Progress towards marine ecosystem observing systems in South Africa

Marine ecosystem observing systems combine measurements, observations and models through a data management and interpretation process to provide information on the status of marine ecosystems. Both biotic and abiotic aspects of the marine environment need to be considered. Single variables typically can be used to represent aspects of the physical and chemical environment, but ecosystem indicators are required for the living components. There are no true marine ecosystem observing systems globally, because most observing systems focus on the physical environment. In South Africa, some fledgling systems are being developed, using the knowledge base provided by focused marine ecosystem research over the past 30 years. Further development should be based on international guidelines, which highlight three interrelated elements : (i) Measurements, obtained directly from ships, drifters or buoys, or remotely from satellites. In South Africa, sustained, long-term measurements are hampered by limited available ship's time, lack of suitable instruments, and insufficient qualified personnel. (ii) Models and other analytical tools to augment observations. South Africa is making progress in marine modelling, but not in marine data assimilation; qualified persons need to be attracted, trained and retained. (iii) Archived and disseminated data generated from measurements and models. The infrastructure and human and institutional capacity for data management and communication in South Africa needs to be enhanced. Existing programmes contribute towards the development of an effective marine ecosystem observing system, but its sustainability requires support at an institutional level

Oxygen and temperature influence the distribution of deepwater Cape hake Merluccius paradoxus in the southern Benguela: a GAM analysis of a 10-year time-series

Generalised additive models (GAMs) were applied to survey data to assess the influence of dissolved oxygen, water temperature and year of sampling upon the presence/absence of small (≤15 cm TL), medium (16–34 cm TL) and large (≥35 cm TL) size classes of deepwater Cape hake Merluccius paradoxus captured off the west coast of South Africa. Data were obtained from surveys using the RV Dr Fridtjof Nansen conducted in 2003 and from 2005 to 2013 during summer (January–February). Among the variables investigated, oxygen was the most important for the small size class (juveniles), with both low and high constraints (two-sided, ‘just right’ option), whereas for the medium and large size classes the oxygen effects were one-sided (avoiding lows). This finding, in combination with other published information, suggests that the Orange Banks is a nursery ground for juvenile M. paradoxus and that the area covered by this nursery ground can vary with the optimal oxygen concentration. The temperature constraint was generally wider and weaker than that for oxygen, being two-sided for the small and medium hake and one-sided (avoiding highs) for the large hake. The medium hake displayed the greatest tolerance to the investigated variables, which resulted in the widest distribution for this size class. Temperature, oxygen and sampling year play an important role in determining the distribution of M. paradoxus, but details of the biology (life cycle) of the species, such as its pelagic–demersal transition and associated movements, are no less important.publishedVersio

Combined fishing and climate forcing in the southern Benguela upwelling ecosystem: an end-to-end modelling approach reveals dampened effects

The effects of climate and fishing on marine ecosystems have usually been studied separately, but their interactions make ecosystem dynamics difficult to understand and predict. Of particular interest to management, the potential synergism or antagonism between fishing pressure and climate forcing is analysed in this paper, using an end-to-end ecosystem model of the southern Benguela ecosystem, built from coupling hydrodynamic, biogeochemical and multispecies fish models (ROMS-N 2 P 2 Z 2 D 2 -OSMOSE). Scenarios of different intensities of upwelling-favourable wind stress combined with scenarios of fishing top-predator fish were tested. Analyses of isolated drivers show that the bottom-up effect of the climate forcing propagates up the food chain whereas the top-down effect of fishing cascades down to zooplankton in unfavourable environmental conditions but dampens before it reaches phytoplankton. When considering both climate and fishing drivers together, it appears that top-down control dominates the link between top-predator fish and forage fish, whereas interactions between the lower trophic levels are dominated by bottom-up control. The forage fish functional group appears to be a central component of this ecosystem, being the meeting point of two opposite trophic controls. The set of combined scenarios shows that fishing pressure and upwelling-favourable wind stress have mostly dampened effects on fish populations, compared to predictions from the separate effects of the stressors. Dampened effects result in biomass accumulation at the top predator fish level but a depletion of biomass at the forage fish level. This should draw our attention to the evolution of this functional group, which appears as both structurally important in the trophic functioning of the ecosystem, and very sensitive to climate and fishing pressures. In particular, diagnoses considering fishing pressure only might be more optimistic than those that consider combined effects of fishing and environmental variability

South African research in the Southern Ocean: New opportunities but serious challenges

South Africa has a long track record in Southern Ocean and Antarctic research and has recently invested considerable funds in acquiring new infrastructure for ongoing support of this research. This infrastructure includes a new base at Marion Island and a purpose-built ice capable research vessel, which greatly expand research opportunities. Despite this investment, South Africa's standing as a participant in this critical field is threatened by confusion, lack of funding, lack of consultation and lack of transparency. The research endeavour is presently bedevilled by political manoeuvring among groups with divergent interests that too often have little to do with science, while past and present contributors of research are excluded from discussions that aim to formulate research strategy. This state of affairs is detrimental to the country's aims of developing a leadership role in climate change and Antarctic research and squanders both financial and human capital

Monitoring marine plastics – will we know if we are making a difference?

In the context of marine anthropogenic debris management, monitoring is essential to assess whether mitigation measures to reduce the amounts of waste plastic entering the environment are being effective. In South Africa, baselines against which changes can be assessed include data from the 1970s to the 1990s on microplastics floating at sea, on macro- and microplastic beach debris, and interactions with biota. However, detecting changes in the abundance of microplastics at sea is complicated by high spatial and temporal heterogeneity in net samples. Beach debris data are easier to gather, but their interpretation is complicated by the dynamic nature of debris fluxes on beaches and the increase in beach cleaning effort over time. Sampling plastic ingested by biota is a powerful approach, because animals that retain ingested plastic for protracted periods integrate plastics over space and time, but there are ethical issues to using biota as bioindicators, particularly for species that require destructive sampling (e.g. turtles, seabirds). Bioindicators could be established among fish and invertebrates, but there are technical challenges with sampling microplastics smaller than 1 mm. Fine-scale debris accumulation on beaches provides an index of macroplastic abundance in coastal waters, and offers a practical way to track changes in the amounts and composition of debris in coastal waters. However, upstream flux measures (i.e. in catchments, rivers and storm-water run-off) provide a more direct assessment of mitigation measures for land-based sources. Similarly, monitoring refuse returned to port by vessels is the best way to ensure compliance with legislation prohibiting the dumping of plastics at sea. Significance: Monitoring is required to assess whether mitigation measures to reduce waste plastics at sea are making a difference. Monitoring the leakage of plastic from land-based sources is best addressed on land (e.g. in storm drains and river run-off) before the plastic reaches the sea. Illegal dumping from ships is best addressed by monitoring the use of port waste reception facilities. Sampling plastic ingested by biota is a powerful approach, using fish and invertebrates as bioindicators for larger microplastic fragments

Oxygen and temperature influence the distribution of deepwater Cape hake Merluccius paradoxus in the southern Benguela: a GAM analysis of a 10-year time-series

Generalised additive models (GAMs) were applied to survey data to assess the influence of dissolved oxygen, water temperature and year of sampling upon the presence/absence of small (≤15 cm TL), medium (16–34 cm TL) and large (≥35 cm TL) size classes of deepwater Cape hake Merluccius paradoxus captured off the west coast of South Africa. Data were obtained from surveys using the RV Dr Fridtjof Nansen conducted in 2003 and from 2005 to 2013 during summer (January–February). Among the variables investigated, oxygen was the most important for the small size class (juveniles), with both low and high constraints (two-sided, ‘just right’ option), whereas for the medium and large size classes the oxygen effects were one-sided (avoiding lows). This finding, in combination with other published information, suggests that the Orange Banks is a nursery ground for juvenile M. paradoxus and that the area covered by this nursery ground can vary with the optimal oxygen concentration. The temperature constraint was generally wider and weaker than that for oxygen, being two-sided for the small and medium hake and one-sided (avoiding highs) for the large hake. The medium hake displayed the greatest tolerance to the investigated variables, which resulted in the widest distribution for this size class. Temperature, oxygen and sampling year play an important role in determining the distribution of M. paradoxus, but details of the biology (life cycle) of the species, such as its pelagic–demersal transition and associated movements, are no less important

Comparing trophic flows and fishing impacts of a NW Mediterranean ecosystem with coastal upwelling systems by means of standardized models and indicators

18 pages, 14 figures, 4 tablesThe NW Mediterranean has a number of structural features in common with upwelling ecosystems. Therefore, an ecological model representing a NW Mediterranean exploited ecosystem was standardized and compared with four previously standardized models from coastal upwelling ecosystems: the Northern and Southern Humboldt (Chile and Peru upwelling systems) and the Northern and Southern Benguela (Namibia and South Africa upwelling systems). Results from biomasses, flows and trophic levels indicated important differences between ecosystems, mainly caused by differences in primary production, which was smallest in the NW Mediterranean Sea. However, principal component analysis (PCA) of biomasses and flows suggested a similar pattern between theNWMediterranean and the South African systems due to the inclusion of an important fraction of the continental shelf in both ecological models representing these areas. At the same time, diets of commercial species from theNWMediterranean were more similar to Benguela than Humboldt species. However, the relatively heavy fishing pressure in the NW Mediterranean ecosystem was highlighted relative to its primary production, and was evident from the large catches and small primary production, largest flows from TL 1 required to sustain the fishery (%PPR), the low trophic level of the catch (TLc), high exploitation rates (F/Z), largest values in the trophic spectra portraying catch: biomass ratio, the FIB index and the demersal: total catch ration. Comparisons of %PPR, the trophic level of the community (TLco), the biomass of consumers and F/Z ratios seemed to capture the ecosystem effects of fishing: large in the NW Mediterranean, Namibia and Peru upwelling systems. Small pelagic fish were the most important component of the fisheries in the NW Mediterranean and Peruvian systems. However, the smaller production and biomass ratios from the NW Mediterranean could be an indirect indicator of intense fishing pressure on small pelagic fish, also in line with results from consumption of small pelagic fish by the fishery, F/Z ratios and trophic spectra. Moreover, similarities between the NW Mediterranean and Namibian systems were found, mainly related to the demersal: total catch ratios, the FIB index, the relevance of gelatinous zooplankton in the consumption of production and the importance of pelagic-demersalcoupling, in remarkable contrast to the other ecosystems. These similarities should be interpreted in terms of dynamic trajectories that the Namibian system has shown due to the collapse of its pelagic ecosystem, partly due to fishing intensity, and the signs that the NW Mediterranean could follow suit in the future.The developers of the ecological models included in the comparison are acknowledged: Sergio Neira (Chile), Astrid Jarre (Peru) and Jean-Paul Roux (Namibia). The authors wish to thank them for agreeing to the use of their published model results. They also wish to acknowledge all the researchers involved in the development of the ecological model of the South Catalan Sea, especially from the Institute of Marine Science (Barcelona). The Benguela Ecology Programme and the University of Cape Town are thanked for logistical support and the Spanish Ministry of Education and Science for financial assistance. An anonymous reviewer is thanked for suggesting PCA analysis as a means to strengthen our results and conclusions.Peer reviewe

Impact of offshore eddies on shelf circulation and river plumes of the Sofala Bank, Mozambique Channel

A high-resolution, two-way nested Regional Ocean Modeling System, forced with monthly climatologies, has been set up for the Sofala Bank and adjacent deeper ocean of the Mozambique Channel to investigate the role of offshore mesoscale eddies on the shelf circulation, hydrographic structures and river plumes. The model is shown in comparison with available observations and published studies. Most known oceanographic features are reproduced by our model. We applied Self-Organizing Maps and showed that offshore passing eddies, depending on their strength and proximity to the shelf, modulate the shelf circulation and river plume direction and spread. The presence of a strong cyclonic eddy close to the shelf induces northward surface shelf currents. In contrast, the presence of a strong anticyclonic eddy close to the shelf induces a strong southward current over most of the shelf, except off Beira. Our analyses confirm that the plume of the Zambezi River is bi-directional. The southward-directed plume patterns, opposite to the dominant northwards, occur in response to nearby offshore anticyclonic eddies (26% of occurrence). This behavior could have an influence on water dispersal, shelf ecosystems and important fisheries. Therefore, offshore mesoscale eddies should be taken into account when studying the ocean dynamics of the Sofala Bank

Modelling changes in trophic and structural impacts of alien ecosystem engineers on a rocky-shore island

17 pages, 6 figures, 5 tables, supplementary materials https://doi.org/10.1016/j.ecolmodel.2020.109227Between 1980 and 2012, successive arrivals by three alien ecosystem engineers on a rocky shore community at Marcus Island on the west coast of South Africa led to substantial changes in species composition and diversity. An ecosystem analysis of this open intertidal system was developed using Ecopath with Ecosim to determine the impacts of these aliens and the services they provide on the native community. A baseline Ecopath model of the community in 2015 was generated using values of biomass, production/biomass, consumption/biomass and the dietary composition of 30 functional groups. Ecosim, a time-dynamic modelling routine, was then used to simulate the changes in biomass of native species. A 1980 model (pre-invasion) was constructed and 22 simulations were run up to 2015 by systematically adding (1) biomass time series for non-native species; (2) relative biomass time series for native species; (3) mediation functions that mimicked biomass impacts due to changes in substrate, shelter and feeding grounds created by the alien ecosystem engineers; and (4) the effects of wave action as a source of mortality. Positive or negative influences of these ecological processes on diversity and the final biomasses of all groups in 2015 were assessed. Trophic impacts by the alien species affected diversity and biomass at the end of all simulations, but the addition of shelter or a combination of all three ecosystem services provided by ecosystem engineers (shelter, substrate and feeding grounds) resulted in 2015 model ecosystems that most closely matched the diversity and individual group biomasses empirically measured on Marcus Island in 2015. Wave action had only a minor impact. Marcus Island's rocky shore community was therefore driven mainly by the fixed input of alien species biomass and made more realistic by the incorporation of their ecosystem services. However, structural complexity and zonation, explored in a follow-up paper invoking spatial modelling, need to be represented for a more complete realisation of the ecosystemFinancial contributions from the University of Cape Town, the Andrew Mellon Foundation, the South African Research Chair Initiative (funded through the South African Department of Science and Innovation (DSI) and administered by the South African National Research Foundation (NRF)), and the DSI-NRF Centre of Excellence for Invasion Biology are gratefully acknowledged. [...]. MC acknowledges partial funding from the European Union's Horizon research program grant agreement No 689518 for the MERCES projectWith the funding support of the ‘Severo Ochoa Centre of Excellence’ accreditation (CEX2019-000928-S), of the Spanish Research Agency (AEI)Peer reviewe