Virus decomposition provides an important contribution to benthic deep-sea ecosystem functioning

Virus decomposition provides an important contribution to benthic deep-sea ecosystem functionin

Diversity and spatial distribution of metalreducing bacterial assemblages in groundwaters of different redox conditions

The spatial distribution and diversity of metal-reducing bacterial assemblages belonging to Geobacteraceae were studied in groundwaters with different physicochemical characteristics by means of terminal-restriction fragment length polymorphism (T-RFLP) molecular fingerprinting, as applied to the 16S rRNA gene. The physicochemical conditions of these environments were unfavorable to support active-metal-reducing processes. The highest diversity of Geobacteraceae was observed in groundwater samples characterized by the highest dissolved Fe and Mn concentrations. T-RFLP analyses revealed major differences in the Geobacteraceae ribotype diversity and community composition of the groundwater samples as well as a considerable variability and spatial turnover of Geobacteraceae assemblages. Results from this work suggest that changes in the physicochemical characteristics of the aquifer deeply influence the richness and community structure of Geobacteraceae, even in those systems in which metal-reduction processes are not dominant. [Int Microbiol 2009; 12(3):153-159

Rapid response of benthic deep-sea microbes (viruses and prokaryotes) to an intense dense shelf water cascading event in a submarine canyon of the NW Mediterranean Sea

A major dense shelf water cascading (DSWC) event occurred in 2005 downward the Cap de Creus Canyon (Gulf of Lion, NW Mediterranean Sea), which caused a significant change in environmental parameters and biological components. Here we describe the effects of this DSWC event on benthic microbes and on virus-prokaryote interactions, and we explore their implications on the functioning of the canyon's ecosystem. We collected sediment samples at increasing depths inside the canyon and in the adjacent deep continental margin over a period of five years, i.e. during and after the DSWC event, which led to the deposition of high amounts of fresh and labile organic matter that stimulated C production by benthic prokaryotes and increased their abundance and biomass. The enhanced prokaryotic metabolism, still evident 6 months after the DSWC event, was associated with high viral replication rates and prokaryotic mortality, which released 3.4-6.3 gC m−2 over such a 6 months period. Such values are up to 3-times higher than the yearly C-flux to the seafloor reported in this area in years without DSWC. We conclude that DSWC can significantly enhance benthic prokaryotic metabolism and C cycling through viral-induced prokaryotic mortality

Quantification of viral and prokaryotic production rates in benthic ecosystems:a methods comparison

Viruses profoundly influence benthic marine ecosystems by infecting and subsequently killing their prokaryotic hosts, thereby impacting the cycling of carbon and nutrients. Previously conducted studies, based on different methodologies, have provided widely differing estimates of the relevance of viruses on benthic prokaryotes. There has been no attempt so far to compare these independent approaches, including contextual comparisons among different approaches for sample manipulation (i.e., dilution or not of the sediments during incubations), between methods based on epifluorescence microscopy (EFM) or radiotracers, and between the use of different radiotracers. Therefore, it has been difficult to identify the most suitable methodologies and protocols to be used as standard approaches for the quantification of viral infections of prokaryotes. Here, we compared for the first time different methods for determining viral and prokaryotic production rates in marine sediments collected at two benthic sites, differing in depth and environmental conditions. We used a highly replicated experimental design, testing the potential biases associated to the incubation of sediments as diluted or undiluted. In parallel, we also compared EFM counts with the (3)H-thymidine incubations for the determination of viral production rates, and the use of (3)H-thymidine versus (3)H-leucine radiotracers for the determination of prokaryotic production. We show here that, independent from sediment dilution, EFM-based values of viral production ranged from 1.4 to 4.6 × 10(7) viruses g(-1) h(-1), and were similar but overall less variable compared to those obtained by the (3)H-thymidine method (0.3 to 9.0 × 10(7) viruses g(-1)h(-1)). In addition, the prokaryotic production rates were not affected by sediment dilution, and the use of different radiotracers provided very consistent estimates (10.3–35.1 and 9.3–34.6 ngC g(-1)h(-1) using the (3)H-thymidine or (3)H-leucine method, respectively). These results indicated that viral lysis was responsible for the abatement of 55–81% of the prokaryotic heterotrophic production, corroborating previous findings of the major role of viruses in benthic deep-sea ecosystems. Moreover, our methodological comparison for the analysis of viral production in marine sediments suggests that microscopy-based approaches are simpler and more cost-effective than those based on radiotracers. These approaches also reduce time to results and overcome issues related to generation of radioactive waste

Impact of CO2 leakage from sub-seabed carbon dioxide capture and storage (CCS) reservoirs on benthic virus-prokaryote interactions and functions

Atmospheric CO2 emissions are a global concern due to their predicted impact on biodiversity, ecosystems functioning, and human life. Among the proposed mitigation strategies, CO2 capture and storage, primarily the injection of CO2 into marine deep geological formations has been suggested as a technically practical option for reducing emissions. However, concerns have been raised that possible leakage from such storagesites, and the associated elevated levels of pCO2 could locally impact the biodiversity and biogeochemical processes in the sediments above these reservoirs. Whilst a number of impact assessment studies have been conducted, no information is available on the specific responses of viruses and virus host interactions. In the present study, we tested the impact of a simulated CO2 leakage on the benthic microbial assemblages, with specific focus on microbial activity and virus-induced prokaryotic mortality VIPM). We found that exposure to levels of CO2 in the overlying seawater from 1,000 to 20,000 ppm for a period up to 140 days, resulted in a marked decrease in heterotrophic carbon production and organic matter degradation rates in the sediments, associated with lower rates of VIPM, and a progressive accumulation of sedimentary organic matter with increasing CO2 concentrations. These results suggest that the increase in seawater pCO2 levels that may result from CO2 leakage, can severely reduce the rates of microbial-mediated recycling of these dimentary organic matter and viralin fections, with major consequences on C cycling and nutrient regeneration, and hence on the functioning of benthic ecosystems.publishedVersio

The challenge of proving the existence of metazoan life in permanently anoxic deep-sea sediments

The demonstration of the existence of metazoan life in absence of free oxygen is one of the most fascinating and difficult challenges in biology. Danovaro et al. (2010) discovered three new species of the Phylum Loricifera, living in the anoxic sediments of the L’Atalante, a deep-hypersaline anoxic basin of the Mediterranean Sea. Multiple and independent analyses based on staining, incorporation of radio labeled substrates, CellTracker Green incorporation experiments and ultra-structure analyses, allowed Danovaro et al. (2010) to conclude that these animals were able to spend their entire life cycle under anoxic conditions. Bernhard et al. (2015) investigated the same basin. Due to technical difficulties in sampling operations, they could not collect samples from the permanently anoxic sediment, and sampled only the redoxcline portion of the L’Atalante basin. They found ten individuals of Loricifera and provided alternative interpretations of the results of Danovaro et al. (2010). Here we analyze these interpretations, and present additional evidence indicating that the Loricifera encountered in the anoxic basin L’Atalante were actually alive at the time of sampling. We also discuss the reliability of different methodologies and approaches in providing evidence of metazoans living in anoxic conditions, paving the way for future investigation

Microbiome network in the pelagic and benthic offshore systems of the northern Adriatic Sea (Mediterranean Sea)

Because of their recognized global importance, there is now the urgent need to map diversity and distribution patterns of marine microbial communities. Even if available studies provided some advances in the understanding the biogeographical patterns of marine microbiomes at the global scale, their degree of plasticity at the local scale it is still underexplored, and functional implications still need to be dissected. In this scenario here we provide a synoptical study on the microbiomes of the water column and surface sediments from 19 sites in a 130 km2 area located 13.5 km afar from the coast in the North-Western Adriatic Sea (Italy), providing the finest-scale mapping of marine microbiomes in the Mediterranean Sea. Pelagic and benthic microbiomes in the study area showed sector specific-patterns and distinct assemblage structures, corresponding to specific variations in the microbiome network structure. While maintaining a balanced structure in terms of potential ecosystem services (e.g., hydrocarbon degradation and nutrient cycling), sector-specific patterns of over-abundant modules-and taxa-were defined, with the South sector (the closest to the coast) characterized by microbial groups of terrestrial origins, both in the pelagic and the benthic realms. By the granular assessment of the marine microbiome changes at the local scale, we have been able to describe, to our knowledge at the first time, the integration of terrestrial microorganisms in the marine microbiome networks, as a possible natural process characterizing eutrophic coastal area. This raises the question about the biological threshold for terrestrial microorganisms to be admitted in the marine microbiome networks, without altering the ecological balance

Microplastic accumulation in benthic invertebrates in Terra Nova Bay (Ross Sea, Antarctica)

Microplastic contamination of the benthic invertebrate fauna in Terra Nova Bay (Ross Sea, Antarctica) was determined. Twelve macrobenthic species, characterized by different feeding strategies, were selected at 3 sampling sites at increasing distance from the Italian Scientific Base (Mario Zucchelli, Camp Icarus, Adelie Cove). The 83% of the analyzed macrobenthic species contained microplastics (0.01–3.29 items mg−1). The size of the particles, measured by Feret diameter, ranged from 33 to 1000 µm with the highest relative abundance between 50 and 100 µm. Filter-feeders and grazers displayed values of microplastic contamination from 3 to 5 times higher than omnivores and predators, leading to the hypothesis that there is no evident bioaccumulation through the food web. The prevalent polymers identified by micro-FTIR were nylon (86%) and polyethylene (5%); other polymers identified in Antarctic benthos were polytetrafluoroethylene, polyoxymethylene, phenolic resin, polypropylene, polystyrene resin and XT polymer. Keywords: Antarctica, Benthos, Microplastics, Food web, FTIR, Nile re

Microbiome-assisted restoration of degraded marine habitats: a new nature-based solution?

Microorganisms interact with all biological components in a variety of ways. They contribute to increase the efficiency of marine food webs and facilitate the adaptation of multicellular organisms to climate change and other human-induced impacts. Increasing evidence suggests that microbiomes are essential for the health of marine species, for maintaining productive marine ecosystems, and thus for the sustainable functioning of the global biosphere. Marine microbiomes are typically species- or habitat-specific and are susceptible to environmental and human-driven changes. The microbiota of seagrasses, macroalgae, mangroves or tropical corals benefits their hosts by increasing their fitness, contributing to the removal of toxic compounds, conferring protection against pathogens, and/or supporting nutrient requirements. Alterations of the microbiomes might have negative consequences on species’ health, survival, and overall ecosystem functioning. Despite the key ecological role of microbiomes in all ecosystems, their potential for the restoration of degraded habitats is still largely unexplored. Here we present a literature survey of the existing information on the microbiota associated with habitat-forming species and suggest that the resilience/recovery of damaged marine habitats can depend largely on the changes in the microbiota. Nature-based solutions relying on microbiome analyses (also through omics approaches) enable health monitoring of transplanted organisms/metacommunities and potential identification/production of probiotics/bio-promoters to stabilize unhealthy conditions of transplants. In the context of international strategies concerning ecological restoration, the use of the scientific knowledge acquired on the marine microbiome deserves to be exploited to assist both traditional and innovative restoration approaches. The success of habitat restoration may depend on our ability to maintain, along with the restored species and habitats, a functional microbiota

Sunscreens Cause Coral Bleaching by Promoting Viral Infections

Background: Coral bleaching (i.e., the release of coral symbiotic zooxanthellae) has negative impacts on biodiversity and functioning of reef ecosystems and their production of goods and services. This increasing world-wide phenomenon is associated with temperature anomalies, high irradiance, pollution, and bacterial diseases. Recently, it has been demonstrated that personal can products, including sunscreens, have an impact on aquatic organisms similar to that of other contaminants. Objectives: Our goal was to evaluate the potential impact of sunscreen ingredients on hard corals and their symbiotic algae. Methods: In situ and laboratory experiments were conducted in several tropical regions (the Atlantic, Indian, and Pacific Oceans, and the Red Sea) by supplementing coral branches with aliquots of sunscreens and common ultraviolet filters contained in sunscreen formula. Zooxanthellae were checked for viral infection by epifluorescence and transmission electron microscopy analyses. Results: Sunscreens cause the rapid and complete bleaching of hard corals, even at extremely low concentrations. The effect of sunscreens is due to organic ultraviolet filters, which are able to induce the lyric viral cycle in symbiotic zooxanthellae with latent infections. Conclusions: We conclude that sunscreens, by promoting viral infection, potentially play an important role in coral bleaching in areas prone to high levels of recreational use by humans