Terrestrial carbohydrates support freshwater zooplankton during phytoplankton deficiency

Universal microbial reworking of dissolved organic matter along environmental gradients

Soils are losing increasing amounts of carbon annually to freshwaters as dissolved organic matter (DOM), which, if degraded, can offset their carbon sink capacity. However, the processes underlying DOM degradation across environments are poorly understood. Here we show DOM changes similarly along soil-aquatic gradients irrespective of environmental differences. Using ultrahigh-resolution mass spectrometry, we track DOM along soil depths and hillslope positions in forest catchments and relate its composition to soil microbiomes and physico-chemical conditions. Along depths and hillslopes, we find carbohydrate-like and unsaturated hydrocarbon-like compounds increase in abundance-weighted mass, and the expression of genes essential for degrading plant-derived carbohydrates explains >50% of the variation in abundance of these compounds. These results suggest that microbes transform plant-derived compounds, leaving DOM to become increasingly dominated by the same (i.e., universal), difficult-to-degrade compounds as degradation proceeds. By synthesising data from the land-to-ocean continuum, we suggest these processes generalise across ecosystems and spatiotemporal scales. Such general degradation patterns can help predict DOM composition and reactivity along environmental gradients to inform management of soil-to-stream carbon losses.

Chlorella pyrenoidosa mitigated the negative effect of cylindrospermopsin-producing and non-cylindrospermopsin-producing Raphidiopsis raciborskii on Daphnia magna as a dietary supplement

Feeding effects are crucial for evaluating the capacity of zooplankton to regulate phytoplankton populations within freshwater ecosystems. To examine the impact of the bloom-forming cyanobacteria Raphidiopsis raciborskii, which occurs in tropical and subtropical freshwaters, on the growth of zooplankton Daphnia in relation to toxins, filament length and fatty acid content, we fed D. magna with R. raciborskii only (cylindrospermopsin (CYN)-producing and non-CYN-producing, as the negative controls), Chlorella pyrenoidosa only (as the positive control) and a mixed diet containing R. raciborskii (CYN-producing and non-CYN-producing) and C. pyrenoidosa. Consequently, our findings revealed that the toxic effect of CYN-producing R. raciborskii strains on Daphnia was mitigated by the coexistence of C. pyrenoidosa containing stearidonic acid (SDA, C18:4 ω3) in mixed diets. This was evident in the elevated survival rate compared that from diets containing only R. raciborskii and a significantly higher reproduction and population intrinsic increase rate compared to diets consisting of only R. raciborskii or C. pyrenoidos. Additionally, a strong positive correlation was observed between arachidonic acid (ARA, 20:4ω6) and the population intrinsic increase rate of Daphnia; notably, R. raciborskii strains were found to be rich in the ω6 polyunsaturated fatty acid ARA. These outcomes reinforce the crucial role of polyunsaturated fatty acids in predicting the population increase of crustacean zooplankton, which has long been neglected. Furthermore, our results underscore the potential effectiveness of zooplankton, particularly in temperate lakes, in controlling CYN-producing R. raciborskii populations.

Disturbances in growth, oxidative stress, energy reserves and the expressions of related genes in Daphnia magna after exposure to ZnO under thermal stress

The toxicological effects of metal contamination are influenced by the ambient temperature. Therefore, global warming affects the toxicity of metal contamination in aquatic ecosystems. ZnO is widely used as a catalyst in many industries, and causes contamination in aquatic ecosystems. Here, we investigated the effects of ZnO concentration under elevated temperature by observing growth, oxidative stress, energy reserves and related gene expression in exposed Daphnia magna. Body length and growth rate increased in neonates exposed to ZnO for 2 days but decreased at 9 and 21 days under elevated temperature. ZnO concentration and elevated temperature induced oxidative stress in mature D. magna by reducing superoxide dismutase (SOD) activity and increasing malondialdehyde (MDA) levels. In contrast, juveniles were unaffected. Carbohydrate, protein and caloric contents were reduced throughout development in D. magna treated with ZnO and elevated temperature in all exposure periods (2, 9 and 21 days). However, lipid content also decreased in mature D. magna treated with ZnO cultured under elevated temperature, while that of juveniles showed an increase in lipid content. Therefore, energy was perhaps allocated to physiological processes for detoxification and homeostasis. Moreover, expression patterns of genes related to physiological processes changed under elevated temperature and ZnO exposure. Taken together, our results highlight that the combination of temperature and ZnO concentration induced toxicity in D. magna. This conclusion was confirmed by the Integrated Biological Response (IBR) index. This study shows that changes in biological levels of organization could be used to monitor environmental change using D. magna as a bioindicator.

Elemental and biochemical nutrient limitation of zooplankton: A meta-analysis

Primary consumers in aquatic ecosystems are frequently limited by the quality of their food, often expressed as phytoplankton elemental and biochemical composition. However, the effects of these food quality indicators vary across studies, and we lack an integrated understanding of how elemental (e.g. nitrogen, phosphorus) and biochemical (e.g. fatty acid, sterol) limitations interactively influence aquatic food webs. Here, we present the results of a meta-analysis using >100 experimental studies, confirming that limitation by N, P, fatty acids, and sterols all have significant negative effects on zooplankton performance. However, effects varied by grazer response (growth vs. reproduction), specific manipulation, and across taxa. While P limitation had greater effects on zooplankton growth than fatty acids overall, P and fatty acid limitation had equal effects on reproduction. Furthermore, we show that: nutrient co-limitation in zooplankton is strong; effects of essential fatty acid limitation depend on P availability; indirect effects induced by P limitation exceed direct effects of mineral P limitation; and effects of nutrient amendments using laboratory phytoplankton isolates exceed those using natural field communities. Our meta-analysis reconciles contrasting views about the role of various food quality indicators, and their interactions, for zooplankton performance, and provides a mechanistic understanding of trophic transfer in aquatic environments.

Intercontinental analysis of temperate steppe stream food webs reveals consistent autochthonous support of fishes

Quantifying the trophic basis of production for freshwater metazoa at broad spatial scales is key to understanding ecosystem function and has been a research priority for decades. However, previous lotic food web studies have been limited by geographic coverage or methodological constraints. We used compound-specific stable carbon isotope analysis of amino acids (AAs) to estimate basal resource contributions to fish consumers in streams spanning grassland, montane and semi-arid ecoregions of the temperate steppe biome on two continents. Across a range of stream sizes and light regimes, we found consistent trophic importance of aquatic resources. Essential AAs of heterotrophic microbial origin generally provided secondary support for fishes, while terrestrial carbon did not seem to provide significant, direct support. These findings provide strong evidence for the dominant contribution of carbon to higher-order consumers by aquatic autochthonous resources (primarily) and heterotrophic microbial communities (secondarily) in temperate steppe streams.

Allochthony, fatty acid and mercury trends in muscle of Eurasian perch (Perca fluviatilis) along boreal environmental gradients

Environmental change, including joint effects of increasing dissolved organic carbon (DOC) and total phosphorus (TP) in boreal northern lakes may affect food web energy sources and the biochemical composition of organisms. These environmental stressors are enhanced by anthropogenic land-use and can decrease the quality of polyunsaturated fatty acids (PUFAs) in seston and zooplankton, and therefore, possibly cascading up to fish. In contrast, the content of mercury in fish increases with lake browning potentially amplified by intensive forestry practises. However, there is little evidence on how these environmental stressors simultaneously impact beneficial omega-3 fatty acid (n3-FA) and total mercury (THg) content of fish muscle for human consumption. A space-for-time substitution study was conducted to assess whether environmental stressors affect Eurasian perch (Perca fluviatilis) allochthony and muscle nutritional quality [PUFA, THg, and their derivative, the hazard quotient (HQ)]. Perch samples were collected from 31 Finnish lakes along pronounced lake size (0.03-107.5 km²), DOC (5.0-24.3 mg L^-1), TP (5-118 μg L^-1) and land-use gradients (forest: 50.7-96.4%, agriculture: 0-32.6%). These environmental gradients were combined using principal component analysis (PCA). Allochthony for individual perch was modelled using source and consumer δ²H values. Perch allochthony increased with decreasing lake pH and increasing forest coverage (PC1), but no correlation between lake DOC and perch allochthony was found. Perch muscle THg and omega-6 fatty acid (n6-FA) content increased with PC1 parallel with allochthony. Perch muscle DHA (22:6n3) content decreased, and ALA (18:3n3) increased towards shallower murkier lakes (PC2). Perch allochthony was positively correlated with muscle THg and n6-FA content, but did not correlate with n3-FA content. Hence, the quality of perch muscle for human consumption decreases (increase in HQ) with increasing forest coverage and decreasing pH, potentially mediated by increasing fish allochthony.

Dark matters: Contrasting responses of stream biofilm to browning and loss of riparian shading

Concentrations of terrestrial-derived dissolved organic carbon (DOC) in freshwater ecosystems have increased consistently, causing freshwater browning. The mechanisms behind browning are complex, but in forestry-intensive regions browning is accelerated by land drainage. Forestry actions in streamside riparian forests alter canopy shading, which together with browning is expected to exert a complex and largely unpredictable control over key ecosystem functions. We conducted a stream mesocosm experiment with three levels of browning (ambient vs. moderate vs. high, with 2.7 and 5.5-fold increase, respectively, in absorbance) crossed with two levels of riparian shading (70% light reduction vs. open canopy) to explore the individual and combined effects of browning and loss of shading on the quantity (algal biomass) and nutritional quality (polyunsaturated fatty acid and sterol content) of the periphytic biofilm. We also conducted a field survey of differently colored (4.7 to 26.2 mg DOC L^-1 ) streams to provide a 'reality check' for our experimental findings. Browning reduced greatly the algal biomass, suppressed the availability of essential polyunsaturated fatty acids, especially eicosapentaenoic acid (EPA), and sterols, but increased the availability of terrestrial-derived long-chain saturated fatty acids (LSAFA). In contrast, loss of shading increased primary productivity, which resulted in elevated sterol and EPA contents of the biofilm. The field survey largely repeated the same pattern: biofilm nutritional quality decreased significantly with increasing DOC, as indicated particularly by a decrease of the ω-3:ω-6 ratio and increase in LSAFA content. Algal biomass, in contrast, was mainly controlled by dissolved inorganic nitrogen (DIN) concentration, while DOC concentration was of minor importance. The ongoing browning process is inducing a dramatic reduction in the nutritional quality of the stream biofilm. Such degradation of the major high-quality food source available for stream consumers may reduce the trophic transfer efficiency in stream ecosystems, potentially extending across the stream-forest ecotone.

Extensive Carbon Contribution of Inundated Terrestrial Plants to Zooplankton Biomass in a Eutrophic Lake

Organic carbon derived from terrestrial plants contributes to aquatic consumers, e.g., zooplankton in lakes. The degree of the contribution depends on the availability of terrestrial organic carbon in lake organic pool and the transfer efficiency of the carbon. Terrestrial organic carbon is poor-quality food for zooplankton with a mismatch of nutrition content and was incorporated to zooplankton with much lower efficiency than phytoplankton. Contributions of terrestrial carbon to zooplankton generally decrease with an increase in phytoplankton production, indicating a preferential incorporation of phytoplankton in previous investigations. However, in eutrophic lakes, the dominating cyanobacteria were of poor quality and incorporated to consumers inefficiently too. In that case, zooplankton in eutrophic wetlands, where cyanobacteria dominate the phytoplankton production and massive terrestrial plants are inundated, may not preferentially incorporate poor food-quality phytoplankton resource to their biomass. Therefore, we hypothesize that carbon contributions of terrestrial vegetation to zooplankton and to lake particulate organic pool should be similar in such aquatic ecosystems. We tested this hypothesis by sampling zooplankton and carbon sources in Ming Lake (Jinan University Campus, southern China) which was overgrown by terrestrial plants after drying and re-flooded. After 60 days of observations at weekly (or biweekly) intervals, applying stable carbon (¹³C), nitrogen (¹⁵ N), and hydrogen (²H) isotopic analysis and a stable isotope mixing model, we estimated the occurrence of extensive carbon contribution (≥ 50%) of flooded terrestrial plants to cladocerans and copepods. Contribution of inundated terrestrial plants to cladocerans was similar to that to lake particulate organic pool. Thus, our study quantified the role of terrestrial carbon in eutrophic wetlands, enhancing our understanding of cross-ecosystem interactions in food webs with an emphasis on the resource quality.

Lowered nutritional quality of prey decrease the growth and biomolecule content of rainbow trout fry

Diet quality is crucial for the development of offspring. Here, we examined how the nutritional quality of prey affects somatic growth and the lipid, carbohydrate, protein, amino acid, and polyunsaturated fatty acid content of rainbow trout (Oncorhynchus mykiss) fry using a three-trophic-level experimental setup. Diets differed especially in their content of eicosapentaenoic acid (EPA) and docosahexaenoic acid (DHA), which are physiologically essential polyunsaturated fatty acids for a fish fry. Trout were fed with an artificial diet (fish feed, DHA-rich), marine zooplankton diet (krill/Mysis, DHA-rich), or freshwater zooplankton diet (Daphnia, Cladocera, DHA-deficient). The Daphnia were grown either on a poor, intermediate, or high-quality algal/microbial diet simulating potential changes in the nutritional prey quality (EPA-content). Trout fed with the fish feed or marine zooplankton entirely replaced their muscle tissue composition with compounds of dietary origin. In contrast, fish tissue renewal was only partial in fish fed any Daphnia diet. Furthermore, fish grew five times faster on marine zooplankton than on any of the Daphnia diets. This was mainly explained by the higher dietary contents of arachidonic acid (ARA), EPA, and DHA, but also by the higher content of some amino acids in the marine zooplankton than in the Daphnia diets. Moreover, fatty acid-specific carbon isotopes revealed that trout fry could not biosynthesize ARA, EPA, or DHA efficiently from their precursors. Our results suggest that changes in the zooplankton and macroinvertebrate communities' structure in freshwater habitats from DHA-rich to DHA-poor species may reduce the somatic growth of fish fry.

Does ancient permafrost-derived organic carbon affect lake zooplankton growth? An experimental study on Daphnia magna

The popular paradigm in trophic dynamic theory is that contemporary autochthonous organic matter (e.g., phytoplankton) sustains consumer growth, whereas aged allochthonous organic matter is conceptually considered recalcitrant resources that may only be used to support consumer respiration but suppress consumer growth. This resource-age paradigm has been challenged by a growing body of recent evidence that ancient (radiocarbon depleted) organic carbon (OC) released from glaciers and permafrost can be incorporated by consumers in aquatic systems. However, little information is available regarding the food quality of ancient terrestrial OC and how it impacts the growth of consumers in lakes. Here, ancient dissolved organic carbon (DOC) was extracted from frozen soils in an alpine lake catchment. The contents of polyunsaturated fatty acids (PUFAs) in soil DOC increased significantly after bioconversion by heterotrophic bacteria. The utilization of soil DOC by heterotrophic bacteria also increased the total phosphorus concentration in the systems. Gammaproteobacteria and Betaproteobacteria showed a strong negative correlation with the percentage contents of fluorescent components, including humic-like and tyrosine-like components. Daphnia magna were fed Auxenochlorella vulgaris and ancient DOC plus heterotrophic bacteria. The contents of PUFAs and the growth of zooplankton were influenced by the pre-conversion time of ancient DOC by bacteria. When ancient DOC was pre-converted by bacteria for 27 days, D. magna fed on the mixed diets showed the highest body length (3.40 mm) and intrinsic rate of increase in population (0.49 d^-1). Our findings provide direct evidence that ancient terrestrial OC can be an important subsidy for lake secondary production, which have important implications for food webs in high-altitude and polar lakes.

Ecology and extent of freshwater browning - What we know and what should be studied next in the context of global change

Water browning or brownification refers to increasing water color, often related to increasing dissolved organic matter (DOM) and carbon (DOC) content in freshwaters. Browning has been recognized as a significant physicochemical phenomenon altering boreal lakes, but our understanding of its ecological consequences in different freshwater habitats and regions is limited. Here, we review the consequences of browning on different freshwater habitats, food webs and aquatic-terrestrial habitat coupling. We examine global trends of browning and DOM/DOC, and the use of remote sensing as a tool to investigate browning from local to global scales. Studies have focused on lakes and rivers while seldom addressing effects at the catchment scale. Other freshwater habitats such as small and temporary waterbodies have been overlooked, making the study of the entire network of the catchment incomplete. While past research investigated the response of primary producers, aquatic invertebrates and fishes, the effects of browning on macrophytes, invasive species, and food webs have been understudied. Research has focused on freshwater habitats without considering the fluxes between aquatic and terrestrial habitats. We highlight the importance of understanding how the changes in one habitat may cascade to another. Browning is a broader phenomenon than the heretofore concentration on the boreal region. Overall, we propose that future studies improve the ecological understanding of browning through the following research actions: 1) increasing our knowledge of ecological processes of browning in other wetland types than lakes and rivers, 2) assessing the impact of browning on aquatic food webs at multiple scales, 3) examining the effects of browning on aquatic-terrestrial habitat coupling, 4) expanding our knowledge of browning from the local to global scale, and 5) using remote sensing to examine browning and its ecological consequences.

Poor nutritional quality of primary producers and zooplankton driven by eutrophication is mitigated at upper trophic levels

Eutrophication and rising water temperature in freshwaters may increase the total production of a lake while simultaneously reducing the nutritional quality of food web components. We evaluated how cyanobacteria blooms, driven by agricultural eutrophication (in eutrophic Lake Köyliöjärvi) or global warming (in mesotrophic Lake Pyhäjärvi), influence the biomass and structure of phytoplankton, zooplankton, and fish communities. In terms of the nutritional value of food web components, we evaluated changes in the ω‐3 and ω‐6 polyunsaturated fatty acids (PUFA) of phytoplankton and consumers at different trophic levels. Meanwhile, the lakes did not differ in their biomasses of phytoplankton, zooplankton, and fish communities, lake trophic status greatly influenced the community structures. The eutrophic lake, with agricultural eutrophication, had cyanobacteria bloom throughout the summer months whereas cyanobacteria were abundant only occasionally in the mesotrophic lake, mainly in early summer. Phytoplankton community differences at genus level resulted in higher arachidonic acid, eicosapentaenoic acid (EPA), and docosahexaenoic acid (DHA) content of seston in the mesotrophic than in the eutrophic lake. This was also reflected in the EPA and DHA content of herbivorous zooplankton (Daphnia and Bosmina) despite more efficient trophic retention of these biomolecules in a eutrophic lake than in the mesotrophic lake zooplankton. Planktivorous juvenile fish (perch and roach) in a eutrophic lake overcame the lower availability of DHA in their prey by more efficient trophic retention and biosynthesis from the precursors. However, the most efficient trophic retention of DHA was found with benthivorous perch which prey contained only a low amount of DHA. Long‐term cyanobacterial blooming decreased the nutritional quality of piscivorous perch; however, the difference was much less than previously anticipated. Our result shows that long‐term cyanobacteria blooming impacts the structure of plankton and fish communities and lowers the nutritional quality of seston and zooplankton, which, however, is mitigated at upper trophic levels.

Seven Years Study of the Seasonal Dynamics of Zooplankton Communities in a Large Subtropical Floodplain Ecosystem: A Test of the PEG Model

Irregular hydrological events, according to a classic plankton ecology group (PEG) study, can generate major deviations from the standard PEG model. However, little is known about the function of hydrological factors in influencing the seasonal dynamics of plankton. We used multivariate and Partial Least Squares Path Modeling to analyze the seasonal variation in crustacean zooplankton and related environmental factors from winter 2009 to winter 2016 in Lake Poyang, the largest freshwater lake in China. We found a distinct seasonal pattern in zooplankton development, which deviated, in part, from the PEG model, as we found indications of (1) a weaker degree of food limitation in winter and spring, likely due to high concentrations of allochthonous sources caused by decomposition of seasonally flooded hygrophytes, also affecting sediment dynamics; (2) a peak in crustacean zooplankton biomass in summer when the water level was high (and predation was lower), and where horizontal transport of zooplankton from the littoral zone to the pelagic was possibleand (3) a higher predation pressure in autumn, likely due to a shrinking water volume that left the fish concentrated in less water. The majority of these differences can be attributed to the direct or indirect impacts of physical factor variation.

Seasonal Variations in the Biochemical Compositions of Phytoplankton and Transparent Exopolymer Particles (TEPs) at Jang Bogo Station (Terra Nova Bay, Ross Sea), 2017–2018

The biochemical composition of particulate organic matter (POM) mainly originates from phytoplankton. Transparent exopolymer particles (TEPs) depend on environmental conditions and play a role in the food web and biogeochemical cycle in marine ecosystems. However, little information on their characteristics in the Southern Ocean is available, particularly in winter. To investigate the seasonal characteristics of POM and TEPSs, seawater samples were collected once every two weeks from November 2017 to October 2018 at Jang Bogo Station (JBS) located on the coast of Terra Nova Bay in the Ross Sea. The total chlorophyll-a (Chl-a) concentrations increased from spring (0.08 ± 0.06 μg L−1) to summer (0.97 ± 0.95 μg L−1) with a highest Chl-a value of 2.15 μg L−1. After sea ice formation, Chl-a rapidly decreased in autumn (0.12 ± 0.10 μg L−1) and winter (0.01 ± 0.01 μg L−1). The low phytoplankton Chl-a measured in this study was related to a short ice-free period in summer. Strong seasonal variations were detected in the concentrations of proteins and lipids (one-way ANOVA test, p < 0.05), whereas no significant difference in carbohydrate concentrations was observed among different seasons (one-way ANOVA test, p > 0.05). The phytoplankton community was mostly composed of diatoms (88.8% ± 11.6%) with a large accumulation of lipids. During the summer, the POM primarily consisted of proteins. The composition being high in lipids and proteins and the high caloric content in summer indicated that the phytoplankton would make a good food source. In winter, the concentrations of proteins decreased sharply. In contrast, relatively stable concentrations of carbohydrates and lipids have been utilized for respiration and long-term energy storage in the survival of phytoplankton. The TEPS values were significantly correlated with variations in the biomass and species of the phytoplankton. Our study site was characterized by dominant diatoms and low Chl-a concentrations, which could have resulted in relatively low TEP concentrations compared to other areas. The average contributions of TEP-C to the total POC were relatively high in autumn (26.9% ± 6.1%), followed by those in summer (21.9% ± 7.1%), winter (13.0% ± 4.2%), and spring (9.8% ± 3.1%).

Selective Fatty Acid Retention and Turnover in the Freshwater Amphipod Pallaseopsis quadrispinosa

Gammarid amphipods are a crucial link connecting primary producers with secondary consumers, but little is known about their nutritional ecology. Here we asked how starvation and subsequent feeding on different nutritional quality algae influences fatty acid retention, compound-specific isotopic carbon fractionation, and biosynthesis of ω-3 and ω-6 polyunsaturated fatty acids (PUFA) in the relict gammarid amphipod Pallaseopsis quadrispinosa. The fatty acid profiles of P. quadrispinosa closely matched with those of the dietary green algae after only seven days of refeeding, whereas fatty acid patterns of P. quadrispinosa were less consistent with those of the diatom diet. This was mainly due to P. quadrispinosa suffering energy limitation in the diatom treatment which initiated the metabolization of 16:1ω7 and partly 18:1ω9 for energy, but retained high levels of eicosapentaenoic acid (EPA) and docosahexaenoic acid (DHA) similar to those found in wild-caught organisms. Moreover, α-linolenic acid (ALA) from green algae was mainly stored and not allocated to membranes at high levels nor biosynthesized to EPA. The arachidonic acid (ARA) content in membrane was much lower than EPA and P. quadrispinosa was able to biosynthesize long-chain ω-6 PUFA from linoleic acid (LA). Our experiment revealed that diet quality has a great impact on fatty acid biosynthesis, retention and turnover in this consumer.

A hydrogen-oxidizing bacterium enriched from the open ocean resembling a symbiont

A new autotrophic hydrogen-oxidizing Chromatiaceae bacterium, namely bacterium CTD079, was enriched from a water column sample at 1500 m water depth in the southern Pacific Ocean. Based on the phylogeny of 16S rRNA genes, it was closely related to a scaly snail endosymbiont (99.2% DNA sequence identity) whose host so far is only known to colonize hydrothermal vents along the Indian ridge. The average nucleotide identity between the genomes of CTD079 and the snail endosymbiont was 91%. The observed differences likely reflect adaptations to their specific habitats. For example, CTD079 encodes additional enzymes like the formate dehydrogenase increasing the organism's spectrum of energy generation pathways. Other additional physiological features of CTD079 included the increase of viral defence strategies, secretion systems and specific transporters for essential elements. These important genome characteristics suggest an adaptation to life in the open ocean.

Ex vivo Comprehensive Multiphase NMR of whole organisms: A complementary tool to in vivo NMR

Nuclear Magnetic Resonance (NMR) spectroscopy is a non-invasive analytical technique which allows for the study of intact samples. Comprehensive Multiphase NMR (CMP-NMR) combines techniques and hardware from solution state and solid state NMR to allow for the holistic analysis of all phases (i.e. solutions, gels and solids) in unaltered samples. This study is the first to apply CMP-NMR to deceased, intact organisms and uses ¹³C enriched Daphnia magna (water fleas) as an example. D. magna are commonly used model organisms for environmental toxicology studies. As primary consumers, they are responsible for the transfer of nutrients across trophic levels, and a decline in their population can potentially impact the entire freshwater aquatic ecosystem. Though in vivo research is the ultimate tool to understand an organism’s most biologically relevant state, studies are limited by conditions (i.e. oxygen requirements, limited experiment time and reduced spinning speed) required to keep the organisms alive, which can negatively impact the quality of the data collected. In comparison, ex vivo CMP-NMR is beneficial in that; organisms do not need oxygen (eliminating air holes in rotor caps and subsequent evaporation); samples can be spun faster, leading to improved spectral resolution; more biomass per sample can be analyzed; and experiments can be run for longer. In turn, higher quality ex vivo NMR, can provide more comprehensive NMR assignments, which in many cases could be transferred to better understand less resolved in vivo signals. This manuscript is divided into three sections: 1) multiphase spectral editing techniques, 2) detailed metabolic assignments of 2D NMR of ¹³C enriched D. magna and 3) multiphase biological changes over different life stages, ages and generations of D. magna. In summary, ex vivo CMP-NMR proves to be a very powerful approach to study whole organisms in a comprehensive manner and should provide very complementary information to in vivo based research.

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Comprehensive Multiphase NMR detects all phases (solid/liquid/gel) in whole samples.

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Deceased organisms are not subjected to the limitations of in vivo NMR studies.

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2D ex vivo NMR offer increased spectral resolution, improving metabolite assignment.

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Holistic analysis shows biological changes in D. magna over different life stages.

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Ex vivo NMR can be a complementary tool for in vivo NMR metabolomic studies.

Comparison of Bayesian and numerical optimization-based diet estimation on herbivorous zooplankton

Consumer diet estimation with biotracer-based mixing models provides valuable information about trophic interactions and the dynamics of complex ecosystems. Here, we assessed the performance of four Bayesian and three numerical optimization-based diet estimation methods for estimating the diet composition of herbivorous zooplankton using consumer fatty acid (FA) profiles and resource library consisting of the results of homogeneous diet feeding experiments. The method performance was evaluated in terms of absolute errors, central probability interval checks, the success in identifying the primary resource in the diet, and the ability to detect the absence of resources in the diet. Despite occasional large inconsistencies, all the methods were able to identify the primary resource most of the time. The numerical optimization method QFASA using χ²(QFASA-CS) or Kullback--Leibler (QFASA-KL) distance measures had the smallest absolute errors, most frequently found the primary resource, and adequately detected the absence of resources. While the Bayesian methods usually performed well, some of the methods produced ambiguous results and some had much longer computing times than QFASA. Therefore, we recommend using QFASA-CS or QFASA-KL. Our systematic tests showed that FA models can be used to accurately estimate complex dietary mixtures in herbivorous zooplankton. 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'.

Fluvial influence on the biochemical composition of particulate organic matter in the Laptev and Western East Siberian seas during 2015

Here, we investigated the elemental (C/N ratio) and isotopic signatures (δ¹³C) and major biomolecules (carbohydrates, proteins, and lipids) and their relative abundance (i.e., the biochemical composition) in particulate organic matter (POM) to assess their origin and fate in the Laptev and western East Siberian seas during late summer/fall of 2015. In addition, we compared our results with the summer data of 2013 collected from Laptev and northwestern East Siberian seas. In accordance with the observed hydrological structure (i.e., a northward, warmer, diluted freshwater plume than previously observed in 2013), the more depleted δ¹³C (-28.2 ± 0.9‰) and higher C/N ratio (10.8 ± 2.0) than those of 2013 signalled that fluvially released terrestrial organic carbon (TerrOC) was the main source of the POM, unlike in 2013, when phytoplankton was the dominant source (δ¹³C = -24.9 ± 1.0‰, C/N ratio = 7.6 ± 2.4; Ahn et al., 2019). During the offshore transport of heterogeneous TerrOC, carbohydrates seem to be the primary contributor to the bulk POM as a result of selective degradation and hydrodynamic sorting. Despite the TerrOC-dominated system in 2015, some marine influence was also found. The estimated phytoplankton biomass was low and comparable among the study sites. In addition, the presence of resting spores and high ammonium concentrations within the water column may suggest senescent and, to some extent, degrading conditions of the resident phytoplankton. In this regard, carbohydrate concentrations and freshwater content were significantly correlated (r = 0.79, p < 0.01), suggesting that carbohydrates are useful inferences of freshwater within overall study sites, at least when the marine influence is similar or low.

Characterization of key bacterial species in the Daphnia magna microbiota using shotgun metagenomics

The keystone zooplankton Daphnia magna has recently been used as a model system for understanding host-microbiota interactions. However, the bacterial species present and functions associated with their genomes are not well understood. In order to understand potential functions of these species, we combined 16S rRNA sequencing and shotgun metagenomics to characterize the whole-organism microbiota of Daphnia magna. We assembled five potentially novel metagenome-assembled genomes (MAGs) of core bacteria in Daphnia magna. Genes involved in host colonization and immune system evasion were detected across the MAGs. Some metabolic pathways were specific to some MAGs, including sulfur oxidation, nitrate reduction, and flagellar assembly. Amino acid exporters were identified in MAGs identified as important for host fitness, and pathways for key vitamin biosynthesis and export were identified across MAGs. In total, our examination of functions in these MAGs shows a diversity of nutrient acquisition and metabolism pathways present that may benefit the host, as well as genomic signatures of host association and immune system evasion.

Tracing the fate of microplastic carbon in the aquatic food web by compound-specific isotope analysis

Increasing abundance of microplastics (MP) in marine and freshwaters is currently one of the greatest environmental concerns. Since plastics are fairly resistant to chemical decomposition, breakdown and reutilization of MP carbon complexes requires microbial activity. Currently, only a few microbial isolates have been shown to degrade MPs, and direct measurements of the fate of the MP carbon are still lacking. We used compound-specific isotope analysis to track the fate of fully labelled ¹³C-polyethylene (PE) MP carbon across the aquatic microbial-animal interface. Isotopic values of respired CO₂ and membrane lipids showed that MP carbon was partly mineralized and partly used for cell growth. Microbial mineralization and assimilation of PE-MP carbon was most active when inoculated microbes were obtained from highly humic waters, which contain recalcitrant substrate sources. Mixotrophic algae (Cryptomonas sp.) and herbivorous zooplankton (Daphnia magna) used microbial mediated PE-MP carbon in their cell membrane fatty acids. Moreover, heteronanoflagellates and mixotrophic algae sequestered MP carbon for synthesizing essential ω-6 and ω-3 polyunsaturated fatty acids. Thus, this study demonstrates that aquatic micro-organisms can produce, biochemically upgrade, and trophically transfer nutritionally important biomolecules from PE-MP.

Nanomaterials in the Environment Acquire an "Eco-Corona" Impacting their Toxicity to Daphnia Magna-a Call for Updating Toxicity Testing Policies

Nanomaterials (NMs) are particles with at least one dimension between 1 and 100 nm and a large surface area to volume ratio, providing them with exceptional qualities that are exploited in a variety of industrial fields. Deposition of NMs into environmental waters during or after use leads to the adsorption of an ecological (eco-) corona, whereby a layer of natural biomolecules coats the NM changing its stability, identity and ultimately toxicity. The eco-corona is not currently incorporated into ecotoxicity tests, although it has been shown to alter the interactions of NMs with organisms such as Daphnia magna (D. magna). Here, the literature on environmental biomolecule interactions with NMs is synthesized and a framework for understanding the eco-corona composition and its role in modulating NMs ecotoxicity is presented, utilizing D. magna as a model. The importance of including biomolecules as part of the current international efforts to update the standard testing protocols for NMs, is highlighted. Facilitating the formation of an eco-corona prior to NMs ecotoxicity testing will ensure that signaling pathways perturbed by the NMs are real rather than being associated with the damage arising from reactive NM surfaces "acquiring" a corona by pulling biomolecules from the organism's surface.

Plant detritus is selectively consumed by estuarine copepods and can augment their survival

Particulate material comprising the detrital remains of terrestrial plants and macrophytes is a substantial source of organic matter to estuaries and therefore has the potential to support the energy demands of the pelagic aquatic food web. Despite the prevalence of macrophytic or terrestrial particulate organic carbon (tPOC), phytoplankton are nutritionally superior and are thought to be the primary food resource for zooplankton. However, estuarine phytoplankton primary productivity abundances can wax and wane, and often production cannot meet heterotrophic energy needs. In this study, we examined how tPOC (detritus of macrophytes and grasses) may affect survival of a calanoid copepod (Eurytemora affinis) common in the San Francisco Estuary (SFE), an estuary with relatively low phytoplankton primary productivity. Using chemical biomarkers and a targeted DNA metagenomic methodology, we show that E. affinis consumed tPOC (dominated by Schoenoplectus sp., or tule) even when phytoplankton were abundant and tPOC was scarce. Furthermore, we found that a mixed diet of phytoplankton and terrestrial material (1:3 carbon ratio) enhanced the survival of E. affinis over a diet of phytoplankton alone. These data show that tPOC can be a vital supplementary food source for zooplankton, perhaps extending survival during low phytoplankton periods, and may help explain elevated zooplankton abundances in tidal wetlands and other detrital-dominated regions.

Simulated eutrophication and browning alters zooplankton nutritional quality and determines juvenile fish growth and survival

The first few months of life is the most vulnerable period for fish and their optimal hatching time with zooplankton prey is favored by natural selection. Traditionally, however, prey abundance (i.e., zooplankton density) has been considered important, whereas prey nutritional composition has been largely neglected in natural settings. High-quality zooplankton, rich in both essential amino acids (EAAs) and fatty acids (FAs), are required as starting prey to initiate development and fast juvenile growth. Prey quality is dependent on environmental conditions, and, for example, eutrophication and browning are two major factors defining primary producer community structures that will directly determine the nutritional quality of the basal food sources (algae, bacteria, terrestrial matter) for zooplankton. We experimentally tested how eutrophication and browning affect the growth and survival of juvenile rainbow trout (Oncorhynchus mykiss) by changing the quality of basal resources. We fed the fish on herbivorous zooplankton (Daphnia) grown with foods of different nutritional quality (algae, bacteria, terrestrial matter), and used GC-MS, stable isotope labeling as well as bulk and compound-specific stable isotope analyses for detecting the effects of different diets on the nutritional status of fish. The content of EAAs and omega-3 (ω-3) polyunsaturated FAs (PUFAs) in basal foods and zooplankton decreased in both eutrophication and browning treatments. The decrease in ω-3 PUFA and especially docosahexaenoic acid (DHA) was reflected to fish juveniles, but they were able to compensate for low availability of EAAs in their food. Therefore, the reduced growth and survival of the juvenile fish was linked to the low availability of DHA. Fish showed very low ability to convert alpha-linolenic acid (ALA) to DHA. We conclude that eutrophication and browning decrease the availability of the originally phytoplankton-derived DHA for zooplankton and juvenile fish, suggesting bottom-up regulation of food web quality.

Under-ice availability of phytoplankton lipids is key to freshwater zooplankton winter survival

Shortening winter ice-cover duration in lakes highlights an urgent need for research focused on under-ice ecosystem dynamics and their contributions to whole-ecosystem processes. Low temperature, reduced light and consequent changes in autotrophic and heterotrophic resources alter the diet for long-lived consumers, with consequences on their metabolism in winter. We show in a survival experiment that the copepod Leptodiaptomus minutus in a boreal lake does not survive five months under the ice without food. We then report seasonal changes in phytoplankton, terrestrial and bacterial fatty acid (FA) biomarkers in seston and in four zooplankton species for an entire year. Phytoplankton FA were highly available in seston (2.6 µg L⁻¹) throughout the first month under the ice. Copepods accumulated them in high quantities (44.8 µg mg dry weight⁻¹), building lipid reserves that comprised up to 76% of body mass. Terrestrial and bacterial FA were accumulated only in low quantities (<2.5 µg mg dry weight⁻¹). The results highlight the importance of algal FA reserve accumulation for winter survival as a key ecological process in the annual life cycle of the freshwater plankton community with likely consequences to the overall annual production of aquatic FA for higher trophic levels and ultimately for human consumption.

Evaluation of different agroindustrial waste on the effect of different carcass characteristics and physiological and biochemical parameters in broilers chicken

Aim:

This study was conducted to evaluate the physiological and biochemical effect in chickens of the Ross breed of a food enriched with agroindustrial waste.

Materials and Methods:

The food is one of the main components of the total cost for the production of chickens. Rations should be formulated to provide the correct balance of energy, protein, amino acids, minerals, vitamins and essential fatty acids, to allow optimal growth and performance. This study was intended to evaluate a natural feed for chicken, made from corn, yucca meal, eggshells, orange peel, soybean meal, salt and garlic, enriched with agroindustrial waste (molasses, milk whey and ferment of coffee). The weight gain was evaluated in broilers using a diet enriched with different agroindustrial wastes, with respect to a control food of the same composition but not containing residue. To develop the experiment 120 male Ross 308 chicks were used, these were evaluated for 6 weeks. Physicochemical test for the food and the agroindustrial waste were performed; moisture was determined; organic carbon, organic material and the ash, to characterize the agroindustrial wastes, the reducing sugars content using a spectrophotometer at 540 nm and proteins through the Kjeldahl method was evaluated. During the experiment, the weight gain of chickens and feed conversion was evaluated; the end of the experiment the weight of eviscerated channel relative weight breast, thighs, pancreas, and abdominal fat was determined, besides including blood chemistries as determination of cholesterol, triglycerides, and glucose. Finally, the microbiological analyzes to detect the presence of Escherichia coli in the cecum was determinate. Data were analyzed by InfoStat statistical program using the generalized linear model procedure. The statistical comparison was made by Tukey test at the 95% probability level.

Results:

After the evaluation, fed chickens with the treatments food + milk whey (FMW) and food + ferment of coffee (FFC) demonstrated increased from 1949 to 1892 g, respectively, to the 42 days of evaluation, showing the best treatment for weight gain. However, the FFC treatment showed the best feed conversion reaching values of 1.79 related to levels of blood glucose (249 mg/dl). Even so the eviscerated channel yields were higher for the treatment FFC reaching 1810.1 g unlike the treatment FMW which it reached a weight of 1718.2 g with increased formation of abdominal fat (7.4 g) unlike other treatments. From the results, it is concluded that food enriched with coffee ferment allows an increase in weight, better feed conversion in addition to high production of lean meat.

Conclusion:

It was shown that the best treatment was the food enriched with the ferment of coffee, due to increased intake and weight gain at the end of 42 days of the experiment.

Diet quality determines lipase gene expression and lipase/esterase activity in Daphnia pulex

We studied the short- (12 h) and long-term (144 h) response of Daphnia pulex lipases to quality shifts in diets consisting of different mixtures of the green alga Scenedesmus with the cyanobacterium Synechococcus, two species with contrasting lipid compositions. The lipase/esterase activity in both the gut and the body tissues had fast responses to the diet shift and increased with higher dietary contributions of Synechococcus When screening the Daphnia genome for TAG lipases, we discovered a large gene-family expansion of these enzymes. We used a subset of eight genes for mRNA expression analyses and distinguished between influences of time and diet on the observed gene expression patterns. We identified five diet-responsive lipases of which three showed a sophisticated short- and long-term pattern of expression in response to small changes in food-quality. Furthermore, the gene expression of one of the lipases was strongly correlated to lipase/esterase activity in the gut suggesting its potentially major role in digestion. These findings demonstrate that the lipid-related enzymatic machinery of D. pulex is finely tuned to diet and might constitute an important mechanism of physiological adaptation in nutritionally complex environments.