Interplay between eutrophication and climate warming on bacterial communities in coastal sediments differs depending on water depth and oxygen history

Trophic homogeneity due to seasonal variation in nitrogen in shallow subtropical lakes

Lakes play a crucial role in the nitrogen (N) cycle, and eutrophication disrupts the balance of the nitrogen cycle within lakes, including both the N removal process and the N supplement process. However, the mechanisms by which different nutrient levels affect seasonal nitrogen variations in the water columns are not clear, especially for long-term and large- scale studies. In this study, we used 206 independent spatial samples from a total of 108 subtropical shallow lakes from four surveys in the middle and lower reaches of the Yangtze River, as well as time-case study data from Lake Taihu and Lake Donghu of up to 23 and 14 years, respectively, to analyze the changes in summer TN compared to spring (delta TN). Delta TN was significantly negatively correlated with initial spring TN concentrations, with similar trends observed in both space and time. Furthermore, the slopes of spring TN vs. delta TN varied little across lakes in both time and space, suggesting a consistent relationship between initial spring TN and summer TN changes. When initial TN or TN: TP ratio was low, N fixation by algae played a significant role in compensating for summer N removal, thus mitigating summer N reductions; when TN was high or TN: TP ratio was high, ammonia stress reduced the compensatory effect of algae and denitrification played a significant role in summer N removal, thus increasing summer N reductions. Our study suggested that no matter what the initial conditions are, lakes tend to evolve towards a common nutrient status through biological regulation.

Greenhouse gas emission potential of tropical coastal sediments in densely urbanized area inferred from metabarcoding microbial community data

Although benthic microbial community offers crucial insights into ecosystem services, they are underestimated for coastal sediment monitoring. Sepetiba Bay (SB) in Rio de Janeiro, Brazil, holds long-term metal pollution. Currently, SB pollution is majorly driven by domestic effluents discharge. Here, functional prediction analysis inferred from 16S rRNA gene metabarcoding data reveals the energy metabolism profiles of benthic microbial assemblages along the metal pollution gradient. Methanogenesis, denitrification, and N2 fixation emerge as dominant pathways in the eutrophic/polluted internal sector (Spearman; p < 0.05). These metabolisms act in the natural attenuation of sedimentary pollutants. The methane (CH4) emission (mcr genes) potential was found more abundant in the internal sector, while the external sector exhibited higher CH4 consumption (pmo + mmo genes) potential. Methanofastidiosales and Exiguobacterium, possibly involved in CH4 emission and associated with CH4 consumers respectively, are the main taxa detected in SB. Furthermore, SB exhibits higher nitrous oxide (N2O) emission potential since the norB/C gene proportions surpass nosZ up to 4 times. Blastopirellula was identified as the main responsible for N2O emissions. This study reveals fundamental contributions of the prokaryotic community to functions involved in greenhouse gas emissions, unveiling their possible use as sentinels for ecosystem monitoring.

The mediatory role of water quality on the association between extreme precipitation events and infectious diarrhea in the Yangtze River Basin, China

Extreme precipitation is exacerbating the burden of infectious diarrhea in the context of climate change, it is necessary to identify the critical and easy-to-intervene intermediate factors for public health strategies. Water quality may be the most important mediator, while relevant empirical evidence is limited. This study aimed to examine the role of water quality in the process of infectious diarrhea caused by extreme precipitation. Weekly infectious diarrhea cases, meteorological factors and water quality data in Yangtze River Basin in China between October 29, 2007 to February 19, 2017 were obtained. Two-stage statistical models were used to estimate city-specific extreme precipitation, water quality and infectious diarrhea relationships that were pooled to derive regional estimates. A causal mediation analysis was used to assess the mediation effect of water quality. In Yangtze River Basin, extreme precipitation events had a significant impact on infectious diarrhea (Incidence Rate Ratios [IRR]: 1.027, 95% Confidence Interval [CI]: 1.013∼1.041). After extreme precipitation events, the dissolved oxygen (DO) in surface water decreased (-0.123 mg/L, 95%CI: -0.159 mg/L∼-0.086 mg/L), while the un-ionized ammonia (NH(3)-N) increased (0.004 mg/L, 95%CI: 0.001 mg/L∼0.006 mg/L). The combined overall effect of DO and NH(3)-N on infectious diarrhea showed that both low and high concentrations were associated with an increased risk of infectious diarrhea. The causal mediation analysis showed that the mediation proportion of the two water quality indexes (DO and NH(3)-N) is 70.54% (P < 0.001). To reduce the health effects of extreme precipitation, in contrast to current population-oriented health strategies, those that take into account more direct and easy-to-intervene water quality indicators should be encouraged by future policies.

Genome-resolved metagenomics of Venice Lagoon surface sediment bacteria reveals high biosynthetic potential and metabolic plasticity as successful strategies in an impacted environment

Bacteria living in sediments play essential roles in marine ecosystems and deeper insights into the ecology and biogeochemistry of these largely unexplored organisms can be obtained from 'omics' approaches. Here, we characterized metagenome-assembled-genomes (MAGs) from the surface sediment microbes of the Venice Lagoon (northern Adriatic Sea) in distinct sub-basins exposed to various natural and anthropogenic pressures. MAGs were explored for biodiversity, major marine metabolic processes, anthropogenic activity-related functions, adaptations at the microscale, and biosynthetic gene clusters. Starting from 126 MAGs, a non-redundant dataset of 58 was compiled, the majority of which (35) belonged to (Alpha- and Gamma-) Proteobacteria. Within the broad microbial metabolic repertoire (including C, N, and S metabolisms) the potential to live without oxygen emerged as one of the most important features. Mixotrophy was also found as a successful lifestyle. Cluster analysis showed that different MAGs encoded the same metabolic patterns (e.g., C fixation, sulfate oxidation) thus suggesting metabolic redundancy. Antibiotic and toxic compounds resistance genes were coupled, a condition that could promote the spreading of these genetic traits. MAGs showed a high biosynthetic potential related to antimicrobial and biotechnological classes and to organism defense and interactions as well as adaptive strategies for micronutrient uptake and cellular detoxification. Our results highlighted that bacteria living in an impacted environment, such as the surface sediments of the Venice Lagoon, may benefit from metabolic plasticity as well as from the synthesis of a wide array of secondary metabolites, promoting ecosystem resilience and stability toward environmental pressures.

Supplementary Information

The online version contains supplementary material available at 10.1007/s42995-023-00192-z.

Eutrophication assessment in Pannonian Basin (the case of Ludaš Lake Special Nature Reserve and Palić Nature Park)

Agricultural, industrial, and human activities in general threaten water quality, as well as the biotic integrity of aquatic ecosystems. The increased concentration of total nitrogen (TN) and phosphorus (TP) affects high concentrations of chlorophyll (Chl-a) in freshwater ecosystems, which causes the process of eutrophication of the waters of shallow lakes. Eutrophication, as an alarming threat to the global quality of surface waters, affects environmental degradation. This research assesses the risk of eutrophication caused by chemical oxygen demand (COD), TN, TP, Secchi disk (SD), and Chl-a using the trophic level index (TLI) in Palić and Ludaš lakes. Both lakes have been nominated as potential Natura 2000 areas in 2021 because they belong to important bird areas, and Ludaš Lake has the status of Ramsar site 3YU002. In the research period from 2011 to 2021, the results showed that the lake is in an extremely eutrophic state. Laboratory analyses indicate an increased concentration of Chl-a during autumn. In the paper, the normalized difference chlorophyll index (NDCI) was calculated using the Google Earth Engine platform, and the result indicates the loading of the lake throughout the year, with an emphasis on winter, summer, and autumn. By using satellite images and remote sensing, it is possible to determine the most degraded spots, which is a help to the researchers in choosing the places where the samples will be taken and thus act more efficiently on the most endangered parts, as well as reduce the costs of standard in situ methods.

Microbial functional genes are driven by gradients in sediment stoichiometry, oxygen, and salinity across the Baltic benthic ecosystem

BACKGROUND

Microorganisms in the seafloor use a wide range of metabolic processes, which are coupled to the presence of functional genes within their genomes. Aquatic environments are heterogenous and often characterized by natural physiochemical gradients that structure these microbial communities potentially changing the diversity of functional genes and its associated metabolic processes. In this study, we investigated spatial variability and how environmental variables structure the diversity and composition of benthic functional genes and metabolic pathways across various fundamental environmental gradients. We analyzed metagenomic data from sediment samples, measured related abiotic data (e.g., salinity, oxygen and carbon content), covering 59 stations spanning 1,145 km across the Baltic Sea.

RESULTS

The composition of genes and microbial communities were mainly structured by salinity plus oxygen, and the carbon to nitrogen (C:N) ratio for specific metabolic pathways related to nutrient transport and carbon metabolism. Multivariate analyses indicated that the compositional change in functional genes was more prominent across environmental gradients compared to changes in microbial taxonomy even at genus level, and indicate functional diversity adaptation to local environments. Oxygen deficient areas (i.e., dead zones) were more different in gene composition when compared to oxic sediments.

CONCLUSIONS

This study highlights how benthic functional genes are structured over spatial distances and by environmental gradients and resource availability, and suggests that changes in, e.g., oxygenation, salinity, and carbon plus nitrogen content will influence functional metabolic pathways in benthic habitats. Video Abstract.