. The sediment varied significantly at small scales in all habitats, but significant differences among bays were only found in two habitats. All spatial scales contributed to the total amount of variability in the sediment and there was little predictability from the patterns shown in one habitat to those in other habitats, or from one component of sediment to other components. Such variability suggests that there may be structural redundancy in this fauna, with different components of the benthos contributing to similar functions in different places. Such variability must be considered in experiments designed to understand relationships between ecological structure and function in these complex habitats and in any sampling studies to identify environmental impacts in these habitats.