Quantifying fluid and bed dynamics for characterizing benthic physical habitat in large rivers

Sturgeon use benthic habitats in and adjacent to main channels where environmental conditions can include bedload sediment transport and high near‐bed flow velocities. Bed velocity measurements obtained with acoustic Doppler instruments provide a means to assess the concentration and velocity of sediment moving near the streambed, and are thus indicative of the bedload sediment transport rate, the near‐bed flow velocity, and the stability of the substrate. Acoustic assessments of benthic conditions in the Missouri River were conducted at scales ranging from the stream reach to individual bedforms. Reach‐scale results show that spatially‐averaged bed velocities in excess of 0.5 m s⁻¹ frequently occur in the navigation channel. At the local scale, bed velocities are highest near bedform crests, and lowest in the troughs. Low‐velocity zones can persist in areas with extremely high mean bed velocities. Use of these low‐velocity zones may allow sturgeon to make use of portions of the channel where the average conditions near the bed are severe. To obtain bed velocity measurements of the highest possible quality, it is necessary to extract bottom‐track and GPS velocity information from the raw ADCP data files on a ping‐by‐ping basis. However, bed velocity measured from a point can also be estimated using a simplified method that is more easily implemented in the context of routine monitoring. The method requires only the transect distance and direction data displayed in standard ADCP data‐logging software. Bed velocity estimates obtained using this method are usually within 5–10% of estimates obtained from ping‐by‐ping processing.     

Temporally explicit habitat ecology and the coexistence of species

Habitats may have dynamics that exist independently of the population densities of species occupying the habitat. For example, ephemeral habitat patches may disappear regardless of whether a particular species is present or not. Such habitat dynamics are frequently modelled by ignoring age-related variation in patch turnover rates. This can be thought of as a temporally implicit approach. An alternative, temporally explicit approach involves using age-structured models in order to describe variations in habitat dynamics. Simple models of coexistence between competing species show that temporally implicit models may be misleading where there is age-related variation in patch dynamics. Changing the shape of the patch survivorship function but not the average patch survivorship can result in mutual extinction, monocultures or coexistence of an inferior and a superior competitor. An explicit treatment of habitat demography may therefore offer improved predictive models and alternative landscape management strategies.     

Efficiency and uncertainties in micro- and mesoscale habitat modelling in large rivers

Habitat modelling has become an increasingly important tool in river sciences to evaluate impacts on running waters and to predict the effects of river restoration in the context of the European Water Framework Directive which aims to reach a good ecological status by 2015. In a scaling framework like the River Scaling Concept, micro- and mesoscale habitat modelling hierarchically integrate point-/local-scale abiotic processes like grain sorting, initiation of sediment transport, bedform development and braiding with biological processes like spawning, daily and seasonal movements, feeding and shifting to refuge habitats. The paper, along with application results, shows that micro- and mesoscale habitat models are complementary especially for large river systems. Overall possibilities, restrictions and future development are discussed. Both rely on dynamic abiotic modelling as a basis as well as on biological data. In future, especially for large rivers, habitat modelling should be addressed on both scales (micro-/meso-) with the main focus on site-specific efficiencies (e.g. minimum efforts) and uncertainties (e.g. transferring suitability indices).     

Abundance of lamprey larvae and physical habitat

Synopsis Southern brook lamprey larvae,Ichthyomyzon gagei, were collected from four creeks in Alabama and Mississippi. Larvae abundance (number m^–2) and length (mm) were measured over a range of sites to quantify some of the physical parameters involved in larval habitat selection. Particle size distribution, hydraulic conductivity, porosity and organic content were the factors analyzed. Abundance of larvae was greatest when particles smaller than 0.15 mm and 1.–2.0 mm in diameter represented at least 40% and 8% dry weight of the substrate, respectively. Abundance of larvae was lowest when the small particles represented less than 10% dry weight of the substrate. A strong inverse relationship was observed between density and length of larvae. All other parameters did not significantly affect lamprey habitat selection. Results of this study may be applicable in directing attempts at aquatic habitat restoration for lamprey in endangered streams.     

A comparison of habitat diversity and interannual habitat dynamics in actively and passively restored mountain rivers of Germany

We compared habitat diversity and morphodynamics of ‘actively’ restored reaches (including removal of bank fixation, widening and large wood placement) with ‘passively’ restored reaches (abandonment of channel maintenance) and adjacent non-restored control reaches in medium-sized Central European mountain rivers. Habitat diversity and river morphology were mapped in two consecutive years and changes in habitat composition (channel features, substrates) and morphological changes (active depth and width) were quantified. In both years, habitat diversity was generally higher in the restored reaches compared to their non-restored counterparts, and significantly differed between restoration approaches, with average values in actively restored reaches being about 60% larger than in passively restored reaches. Channel feature composition differed significantly, both between restored and unrestored reaches, and between restoration approaches, whereas substrate composition was similar in all investigated reaches, indicating that restoration had a higher effect on mesohabitat than on microhabitat conditions. Interannual habitat dynamics in respect to channel feature composition were larger in the actively restored compared to the passively restored reaches, while substrate composition remained fairly constant in all reaches. Regarding morphodynamics, changes in depth and width of actively restored reaches differed significantly from changes in passively restored ones in three of the four elements compared. Our findings imply increased habitat richness, diversity and habitat dynamics in the restored reaches, especially in actively restored ones. Analysis of discharge data suggests that flood events exceeding critical shear stress of the bed material, and the time span since restoration determine the potential for morphological changes.     

The visual ecology of Puerto Rican anoline lizards: habitat light and spectral sensitivity

The visual ecology of six closely related species of Puerto Rican anoline lizards was investigated and they were found to occupy four distinct habitat types in terms of light conditions: “full shade”, “partial shade”, “no shade”, and “forest canopy.”The habitats differed substantially in total radiance and irradiance as well as in the shape of the irradiance spectrum. The shape of the radiance spectrum was similar in all of the habitats. We used electroretinogram (ERG) flicker photometry to measure spectral sensitivity and found the curves for all six species to be similar. The spectral sensitivity peaked in the range 550–560 nm, which matched the peak in spectral radiance for all of the habitats. The shape of the spectral-sensitivity curve was similar to those of a number of other terrestrial vertebrates. We suggest that the convergence of the shape of the photopic ERG-determined spectral-sensitivity curve in many terrestrial vertebrates may, in part, be due to the fact that the background radiance of many terrestrial habitats is dominated by the reflectance spectrum of green vegetation which peaks at 550 nm. Accepted: 14 May 1997     

Synthesis of habitat restoration impacts on young-of-the-year salmonids in boreal rivers

Reviews in Fish Biology and Fisheries - River restoration offers the potential to enhance biological integrity, often measured as fish population changes. We used a meta-analytical approach to...     

Losses of seeds of temperate trees to soil fungi: effectsof habitat and host ecology

Evidence suggests that impacts of fungal pathogens on tree recruitment tend to be greater in the forest understory than in openings, and that shade-tolerant trees are less vulnerable than shade-intolerant species. To investigate the role that harmful soil fungi may have in reducing regeneration of temperate trees, we applied fungicide to buried seeds of matched pairs of species differing in their relative shade tolerance and/or successional status (Acer negundo versus Acer saccharum, Prunus virginiana versus Prunus serotina, and Pinus strobus versus Tsuga canadensis), in three habitats that differed in their degree of openness (old field, forest gap, and forest understory). Our results indicated that soil fungi reduced germination of A. negundo, P. virginiana, P. serotina. and T. canadensis, and reduced viability of ungerminated seeds of P. strobus; no significant effects of fungi on seeds of A. saccharum were detected. However, we found seeds were not less likely to survive following burial in forest understory than in gaps. As well, results for only one species pair (A. negundo versus A. saccharum) were consistent with the prediction that shade-intolerant or successional species should be more susceptible to fungal attack than mature forest species. These results contrast with other studies of temperate and especially tropical forest trees.     

The ecology of European ponds: defining the characteristics of a neglected freshwater habitat

There is growing awareness in Europe of the importance of ponds, and increasing understanding of the contribution they make to aquatic biodiversity and catchment functions. Collectively, they support considerably more species, and specifically more scarce species, than other freshwater waterbody types. Ponds create links (or stepping stones) between existing aquatic habitats, but also provide ecosystem services such as nutrient interception, hydrological regulation, etc. In addition, ponds are powerful model systems for studies in ecology, evolutionary biology and conservation biology, and can be used as sentinel systems in the monitoring of global change. Ponds have begun to receive greater protection, particularly in the Mediterranean regions of Europe, as a result of the identification of Mediterranean temporary ponds as a priority in the EU Habitats Directive. Despite this, they remain excluded from the provisions of the Water Framework Directive, even though this is intended to ensure the good status of all waters. There is now a need to strengthen, develop and coordinate existing initiatives, and to build a common framework in order to establish a sound scientific and practical basis for pond conservation in Europe. The articles presented in this issue are intended to explore scientific problems to be solved in order to increase the understanding and the protection of ponds, to highlight those aspects of pond ecology that are relevant to freshwater science, and to bring out research areas which are likely to prove fruitful for further investigation. Guest editors: R. Céréghino, J. Biggs, B. Oertli and S. Declerck The ecology of European ponds: defining the characteristics of a neglected freshwater habitat     

The physical base of marine bacterial ecology

Specific affinity theory is compared with traditional ways of understanding the nutrient concentration dependency of microbial growth. It is demonstrated that the Michaelis constant increases with the ratio of metabolic enzyme to membrane permease content of bacteria so that small values can reflect specialization for nutrient collection. When compared to the specific affinity, K_t gives a measure of oligotrophic capacity. Specific affinity, on the other hand, reflects nutrient collection ability directly, and increases with the number of permeases. It can be estimated, along with the other kinetic constant, V_max, by use of isotopes in natural samples. Because of systematic errors in estimating V_max, specific affinity is the preferred measure of substrate accumulation ability. The advantage of simultaneous collection of multiple substrates in dilute solution is demonstrated. The structural basis of this advantage is computed from collision frequency and recollision probability, computations that further show that multisubstrate usage is essential for bacterial growth under low-nutrient conditions. Computed growth rates from specific affinities require that several substrates be used simultaneously for growth at measured concentrations. Formulations anticipate that the surface of oligobacteria should be occupied by a diversity of transporter types, that each type of transporter should occupy only a small portion of the cell surface, and the number of cytoplasmic enzymes can be small, allowing small cell size to give a large surface-to-volume ratio for high specific affinity. The large number of substrate types that may be accumulated by a single oligobacterial species is consistent with extensive species diversity.     

Water and habitat quality assessment in the Honi and Naro Moru rivers,Kenya, using benthic macroinvertebrate assemblages and qualitative habitat scores

An assessment of water and habitat quality, based on macroinvertebrate assemblage indices and qualitative habitat scores (QHS), was undertaken in the Honi and Naro Moru rivers, Kenya, in 2011. The two rivers are important as water sources for the local communities and as habitat for organisms such as invertebrates in the national parks there. The Naro Moru upstream site (QHS: 83%) is unmodified, with minimal human influence. The Honi downstream site and the Naro Moru midstream and downstream sites experienced moderate to large modifications in habitat and biota (QHS: 40–80%). South African scoring system (SASS) scores ranged from 43 (Naro Moru downstream) to 165 (Honi upstream), and there was a decrease in SASS scores with distance downstream. Based on the multimetric index (MI), the Honi and Naro Moru upstream and midstream sites have good water quality (MI: 0.6–0.8), whereas the Honi midstream and downstream sites, and the Naro Moru downstream site, have moderate water quality (MI: 0.4–0.6). Human activities had a negative effect on water quality and habitats. Preventive and conservation measures should be taken in the usage of the Naro Moru and Honi rivers.     

Historical ecology with real numbers: past and present extent and biomass of an imperilled estuarine habitat

Historic baselines are important in developing our understanding of ecosystems in the face of rapid global change. While a number of studies have sought to determine changes in extent of exploited habitats over historic timescales, few have quantified such changes prior to late twentieth century baselines. Here, we present, to our knowledge, the first ever large-scale quantitative assessment of the extent and biomass of marine habitat-forming species over a 100-year time frame. We examined records of wild native oyster abundance in the United States from a historic, yet already exploited, baseline between 1878 and 1935 (predominantly 1885-1915), and a current baseline between 1968 and 2010 (predominantly 2000-2010). We quantified the extent of oyster grounds in 39 estuaries historically and 51 estuaries from recent times. Data from 24 estuaries allowed comparison of historic to present extent and biomass. We found evidence for a 64 per cent decline in the spatial extent of oyster habitat and an 88 per cent decline in oyster biomass over time. The difference between these two numbers illustrates that current areal extent measures may be masking significant loss of habitat through degradation.     

Explicit links among physical stress, habitat heterogeneity and biodiversity

We tested the links among biodiversity, habitat heterogeneity and physical stress in a system of artificial rock pools on the north coast of Jamaica that mimic natural aquatic invertebrate communities. The experimental design consisted of three tiers of small plastic pools arranged at increasing distances from the shore. As a result of community development over six months (January to June 1997), we observed considerable differentiation of physical conditions among replicate habitats at the benign end of the physical gradient, with a concurrent increase in biodiversity (species richness per habitat unit). The most probable explanation for this observed gradient is self-generated habitat heterogeneity that, in turn, promotes biodiversity, likely through species interactions. Using additional analyses, including randomization techniques, we excluded the effects of sample size and external factors as sources for the observed increase in biodiversity in the third tier (furthest from the sea). We interpret this result as evidence for the complex causal relationship among physical stress, habitat heterogeneity and biodiversity.     

Distribution and ecology of freshwater red algae (Rhodophyta) in some central Finnish rivers

Macroscopic red algae were sampled simultaneously with diatom sampling from 60 locations in central Finnish rivers and at some rivers in south coast rivers in the summers 1986, 1993 and 1994. In those samples 17 red algal taxa from 5 genera ( Audouinella (3). Batrachospermum (7). Lemanea (4), Sirodotia (2) and Tuomeya (1)) were identified. Some of these taxa were new to Finland and two were new for Europe.