Assessment of surface sediment dynamics and response of benthic macrofauna assemblages in Boughrara Lagoon (SW Mediterranean Sea)

A study was conducted in the spring of 2009, the winters of 2010 and 2013, and in the summer of 2012 at 13 stations in Boughrara Lagoon, Tunisia (southern Mediterranean). The country⿿s largest lagoon, it is considered to be an anthropogenically stressed area, though a major tourist centre⿿Djerba Island⿿is located along its northern shores. The lagoon bottoms were studied via analyses of grain size, surface sediment composition, total organic matter (TOM) and through the trophic and functional organisation of benthic macrofauna. The results indicate that the bottoms are composed of fine, medium or coarse sands and that sediment distribution is controlled by water movement. Estimation of TOM content revealed that the studied samples present both normal and imbalanced sediments. The structure and organisation of the lagoon⿿s benthic macrofauna are dominated by select deposit feeders and underwent significant changes during the period 2010⿿2013.Subjected for decades to increased pollution due to growing human activities in the surrounding area, Boughrara Lagoon now appears to be impacted by certain environmental/anthropogenic stressors, as indicated by the presence of pollution-tolerant bio-indicator species in the imbalanced area. The response of the lagoon ecosystem to changes in benthic sediment deposition provides a potential assessment tool for similar habitats elsewhere.     

Plant species variation in bottom‐up effects across three trophic levels: a test of traits and mechanisms

1. An increasing number of studies have addressed the mechanisms by which plant inter‐specific variation influence interactions at higher trophic levels, but little is known about the underlying plant traits driving these dynamics. 2. Here we investigated the effects of host plant species on herbivore‐parasitoid interactions and the underlying traits driving such effects. For this, we measured the abundance of seed‐eating bruchids and their parasitoids across seven sympatric populations of the bean species Phaseolus coccineus and Phaseolus vulgaris in Central Mexico. To investigate the mechanisms underlying differences between bean species in bruchid‐parasitoid interactions, we carried out two laboratory experiments to test whether bruchid and parasitoid performance differed between plant species. We also measured seed size and phenolic compounds to investigate if seed traits mediate bruchid‐parasitoid interactions by influencing herbivore susceptibility or resistance to parasitoids. 3. Field surveys revealed that the rate of parasitoid recruitment to bruchids was significantly higher on P. vulgaris than on P. coccineus. Subsequent laboratory bioassays indicated that bruchids developed more slowly and exhibited lower fitness on P. vulgaris seeds than on P. coccineus seeds. Accordingly, we found that bean species differed in seed size, with P. vulgaris having smaller (less nutritious) seeds, which explains why bruchid development was slower on this plant species. 4. These results provide a mechanism for why bruchids exhibited higher parasitism rates on seeds of P. vulgaris in the field which could be due to Slow‐Growth/High‐Mortality effects, a smaller physical refuge provided by the seed, or both factors. The roles of these mechanisms remain inconclusive without further study.     

Unbiased Estimation of Odds Ratio by Using Negative Binomial Plans

The use of the negative binomial distribution in both the numerator and denominator in prospective studies leads to an unbiased estimate of the odds ratio and an exact expression for its variance. Sample sizes that minimize the variance of odds ratio estimates are specified. The variance of the odds ratio estimate is shown to be close to the Cramér-Rao lower bound.     

Imputation of missing genotypes from low‐ to high‐density SNP panel in different population designs

Imputation of missing genotypes, in particular from low density to high density, is an important issue in genomic selection and genome‐wide association studies. Given the marker densities, the most important factors affecting imputation accuracy are the size of the reference population and the relationship between individuals in the reference (genotyped with high‐density panel) and study (genotyped with low‐density panel) populations. In this study, we investigated the imputation accuracies when the reference population (genotyped with Illumina BovineSNP50 SNP panel) contained sires, halfsibs, or both sires and halfsibs of the individuals in the study population (genotyped with Illumina BovineLD SNP panel) using three imputation programs (fimpute v2.2, findhap v2, and beagle v3.3.2). Two criteria, correlation between true and imputed genotypes and missing rate after imputation, were used to evaluate the performance of the three programs in different scenarios. Our results showed that fimpute performed the best in all cases, with correlations from 0.921 to 0.978 when imputing from sires to their daughters or between halfsibs. In general, the accuracies of imputing between halfsibs or from sires to their daughters were higher than were those imputing between non‐halfsibs or from sires to non‐daughters. Including both sires and halfsibs in the reference population did not improve the imputation performance in comparison with when only including halfsibs in the reference population for all the three programs.     

Sexual size dimorphism and selection in the wild in the waterstrider Aquarius remigis: Body size,components of body size and male mating success

Sexual size dimorphism is assumed to be adaptive and is expected to evolve in response to a difference in the net selection pressures on the sexes. Although a demonstration of sexual selection is neither necessary nor sufficient to explain the evolution of sexual size dimorphism, sexual selection is generally assumed to be a major evolutionary force. If contemporary sexual selection is important in the evolution and maintenance of sexual size dimorphism then we expect to see concordance between patterns of sexual selection and patterns of sexual dimorphism. We examined sexual selection in the wild, acting on male body size, and components of body size, in the waterstrider Aquarius remigis, as part of a long term study examining net selection pressures on the two sexes in this species. Selection was estimated on both a daily and annual basis. Since our measure of fitness (mating success) was behavioral, we estimated reliabilities to determine if males perform consistently. Reliabilities were measured as ? statistics and range from fair to perfect agreement with substantial agreement overall. We found significant univariate sexual selection favoring larger total length in the first year of our study but not in the second. Multivariate analysis of components of body size revealed that sexual selection for larger males was not acting directly on total length but on genital length. Sexual selection for larger male body size was opposed by direct selection favoring smaller midfemoral lengths. While males of this species are smaller than females, they have longer genital segments and wider forefemora. Patterns of contemporary sexual selection and sexual size dimorphism agree only for genital length. For total length, and all other components of body size examined, contemporary sexual selection was either nonsignificant or opposed the pattern of size dimporhism. Thus, while the net pressures of contemporary selection for the species may still act to maintain sexual size dimorphism, sexual selection alone does not.     

Uncertainty in the detection of disturbance spatial patterns in temperate forests

The use of individual-based models in the study of the spatial patterns of disturbances has opened new horizons in forest ecosystem research. However, no studies so far have addressed (i) the uncertainty in geostatistical modelling of the spatial relationships in dendrochronological data, (ii) the number of increment cores necessary to study disturbance spatial patterns, and (iii) the choice of an appropriate geostatistical model in relation to disturbance regime. In addressing these issues, we hope to contribute to advances in research methodology as well as to improve interpretations and generalizations from case studies.We used data from the beech-dominated Žofínský Prales forest reserve (Czech Republic), where we cored 3020 trees on 74 ha. Block bootstrap and geostatistics were applied to the data, which covered five decades with highly different disturbance histories. This allowed us to assess the general behavior of various mathematical models. Uncertainty in the spatial patterns and stability of the models was measured as the length of the 95% confidence interval (CI) of model parameters.According to Akaike Information Criterion (AIC), the spherical model fitted best at the range of ca. 20 m, while the exponential model was best at the range of ca. 60 m. However, the best fitting models were not always the most stable. The stability of models grew significantly with sample size. At <500 cores the spherical model was the most stable, while the Gaussian model was very unstable at <300 cores. The pure nugget model produced the most precise nugget estimate. The choice of model should thus be based on the expected spatial relations of the forest ecosystem under study. Sill was the most stable parameter, with an error of ±6–20% for ≥1110 core series. By contrast, practical range was the most sensitive, with an error of at least ±59%. The estimation of the spatial pattern of severe disturbances was more precise than that of fine-scale disturbances.The results suggest that with a sample size of 1000–1400 cores and a properly chosen model, one reaches a certain precision in estimation that does not increase significantly with growing sample size. It appears that in temperate old-growth forests controlled by fine-scale disturbances, it is necessary to have at least 500 cores to estimate sill, nugget and relative nugget, while to estimate practical range at least 1000 cores are needed. When choosing the best model, the stability of the model should be considered together with the value of AIC. Our results indicate the general limits of disturbance spatial pattern studies using dendrochronological and geostatistical methods, which can be only partially overcome by sample size or sampling design.     

Intra- and interspecific variation in trophic ecology of ‘predatory’ ants in the subfamily Ponerinae

1. The characterisation of energy flow through communities is a primary goal of ecology. Furthermore, predator–prey interactions can influence both species abundance and community composition. The ant subfamily Ponerinae includes many predatory species that range from generalist insectivores to highly specialised hunters that target a single prey type. Given their high diversity and ubiquity in tropical ecosystems, measuring intra- and interspecific variation in their trophic ecology is essential for understanding the role of ants as predators of insect communities. 2. The stable isotopic composition of nitrogen of 22 species from the ant subfamily Ponerinae was measured, relative to plants and other predatory and herbivorous insects at two Atlantic Forest sites in Argentina. The study tested the general assumption that ponerine ants are all predatory, and examined intra- and interspecific variation in trophic ecology relative to habitat, body size and cytochrome c oxidase subunit 1 sequences (DNA barcoding). 3. Stable isotope analysis revealed that most ponerines occupy high trophic levels (primary and secondary predators), but some species overlapped with known insect herbivores. Species residing at low trophic levels were primarily arboreal and may rely heavily on nectar or other plant-based resources in their diet. In addition, larger species tend to occupy lower trophic positions than smaller species. 4. Although some of the species were divided into two or more genetic clusters by DNA barcoding analysis, these clusters did not correspond to intraspecific variation in trophic position; therefore, colony dietary flexibility most probably explains species that inhabit more than one trophic level.