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An increasing number of studies use next generation sequencing (NGS) to analyze complex communities, but is the method sensitive enough when it comes to identification and quantification of species? We compared NGS with morphology-based identification methods in an analysis of microalgal (periphyton) communities. We conducted a mesocosm experiment in which we allowed two benthic grazer species to feed upon benthic biofilms, which resulted in altered periphyton communities. Morphology-based identification and 454 (Roche) pyrosequencing of the V4 region in the small ribosomal unit (18S) rDNA gene were used to investigate the community change caused by grazing. Both the NGS-based data and the morphology-based method detected a marked shift in the biofilm composition, though the two methods varied strongly in their abilities to detect and quantify specific taxa, and neither method was able to detect all species in the biofilms. For quantitative analysis, we therefore recommend using both metabarcoding and microscopic identification when assessing the community composition of eukaryotic microorganisms.

Essential polyunsaturated fatty acids (PUFAs) have been recognized as a crucial factor that determines the trophic transfer efficiency in plankton communities. As many animals cannot synthesize the classes of ω3- and ω6-PUFAs, the dietary availability of these PUFAs can constrain the fitness of freshwater zooplankton such as Daphnia spp. In particular, eicosapentaenoic acid (EPA, 20:5ω3) is considered to be a crucial determinant of the transfer of biomass at the freshwater plant-herbivore interface. In contrast to ω3-PUFAs, the group of ω6-PUFAs has previously been considered to be of less ecological relevance, although the potential role of the ω6-PUFA arachidonic acid (ARA, 20:4ω6) remains controversial. To investigate its potential role, we conducted dose-response growth experiments with two Daphnia species, D. pulex and D. magna, supplemented with EPA or ARA, which allowed us to calculate EPA and ARA saturation thresholds for growth and reproduction of both Daphnia species. Our results provide evidence that not only the availability of ω3-PUFAs, but also the availability of a ω6-PUFA, namely ARA, can limit both the growth and reproduction of Daphnia spp. to an equal extent. The saturation thresholds for growth and reproduction were consistently, but not significantly, higher for EPA than for ARA in both Daphnia species. As shifts in phytoplankton community composition might result in environmental fluctuations in the dietary availability of ω3- and ω6-PUFAs, our findings present a significant step in understanding the consequences of the ongoing global biodiversity loss for trophic transfer efficiency at the phytoplankton-zooplankton interface.

Algal biofilms in streams are simultaneously controlled by light and nutrient availability (bottom-up control) and by grazing activity (top-down control). In addition to promoting algal growth, light and nutrients also determine the nutritional quality of algae for grazers. While short-term experiments have shown that grazers increase consumption rates of nutrient-poor algae due to compensatory feeding, nutrient limitation in the long run can constrain grazer growth and hence limit the strength of grazing activity. In this study, we tested the effects of light and phosphorus availability on grazer growth and thus on the long-term control of algal biomass. At the end of the experiment, algal biomass was significantly affected by light, phosphorus and grazing, but the interactive effects of the three factors significantly changed over time. At both high light and phosphorus supply, grazing did not initially reduce algal biomass, but the effect of grazing became stronger in the final three weeks of the experiment. Snail growth was enhanced by light, rather than phosphorus, suggesting that algal quantity rather than quality was the main limiting factor for grazer growth. Our results highlight the role of feedback effects and the importance of long-term experiments in the study of foodweb interactions.

By 2100, global warming is predicted to significantly reduce the capacity of marine primary producers for long-chain polyunsaturated fatty acid (LC-PUFA) synthesis. Primary consumers such as harpacticoid copepods (Crustacea) might mitigate the resulting adverse effects on the food web by increased LC-PUFA bioconversion. Here, we present a high-quality de novo transcriptome assembly of the copepod Platychelipus littoralis , exposed to changes in both temperature (+3°C) and dietary LC-PUFA availability. Using this transcriptome, we detected multiple transcripts putatively coding for LC-PUFA-bioconverting front-end fatty acid (FA) desaturases and elongases, and performed phylogenetic analyses to identify their relationship with sequences of other (crustacean) taxa. While temperature affected the absolute FA concentrations in copepods, LC-PUFA levels remained unaltered even when copepods were fed an LC-PUFA-deficient diet. While this suggests plasticity of LC-PUFA bioconversion within P. littoralis , none of the putative front-end desaturase or elongase transcripts was differentially expressed under the applied treatments. Nevertheless, the transcriptome presented here provides a sound basis for future ecophysiological research on harpacticoid copepods. This article is part of the theme issue ‘The next horizons for lipids as ‘trophic biomarkers’: evidence and significance of consumer modification of dietary fatty acids'.

The balanced-diet hypothesis states that a diverse prey community is beneficial to consumers due to resource complementarity among the prey species. Nonselective consumer species cannot differentiate between prey items and are therefore not able to actively regulate their diet intake. We thus wanted to test whether the balanced-diet hypothesis is applicable to nonselective consumers. We conducted a laboratory experiment in which a nonselective model grazer, the freshwater gastropod Lymnaea stagnalis, was fed benthic green algae as single species or as a multi-species mixture and quantified the snails' somatic growth rates and shell lengths over a seven-week period. Gastropods fed the mixed diet were found to exhibit a higher somatic growth rate than the average of the snails fed single prey species. However, growth on the multi-species mixture did not exceed the growth rate obtained on the best single prey species. Similar results were obtained regarding the animals' shell height increase over time. The mixed diet did not provide the highest growth rate, which confirms our hypothesis. We thus suggest that the balanced-diet hypothesis is less relevant for non-selective generalist consumers, which needs to be considered in estimates of secondary production.

Nitrogen (N) and phosphorus (P) are considered to be essential nutrients that control secondary production in various ecosystems; insufficient availability of N and P can limit herbivore growth. Here, data are presented from field samplings and from a laboratory experiment on the potential of primary producers low in P, N, or P and N to constrain growth of the freshwater gastropod Radix ovata. The filamentous green alga Ulothrix fimbriata was cultured under different nutrient regimes, resulting in algae with different C:N:P ratios. The pure algae were fed in high and low quantities to juvenile R. ovata. Low availability of N and especially P in the algae strongly constrained the biomass accrual of the herbivore. In accordance with theoretical predictions, these food quality differences were highly dependent on the food quantity. The snails' growth rate was significantly related to their body C: P ratio, thereby supporting the growth rate hypothesis. R. ovata displayed a pronounced compensatory feeding response to lownutrient food that could partly dampen but not fully compensate the food quality effects on snail growth. Increased feeding of gastropods at low P and/or N availability leads to depletion of periphyton biomass; hence compensatory feeding would shift the benthic herbivore community from a P or N limitation to a C limitation and thus have whole-ecosystem effects.

“Infochemicals” (information-conveying chemicals) dominate much of the underwater communication in biological systems. They influence the movement and behavior of organisms, the ecological interactions between and across populations, and the trophic structure of marine food webs. However, relative to their terrestrial equivalents, the wider ecological and economic importance of marine infochemicals remains understudied and a concerted, cross-disciplinary effort is needed to reveal the full potential of marine chemical ecology. We highlight current challenges with specific examples and suggest how research on the chemical ecology of marine organisms could provide opportunities for implementing new management solutions for future “blue growth” (the sustainable use of ocean resources) and maintaining healthy marine ecosystems.

Background Nutritional quality of phytoplankton is a major determinant of the trophic transfer efficiency at the plant-herbivore interface in freshwater food webs. In particular, the phytoplankton’s content of the essential polyunsaturated omega-3 fatty acid eicosapentaenoic acid (EPA) has been repeatedly shown to limit secondary production in the major zooplankton herbivore genus Daphnia . Despite extensive research efforts on the biological model organism Daphni a, and the availability of several Daphnia genomes, little is known regarding the molecular mechanisms underlying the limitations in Daphnia related to dietary EPA availability. Results We used RNA-seq to analyse the transcriptomic response of Daphnia magna which were fed with two different diets — each with or without supplementation of EPA — at two different temperature levels (15 and 20 °C). The transcripts were mapped to the D. magna genome assembly version 2.4, containing 26,646 translations. When D. magna fed on green alga, changing the temperature provoked a differential expression of 2001 transcripts, and in cyanobacteria-fed daphnia, 3385 transcripts were affected. The supplementation of EPA affected 1635 (on the green algal diet), or 175 transcripts (on the cyanobacterial diet), respectively. Combined effects for diet and temperature were also observed (669 for the green algal and 128 transcripts for the cyanobacterial diet). Searching for orthologous genes (COG-analysis) yielded a functional overview of the altered transcriptomes. Cross-matched transcript sets from both feed types were compiled to illuminate core responses to the factors temperature and EPA-supplementation. Conclusions Our highly controlled eco-physiological experiments revealed an orchestrated response of genes involved in the transformation and signalling of essential fatty acids, including eicosanoid-signalling pathways with potential immune functions. We provide an overview of downstream-regulated genes, which contribute to enhance growth and reproductive output. We also identified numerous EPA-responsive candidate genes of yet unknown function, which constitute new targets for future studies on the molecular basis of EPA-dependent effects at the freshwater plant-herbivore interface.

Chemical information transfer is a major agent in the regulation of interspecific and intraspecific interactions in natural ecosystems. One important group of such infochemicals both in terrestrial and aquatic ecosystems are so-called volatile organic compounds (VOCs) that can evoke behavioral or physiological responses like predator avoidance and mate or host location. In previous work, we have demonstrated that freshwater gastropods utilize VOCs released from benthic algae as food finding cues, although the specific nature of the VOC release and perception were not yet clear. Therefore we tested whether gastropod grazing on biofilms leads to algal cell damage and a subsequent liberation of wounding-associated VOCs. In bioassays we investigated the algal VOC bouquet level which is necessary to elicit a behavioural response of freshwater gastropods. The results of the liberation experiment showed that gastropod grazing leads to VOCs release. We also found that a certain threshold level of volatiles is necessary for snails to recognise the volatile infochemicals and subsequently respond with a directed foraging behaviour towards the odour. Finally, a calculated mass balance model demonstrated that the grazer mediated VOC release produced a signal concentration that is sufficient to be recognized by conspecifics and utilized as foraging infochemicals. The emission of ecologically relevant volatiles through snail grazing with subsequent attraction of other gastropod grazers to algal biofilms indicates an important but so far understudied chemical signaling mechanism of ecological importance.

Recent studies have indicated that nitrogen availability can be an important determinant of primary production in freshwater lakes and that herbivore growth can be limited by low dietary nitrogen availability. Furthermore, a lack of specific essential nitrogenous biochemicals (such as essential amino acids) might be another important constraint on the fitness of consumers. This might be of particular importance for cladoceran zooplankton, which can switch between two alternative reproductive strategies--the production of subitaneously developing and resting eggs. Here, we hypothesize that both the somatic growth and the type of reproduction of the aquatic keystone herbivore Daphnia is limited by the availability of specific essential amino acids in the diet. In laboratory experiments, we investigated this hypothesis by feeding a high quality phytoplankton organism (Cryptomonas) and a green alga of moderate nutritional quality (Chlamydomonas) to a clone of Daphnia pulex with and without the addition of essential amino acids. The somatic growth of D. pulex differed between the algae of different nutritional quality, but not dependent on the addition of dissolved amino acids. However, in reproduction experiments, where moderate crowding conditions at saturating food quantities were applied, addition of the essential amino acids arginine and histidine (but not lysine and threonine) increased the total number and the developmental stage of subitaneous eggs. While D. pulex did not produce resting eggs on Cryptomonas, relatively high numbers of resting eggs were released on Chlamydomonas. When arginine and histidine were added to the green algal diet, the production of resting eggs was effectively suppressed. This demonstrates the high, but previously overlooked importance of single essential amino acids for the reproductive strategy of the aquatic keystone herbivore Daphnia.