South Africa in the Antarctic Circumnavigation Expedition: a multi-institutional and interdisciplinary scientific project

publisher versionThe polar regions are more critically affected by climate change than any other region on our planet.1,2 On the Antarctic continent and in its surrounding oceans, the effects of climate change are likely to be dramatic,3 and include largescale catastrophic ice melt, loss of habitat and biodiversity, and global sea level rise. The ‘Southern Ocean’ refers to the region where Atlantic, Indian and Pacific Ocean waters come together to encircle Antarctica. These waters connect the different ocean basins by linking the shallow and deep limbs of the global ocean current system (‘overturning circulation’) and play a critical role in storing and distributing heat and carbon dioxide (CO2 ). The Southern Ocean thus regulates not only the climate of the Antarctic, but of the entire earth system.1,4 By extension, the capacity of the global ocean to ameliorate earth’s changing climate is strongly controlled by the Southern Ocean. Marine phytoplankton (microscopic plants inhabiting the sunlit upper ocean) convert CO2 (an inorganic form of carbon) dissolved in surface waters into organic carbon through photosynthesis. This organic carbon fuels upper trophic levels such as fish, mammals and birds, and a portion sinks into the deep ocean where it remains stored for hundreds to thousands of years. This mechanism, which lowers the atmospheric concentration of CO2 , is termed the ‘biological pump’.5 The efficiency of the global ocean’s biological pump is currently limited by the Southern Ocean, where the macronutrients (nitrate and phosphate) required for photosynthesis are never fully consumed in surface waters. In theory, increased consumption of these nutrients could drive higher organic carbon removal to the deep ocean, enhancing the oceanic uptake of atmospheric CO2 . Indeed, more complete consumption of Southern Ocean nutrients is a leading hypothesis for the decrease in atmospheric CO2 that characterised the ice ages.6 Despite the global importance of the Southern Ocean, knowledge of the controls on and interactions among the physical, chemical and biological processes operating in Antarctic ecosystems is limited, largely because of a scarcity of in-situ observational data, compounded by the challenge of integrating siloed scientific fields. Given predictions that diverse aspects of Southern Ocean physics and carbon biogeochemistry are likely to change in the coming decades, a transdisciplinary approach to studying Antarctic systems is critical

Characterization of a succession of small insect viruses in a wild South African population of Nudaurelia cytherea capensis (Lepidoptera: Saturniidae)

The Tetraviridae are a family of small insect RNA viruses first discovered in South Africa some 40 years ago. They consist of one or two single-stranded (+) RNAs encapsidated in an icosahedral capsid of approximately 40 nm in diameter, with T = 4 symmetry. The type members of the two genera within this family, Nudaurelia β virus (NβV) and Nudaurelia ω virus (NωV), infect Nudaurelia cytherea capensis (pine emperor moth) larvae. The absence of N. capensis laboratory colonies and tissue culture cell lines susceptible to virus infection have limited research on the biology of NβV and NωV because the availability of infectious virus is dependent upon sporadic outbreaks in the wild N. capensis populations. In September 2002, dead and dying N. capensis larvae exhibiting symptoms similar to those reported previously in other tetravirus infections were observed in a wild population in a pine forest in the Western Cape province of South Africa. We report here the isolation of three small insect viruses from this population over a period of three years. Transmission electron microscopy and serological characterization indicate that all three are tetra-like virus isolates. One isolate was shown by cDNA sequence analysis to be NβV, which was thought to have been extinct since 1985. The two other isolates are likely new tetraviruses, designated Nudaurelia ψ virus (NψV) and Nudaurelia ζ virus (NζV), which are morphologically and serologically related to NωV and NβV, respectively

Antiviral drug discovery : preparing for the next pandemic

Acknowledgements The authors also gratefully acknowledge financial support from the South African Medical Research Council (MRC) with funds received from the South African National Department of Health and the UK Government's Newton Fund (R. A. D., RL. M. G., K. C.), the UK Engineering and Physical Sciences Research Council EQATA (R. J. M. G.), the UK Global Challenge Research Fund (R. J. M. G., R. A. D.), the University of Cape Town (K. C.) and the South African Research Chairs Initiative of the Department of Science and Innovation, administered through the South African National Research Foundation (NRF) to K. C. (UID: 64767) and R. A. D. (UID: 87583). C. S. A. acknowledges financial support for SARS-CoV-2/Covid-19 research from UKMRC (CVG-1725-2020) and UKRI-DHSC (MR/Vo28464/1). The authors acknowledge Bronwyn Tweedie of the Rhodes University Print Services Unit who provided the graphics for Fig. 1 and thank Gordon Cragg for his insightful comments and encouragement during the preparation of this manuscript.Peer reviewedPublisher PD

Tufa stromatolite ecosystems on the South African south coast

Following the first description of living marine stromatolites along the South African east coast, new investigations along the south coast have revealed the occurrence of extensive fields of actively calcifying stromatolites. These stromatolites have been recorded at regular distances along a 200-km stretch of coastline, from Cape Recife in the east to the Storms River mouth in the west, with the highest density found between Schoenmakerskop and the Maitland River mouth. All active stromatolites are associated with freshwater seepage streams flowing from the dune cordon, which form rimstone dams and other accretions capable of retaining water in the supratidal platform. Resulting pools can reach a maximum depth of about 1 m and constitute a unique ecosystem in which freshwater and marine organisms alternate their dominance in response to vertical mixing and the balance between freshwater versus marine inflow. Although the factors controlling stromatolite growth are yet to be determined, nitrogen appears to be supplied mainly via the dune seeps. The epibenthic algal community within stromatolite pools is generally co-dominated by cyanobacteria and chlorophytes, with minimal diatom contribution

Unlocking the Diversity of Pyrroloiminoquinones Produced by Latrunculid Sponge Species

Sponges of the Latrunculiidae family produce bioactive pyrroloiminoquinone alkaloids including makaluvamines, discorhabdins, and tsitsikammamines. The aim of this study was to use LC-ESI-MS/MS-driven molecular networking to characterize the pyrroloiminoquinone secondary metabolites produced by six latrunculid species. These are Tsitsikamma favus, Tsitsikamma pedunculata, Cyclacanthia bellae, and Latrunculia apicalis as well as the recently discovered species, Tsitsikamma nguni and Tsitsikamma michaeli. Organic extracts of 43 sponges were analyzed, revealing distinct species-specific chemical profiles. More than 200 known and unknown putative pyrroloiminoquinones and related compounds were detected, including unprecedented makaluvamine-discorhabdin adducts and hydroxylated discorhabdin I derivatives. The chemical profiles of the new species T. nguni closely resembled those of the known T. favus (chemotype I), but with a higher abundance of tsitsikammamines vs. discorhabdins. T. michaeli sponges displayed two distinct chemical profiles, either producing mostly the same discorhabdins as T. favus (chemotype I) or non- or monobrominated, hydroxylated discorhabdins. C. bellae and L. apicalis produced similar pyrroloiminoquinone chemistry to one another, characterized by sulfur-containing discorhabdins and related adducts and oligomers. This study highlights the variability of pyrroloiminoquinone production by latrunculid species, identifies novel isolation targets, and offers fundamental insights into the collision-induced dissociation of pyrroloiminoquinones

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

Key Challenges in Advancing an Ecosystem-Based Approach to Marine Spatial Planning Under Economic Growth Imperatives

In 2017, South Africa became the first African country to draft Marine Spatial Planning (MSP) legislation. The underlying legal framework supports the achievement of ecological, social and economic objectives, but a national policy to fast track the oceans economy provides a challenge for ecosystem-based approaches to MSP. During the 2018 International Marine Conservation Congress, we convened a session to present particular challenges that will likely apply to any developing country seeking to increase profits from existing, or proposed, marine activities. Here we present six multi-disciplinary research projects that support ecosystem-based approaches to MSP in South Africa, by addressing the following knowledge gaps and specific key challenges: (1) the lack of data-derived measurements of ecosystem condition (and the need to validate commonly-used proxy measures); (2) the need to develop models to better understand the potential impacts of climate change on food webs and fisheries; (3) the slow implementation of an ecosystem approach to fisheries management, and the need to implement existing legal instruments that can support such an approach; (4) the paucity of evidence supporting dynamic ocean management strategies; (5) the requirement to manage conflicting objectives in growing marine tourism industries; and (6) the need to adopt systems thinking approaches to support integrated ocean management. We provide examples of specific research projects designed to address these challenges. The ultimate goal of this research is to advance a more integrated approach to ocean management in South Africa, using tools that can be applied in countries with similar socio-political and environmental contexts

Exploring South Africa’s southern frontier: A 20-year vision for polar research through the South African National Antarctic Programme

Antarctica, the sub-Antarctic islands and surrounding Southern Ocean are regarded as one of the planet’s last remaining wildernesses, ‘insulated from threat by [their] remoteness and protection under the Antarctic Treaty System’1 . Antarctica encompasses some of the coldest, windiest and driest habitats on earth. Within the Southern Ocean, sub-Antarctic islands are found between the Sub-Antarctic Front to the north and the Polar Front to the south. Lying in a transition zone between warmer subtropical and cooler Antarctic waters, these islands are important sentinels from which to study climate change.2 A growing body of evidence3,4 now suggests that climatically driven changes in the latitudinal boundaries of these two fronts define the islands’ short- and long-term atmospheric and oceanic circulation patterns. Consequently, sub-Antarctic islands and their associated terrestrial and marine ecosystems offer ideal natural laboratories for studying ecosystem response to change.5 For example, a recent study6 indicates that the shift in the geographical position of the oceanic fronts has disrupted inshore marine ecosystems, with a possible impact on top predators. Importantly, biotic responses are variable as indicated by different population trends of these top predators.7,8 When studied collectively, these variations in species’ demographic patterns point to complex spatial and temporal changes within the broader sub-Antarctic ecosystem, and invite further examination of the interplay between extrinsic and intrinsic drivers

Analysis of the African coelacanth genome sheds light on tetrapod evolution

It was a zoological sensation when a living specimen of the coelacanth was first discovered in 1938, as this lineage of lobe-finned fish was thought to have gone extinct 70 million years ago. The modern coelacanth looks remarkably similar to many of its ancient relatives, and its evolutionary proximity to our own fish ancestors provides a glimpse of the fish that first walked on land. Here we report the genome sequence of the African coelacanth, Latimeria chalumnae. Through a phylogenomic analysis, we conclude that the lungfish, and not the coelacanth, is the closest living relative of tetrapods. Coelacanth protein-coding genes are significantly more slowly evolving than those of tetrapods, unlike other genomic features . Analyses of changes in genes and regulatory elements during the vertebrate adaptation to land highlight genes involved in immunity, nitrogen excretion and the development of fins, tail, ear, eye, brain, and olfaction. Functional assays of enhancers involved in the fin-to-limb transition and in the emergence of extra-embryonic tissues demonstrate the importance of the coelacanth genome as a blueprint for understanding tetrapod evolution

Exploring South Africa's southern frontier : a 20-year vision for polar research through the South African National Antarctic Programme

Antarctica, the sub-Antarctic islands and surrounding Southern Ocean are regarded as one of the planet’s last remaining wildernesses, ‘insulated from threat by [their] remoteness and protection under the Antarctic Treaty System’. Antarctica encompasses some of the coldest, windiest and driest habitats on earth. Within the Southern Ocean, sub-Antarctic islands are found between the Sub-Antarctic Front to the north and the Polar Front to the south. Lying in a transition zone between warmer subtropical and cooler Antarctic waters, these islands are important sentinels from which to study climate change. A growing body of evidence now suggests that climatically driven changes in the latitudinal boundaries of these two fronts define the islands’ short- and long-term atmospheric and oceanic circulation patterns. Consequently, sub-Antarctic islands and their associated terrestrial and marine ecosystems offer ideal natural laboratories for studying ecosystem response to change. For example, a recent study indicates that the shift in the geographical position of the oceanic fronts has disrupted inshore marine ecosystems, with a possible impact on top predators. Importantly, biotic responses are variable as indicated by different population trends of these top predators. When studied collectively, these variations in species’ demographic patterns point to complex spatial and temporal changes within the broader sub-Antarctic ecosystem, and invite further examination of the interplay between extrinsic and intrinsic drivers.http://www.sajs.co.zaam2017GeneticsMammal Research InstituteZoology and Entomolog