Effects of aquaculture fallowing on the recovery of macrofauna communities

Influence of Production Strategy on Gross Waste Output and Temporal Pattern of Gilthead Seabream (Sparus Aurata) Farming: Implications for Environmental Management

This study compares the farm management model used in the Mediterranean gilthead seabream (GHSB; Sparus aurata) industry (S1)—stepped entry of juveniles throughout the year with several production cycles and fish ages overlapping in a single farm—with that used in the salmon industry (S2)—the whole is farm filled with fish that are the same age at once with a fallowing period between rearing cycles—in terms of waste production by coupling digestibility coefficients with growth, feeding, and eating behavior models into a mass balance model. We considered the total C, N, and P content in the different waste fractions (particulate and dissolved wastes). The model, which simulated real farming conditions, showed relevant quantitative and qualitative differences between both strategies, with stocked biomass and water temperature as the main drivers, the amount of feed wasted by chewing as the most relevant fraction differentiating both strategies, and the fallowing period as the main distinguishing management feature. We discuss the influence of both farming strategies on some key performance and environmental aspects, such as benthic recovery, the breakdown of the life cycle of pathogens, and adaptability to climate change. Our results suggest that changing the GHSB industry’s production model is necessary for its sustainability.

Impact of aquaculture and agriculture nutrient sources on macroalgae in a bioassay study

Eutrophication is a major threat to aquatic ecosystems, because excessive nutrient enrichment may result in the loss of ecosystem services. Fjord systems are specifically under pressure due to nutrient input from land (agriculture) and sea (aquaculture). In this bioassay study, we have analyzed the effect of different nutrient sources, as well as their combination, on growth, nutrient composition and recruitment of habitat-forming and ephemeral macrophytes. We found that agricultural fertilizer increased growth for all algae (except Fucus), while the fish farm effluents mainly increased growth of Ulva. The C:N ratio was hardly affected by the fish farm, but decreased significantly in all algae when agriculture fertilizer was added. Most interestingly, however, distance to the fish farm modulated the algal response to the fertilizer. Our results demonstrate the importance of studying effects of multiple stressors in aquatic ecosystems to sustainably manage the consequences of anthropogenic impacts.

The importance of a functional approach on benthic communities for aquaculture environmental assessment: Trophic groups - A polychaete view

Polychaetes were studied to assess the effect of aquaculture activity on the seafloor. Very high biodiversity of species was recorded associated with aquaculture centres with Cirratulidae, Spionidae and Paraonidae families being the most diverse and abundant families. The spatial distribution of polychaete trophic groups was the best descriptor for detecting changes on the benthos. Surface and subsurface deposit-feeding species dominated the sites closest to the rafts cages, highlighting Capitella capitata and Cirratulus cirratus as opportunistic species. While replacement and species succession were observed with increasing presence of carnivores and omnivores in sites further away from the salmon cages and experiencing less impact. Analyses based on the distance of feeding modes and ecological groups from the disturbance source were better indicators of the impact that the traditional community approach or sediment biogeochemistry. Therefore, functional traits studies should always be considered on environmental assessments of benthic systems impacted by aquaculture.

Biotic signals associated with benthic impacts of salmon farms from eDNA metabarcoding of sediments

Environmental DNA (eDNA) metabarcoding can rapidly characterize the composition and diversity of benthic communities, thus it has high potential utility for routine assessments of benthic impacts of marine finfish farming. In this study, 126 sediment grab samples from 42 stations were collected at six salmon farms in British Columbia, Canada. Benthic community changes were assessed by both eDNA metabarcoding of metazoans and macrofaunal polychaete surveys. The latter was done by analysing 11,466 individuals using a combination of morphology-based taxonomy and DNA barcoding. Study objectives were to: (i) compare biotic signals associated with benthic impacts of salmon farming in the two data sources, and (ii) identify potential eDNA indicators to facilitate monitoring in Canada. Alpha diversity parameters were consistently reduced near fish cage edge and negatively correlated with pore-water sulphide concentration, with coefficients ranging from -0.62 to -0.48. Although Polychaeta are a common indicator group, the negative correlation with pore-water sulphide concentration was much stronger for Nematoda OTU richness (correlation coefficient: -0.86) than for Polychaeta (correlation coefficient: -0.38). Presence/absence of Capitella generally agreed well between the two methods despite that they differed in the volume of sediments sampled and the molecular marker used. Multiple approaches were used to identify OTUs related to organic enrichment statuses. We demonstrate that eDNA metabarcoding generates biotic signals that could be leveraged for environmental assessment of benthic impacts of fish farms in multiple ways: both alpha diversity and Nematoda OTU richness could be used to assess the spatial extent of impact, and OTUs related to organic enrichment could be used to develop local biotic indices.

Temporal Bacterial Surveillance of Salmon Aquaculture Sites Indicates a Long Lasting Benthic Impact With Minimal Recovery

Coastal aquaculture has experienced substantial growth in the last few decades and associated impacts on natural environments are of increasing importance. Understanding both the effects of aquaculture on marine ecosystems and the processes of recovery during fallowing periods is crucial for the development of a more environmentally sustainable industry. Because bacteria are sensitive to environmental change, surveying fluctuations in bacterial communities is a promising tool for monitoring the status of benthic environments. Here, we used 16S rRNA gene high-throughput sequencing to characterize bacterial communities in flocculent matter samples collected over a period of 3 years and at various distances from cages (0–200 meters) at production and fallow (3–35 months) salmon aquaculture sites in southern Newfoundland to evaluate the environmental impact of aquaculture on predominantly hard-bottom substrates. Bacterial composition analysis revealed four clusters, three of which (defined as “recently disturbed,” “intermediate impact,” and “high impact”) differed markedly from a fourth “low impact” cluster that contained far-field samples collected >500 m from cages. Samples within the high impact group were most often collected directly under cages, whereas those in the intermediate impact group were mainly sampled from 20 to 40 m from cages. Large scale phylum shifts (increases of Bacteroidetes, Firmicutes, Spirochaetes, and decreases in Proteobacteria and Epsilonbacteraeota) and a decline in bacterial diversity were observed in the high impact cluster, indicating significant ecological change. Samples from sites of different fallow duration were found in the high impact cluster, indicating a lack of recovery, even after 35 months of fallowing. Finally, we identified 28 genera as bacterial biomarkers, specific to one or more clusters, including genera associated with organically enriched environments and previously reported in the context of aquaculture impacts. Tracking the relative abundance of biomarkers in relation to different lengths of fallowing in the three more impacted clusters showed that these markers remained significantly above low impact cluster levels at all times, further pointing toward incomplete recovery. Our results suggest that coastal aquaculture on hard-bottom substrates is prone to long lasting impacts on bacterial communities, especially below cages, and that effects can be accurately tracked using bacterial community profiles or specific biomarkers.

A dual indicator approach for monitoring benthic impacts from organic enrichment with test application near Atlantic salmon farms

The organic enrichment of surficial sediments has a known effect on benthic faunal communities due largely to oxygen depletion and sulfide toxicity. Total dissolved sulfide (free S^-2=H₂S+HS^-+S^2-) concentrations in sediments are widely measured as a practical indicator of community effects. However, the standard ion selective electrode (ISE) method for free S^-2 analysis can provide biased results owing to the inclusion of non-toxic mineral sulfides and the oxidation and volatilization of free S^-2. A rapid field protocol was developed that alleviates these problems while also providing data on dissolved oxygen concentrations. Sediments collected near salmon aquaculture pens over cohesive and permeable substrates were analysed using the standard and new protocols. The results confirm previous conclusions of artifacts with the standard ISE method, while the dual indicator approach more accurately describes the stages, spatial extent and magnitude of sediment geochemical alterations affecting benthic communities.

Assessing benthic ecological impacts of bottom aquaculture using macrofaunal assemblages

Bottom aquaculture of bivalves is a high-yield culture method, which is increasingly adopted by shellfish farmers worldwide. However, the effects of bottom aquaculture on benthic ecosystems are not well-known. Manila clam (Ruditapes philippinarum), is a widely distributed bottom aquaculture mollusk species. To assess the ecological impacts of Manila clam bottom aquaculture, clams and other macrofaunal assemblages were investigated during four cruises (July and November 2011, February and May 2012) at six sampling sites in Jiaozhou Bay, China. Correlation analysis showed that macrofaunal assemblages had significant negative correlations with the abundance of Manila clams. However, according to the results of several biotic indices, a low disturbance was detected by Manila clam bottom aquaculture. In conclusion, AMBI (AZTI'S Marine Biotic Index) and M-AMBI (Multivariate AZTI Marine Biotic Index) indices are more suitable for assessing ecological quality than polychaete/amphipod ratios when the disturbance is slight, such as at a bivalve bottom aquaculture.

Impacts of shrimp farming cultivation cycles on macrobenthic assemblages and chemistry of sediments

The aim of this study was to evaluate the influence of a shrimp farm cultivation cycle in the composition of sediments and on the structure of macrobenthic assemblages. Concentrations of nutrients, Zn and Cu were significantly higher in impact than control areas. In general, the level of contaminants was highest during the harvesting period and in sites closest to the discharge of effluents. Abundances and number of taxa of benthic invertebrates were at least one order of magnitude smaller in impacted areas than in controls. The structure of the benthic assemblages was significantly different at these two treatments. The combined use of biological and chemical data showed to be efficient to provide precise answers regarding the extent of impacts caused by shrimp cultivation. The results provide the basis for a better understanding of impacts of this activity and can subsidize the development of better management practices for coastal areas.