Subtle differences in growth rate drive contrasting responses of ephemeral primary producers to recurrent disturbances

Although the importance of time after disturbance is well established in the ecological literature, studies examining how differences in growth rate affect species recovery and persistence in relation to the interval between recurrent perturbations are rare. We examined the response of two ephemeral primary producers inhabiting high-shore rock pools, epilithic microphytobenthos (EMPB), and green filamentous algae, to disturbance regimes varying for the time interval between consecutive events. Informed from an empirically parametrized growth model's outcomes, we tested the hypothesis that EMPB would be able to recover from more frequent disturbance compared with filamentous algae in a field experiment involving three physical disturbance patterns differing for the clustering degree: high, moderate, and low (20, 40, and 80 days between disturbances). We predicted that: high clustering would prevent the recovery of both taxa; moderate clustering would prevent the recovery of the slower growing taxon only (filamentous algae); both taxa would recover under low clustering. Results showed that EMPB persisted independently of the clustering degree, whereas filamentous algae did not withstand any disturbance regime. Dramatically different effects of disturbance on organisms with subtle differences in their growth rate indicate that even stronger responses may be expected from taxa with more markedly contrasting life histories

Syntopic Cystoseira taxa support different molluscan assemblages in the Gulf of Naples (southern Tyrrhenian Sea)

Brown macroalgae belonging to the genus Cystoseira (Fucales: Sargassaceae) are canopy-forming organisms the recent decline of which at a basin and local scale has been widely documented, which urgently calls for research to fill knowledge gaps and support new and effective measures for protection. We, hereby, characterised the molluscan assemblages associated with three Cystoseira taxa (C. amentacea, C. compressa and C. crinita) from Ischia Island (Italy, Tyrrhenian Sea), and tested whether different congeneric taxa may syntopically support a different biota. In particular, these assemblages were compared among three Cystoseira species, between two times of sampling (June–July 2015 and June–July 2016), and among six sites in terms of multivariate structure (identity and relative abundances of constituting taxa combined, and presence–absence composition), as well as for synthetic measures of diversity, including the total richness of taxa, the exponential Shannon index, and the reciprocal Simpson index. In total, 24736 molluscan individuals were collected, overall belonging to 52 taxa. The majority of the identified species included micrograzers and filter feeders, which is in agreement with similar previous studies. The composition of associated molluscan assemblages, which was mainly represented by juvenile individuals, differed among the three Cystoseira species, suggesting that even congeneric taxa do not support an analogous benthic fauna. The present findings have shedded light on the molluscan biota associated with Cystoseira taxa in the Gulf of Naples and strengthened the importance of such habitat-forming macroalgae in structuring the local infralittoral invertebrate biodiversity and as a nursery for species-specific associated molluscs

The paradox of an unpolluted coastal site facing a chronically contaminated industrial area

Present and past industrial activities in coastal areas have left us a legacy of contamination and habitat degradation with potential implications for human health. Here, we investigated a coastal marine area enclosed in a Site of National Interest (SNI) of the central-western Adriatic (Mediterranean Sea), where priority actions of environmental remediation are required by governmental laws due the high environmental and human risk, and that is off-limits to any human activity since 2002. In particular, our investigation was focused on an area located in front of a chemical industry dismissed more than 3 decades ago. We report that the concentrations of heavy-metal and organic contaminants in the investigated sediments were generally lower than those expected to induce detrimental biological effects. Meiofaunal abundance, biomass and community structure changed among stations, but regardless of the distance from the abandoned industrial plant. Taxa richness within the SNI did not change significantly compared to the controls and the lack of some taxa in the SNI transects was not due to the contamination of the SNI area. The results of this study suggest a natural recovery of the marine area over 2 decades of restrictions on human activities, including fishing and shipping bans. If the hypothesis of the natural recovery of this SNI will be further confirmed by other studies, the plans forthe identification and monitoring of the most polluted areas in Italy should necessarily be redefined also in the light of the Water Framework, the Marine Strategy Framework and the Environmental Quality Standard Directives

Sea urchin chronicles. The effect of oxygen super-saturation and marine polluted sediments from Bagnoli-Coroglio Bay on different life stages of the sea urchin Paracentrotus lividus

In marinas and harbours, the accumulation of pollutants in sediments, combined with poor exchange of water with the open sea, poses a major environmental threat. The presence of photosynthetic organisms and the related oxygen production, however, may alleviate the negative effects of environmental contamination on heterotrophic organisms, enhancing their physiological defences. Furthermore, possible transgenerational buffer effects may increase the ability of natural populations to face environmental stress. Here we tested the occurrence of transgenerational effects on larvae of the sea urchin Paracentrotus lividus, whose parents were exposed, during the gametogenesis, to contaminated sediments subject to two temporal patterns of water re-suspension events and normal- (90%) vs. super-saturated (200%) levels of O2. The study site was Bagnoli-Coroglio (Gulf of Naples, southern Tyrrhenian Sea), a historically polluted brownfield and Site of National Interest for which environmental restoration options are currently under exploration. Larvae from different adult populations were significantly, although not linearly, affected by the interaction of all factors to which parents were exposed, at both 24h and 48h post fertilization. Specifically, the exposure of larvae to elutriates from contaminated sediments determined a developmental delay, a reduction in size and an increased percentage of abnormalities in all larval populations independently of their parental exposure. On the contrary, larvae from parents exposed to contaminated sediments, when reared in clean filtered sea water, succeeded in developing until the echinopluteus stage after 48h, with size and abundance comparable to those of larvae from control parents. Pre-exposure of parents to contaminated sediments did not successfully buffer the negative effects of elutriates on their offspring, and no positive effects of ‘super-saturated’ levels of O2 in response to contaminants were observed, suggesting that the Bagnoli-Coroglio area is currently not suitable for the re-stocking or re-introduction of this species

Neutrality and the Response of Rare Species to Environmental Variance

Neutral models and differential responses of species to environmental heterogeneity offer complementary explanations of species abundance distribution and dynamics. Under what circumstances one model prevails over the other is still a matter of debate. We show that the decay of similarity over time in rocky seashore assemblages of algae and invertebrates sampled over a period of 16 years was consistent with the predictions of a stochastic model of ecological drift at time scales larger than 2 years, but not at time scales between 3 and 24 months when similarity was quantified with an index that reflected changes in abundance of rare species. A field experiment was performed to examine whether assemblages responded neutrally or non-neutrally to changes in temporal variance of disturbance. The experimental results did not reject neutrality, but identified a positive effect of intermediate levels of environmental heterogeneity on the abundance of rare species. This effect translated into a marked decrease in the characteristic time scale of species turnover, highlighting the role of rare species in driving assemblage dynamics in fluctuating environments

Marine reserves: Fish life history and ecological traits matter

Copyright by the Ecological Society of AmericaMarine reserves are assumed to protect a wide range of species from deleterious effects stemming from exploitation. However, some species, due to their ecological characteristics, may not respond positively to protection. Very little is known about the effects of life history and ecological traits (e.g., mobility, growth, and habitat) on responses of fish species to marine reserves. Using 40 data sets from 12 European marine reserves, we show that there is significant variation in the response of different species of fish to protection and that this heterogeneity can be explained, in part, by differences in their traits. Densities of targeted size-classes of commercial species were greater in protected than unprotected areas. This effect of protection increased as the maximum body size of the targeted species increased, and it was greater for species that were not obligate schoolers. However, contrary to previous theoretical findings, even mobile species with wide home ranges benefited from protection: the effect of protection was at least as strong for mobile species as it was for sedentary ones. Noncommercial bycatch and unexploited species rarely responded to protection, and when they did (in the case of unexploited bentho-pelagic species), they exhibited the opposite response: their densities were lower inside reserves. The use of marine reserves for marine conservation and fisheries management implies that they should ensure protection for a wide range of species with different life-history and ecological traits. Our results suggest this is not the case, and instead that effects vary with economic value, body size, habitat, depth range, and schooling behavior.S

Learning biophysically-motivated parameters for alpha helix prediction

<p>Abstract</p> <p>Background</p> <p>Our goal is to develop a state-of-the-art protein secondary structure predictor, with an intuitive and biophysically-motivated energy model. We treat structure prediction as an optimization problem, using parameterizable cost functions representing biological "pseudo-energies". Machine learning methods are applied to estimate the values of the parameters to correctly predict known protein structures.</p> <p>Results</p> <p>Focusing on the prediction of alpha helices in proteins, we show that a model with 302 parameters can achieve a Q_{<it>α </it>}value of 77.6% and an SOV_{<it>α </it>}value of 73.4%. Such performance numbers are among the best for techniques that do not rely on external databases (such as multiple sequence alignments). Further, it is easier to extract biological significance from a model with so few parameters.</p> <p>Conclusion</p> <p>The method presented shows promise for the prediction of protein secondary structure. Biophysically-motivated elementary free-energies can be learned using SVM techniques to construct an energy cost function whose predictive performance rivals state-of-the-art. This method is general and can be extended beyond the all-alpha case described here.</p