Coral reefs are amongst the most biodiverse ecosystems on earth, but are significantly impacted by agricultural runoff. Despite herbicides being commonly detected in coastal waters, the possibility of herbicide accumulation in coral reef species has largely been overlooked. We investigate the accumulation of several herbicides in five species of coral reef invertebrates collected from ten sites along the Maputaland coast, South Africa. Multiple herbicide residues were detected in 95% of the samples, with total average concentrations across sites ranging between 25.2 ng g⁻¹ to 51.3 ng g⁻¹ dw. Acetochlor, alachlor and hexazinone were the predominant herbicides detected at all sites, with atrazine and simazine detected less frequently. Significant interactive effects were detected between sites nested in reef complex crossed with species, based on multiple and total herbicide concentrations. In general, multivariate herbicide concentrations varied significantly between species within and across most sites. Contrastingly, the concentrations of the different herbicides and that of total herbicide did not differ between conspecifics at most sites nested in their respective reef complexes. On average, highest total herbicide concentrations were measured in soft coral (Sarcophyton glaucum; 90.4 ± 60 ng g⁻¹ and Sinularia gravis; 42.7 ± 25 ng g⁻¹) and sponge (Theonela swinhoei; 39.0 ± 40 ng g⁻¹) species, while significantly lower concentrations were detected in hard corals (Echinopora hirsutissima; 10.5 ± 5.9 ng g⁻¹ and Acropora austera; 5.20 ± 4.5 ng g⁻¹) at most sites. Agricultural runoff entering the ocean via the uMfolozi-St Lucia Estuary and Maputo Bay are likely sources of herbicide contamination to coral reefs in the region. There is an urgent need to assess the long-term effects of herbicide exposure on coral reef communities.

Beaches are key attractions for tourism and recreation, and considerable effort is made to keep beaches clean, yet many beaches still have substantial litter loads. Lasting solutions to reduce the amounts of marine litter require an understanding of litter sources. We collected bottles and other single-use containers at 32 sites around the South African coast to infer their sources based on their age and country of manufacture. Bottle densities varied greatly among beaches (8–450 bottles·km⁻¹), depending on proximity to local urban centres and beach cleaning frequency. Most bottles were plastic, despite well-developed recycling initiatives for PET and HDPE bottles in South Africa. Street litter was dominated by bottles made in South Africa (99%), but foreign-manufactured bottles comprised up to 74% of bottles at some beaches, with an increase from urban (4%) through semi-urban (24%) to remote beaches (45%). Most foreign bottles were PET drink bottles from China and other Asian countries, followed by South America and Europe, with little regional variation in the contribution from these sources. This fact, coupled with their recent manufacture dates (mainly <2 years old), indicates that most foreign PET drink bottles are dumped illegally from ships. By comparison, foreign HDPE bottles were more common along the southeast coast of South Africa than along the west coast, consistent with many of these bottles arriving by long-distance drift across the Indian Ocean from southeast Asia. The most common country of origin for these bottles was Indonesia, and most newly-arrived HDPE bottles were 4–6 years old. To tackle beach litter in South Africa we need to greatly reduce plastic leakage from land-based sources, both locally and in southeast Asia, as well as improve measures to prevent the illegal dumping of plastics and other persistent wastes from ships.

South Africa is the largest agrochemical user in sub-Saharan Africa, with over 3000 registered pesticide products. Although they reduce crop losses, these chemicals reach non-target aquatic environments via leaching, spray drift or run-off. In this review, attention is paid to legacy and current-use pesticides reported in literature for the freshwater environment of South Africa and to the extent these are linked to endocrine disruption. Although banned, residues of many legacy organochlorine pesticides (endosulfan and dichlorodiphenyltrichloroethane (DDT)) are still detected in South African watercourses and wildlife. Several current-use pesticides (triazine herbicides, glyphosate-based herbicides, 2,4-dichlorophenoxyacetic acid (2,4-D) and chlorpyrifos) have also been reported. Agrochemicals can interfere with normal hormone function of non-target organism leading to various endocrine disrupting (ED) effects: intersex, reduced spermatogenesis, asymmetric urogenital papillae, testicular lesions and infertile eggs. Although studies investigating the occurrence of agrochemicals and/or ED effects in freshwater aquatic environments in South Africa have increased, few studies determined both the levels of agricultural pesticides present and associated ED effects. The majority of studies conducted are either laboratory-based employing in vitro or in vivo bioassays to determine ED effects of agrochemicals or studies that investigate environmental concentrations of pesticides. However, a combined approach of bioassays and chemical screening will provide a more comprehensive overview of agrochemical pollution of water systems in South Africa and the risks associated with long-term chronic exposure.

Mining activities in the world's largest platinum mining area in South Africa have resulted in environmental contamination with Pt (e.g., the Hex River's vicinity). The present study compared a Pt mining area with a non-mining area along this river in terms of (1) metal concentrations in different grain size fractions from soils and aquatic sediments; (2) the toxicological potential of aquatic sediments based on the Consensus-Based Sediment Quality Guideline (CBSQG); and (3) the chronic toxicity of aqueous eluates from soils and sediments to Caenorhabditis elegans. Platinum concentrations were higher in the mining area than in the non-mining area. For most metals, the sediment silt and clay fraction contained the highest metal concentrations. Based on the CBSQG, most sampling sites exhibited a high toxicological potential, driven by Cr and Ni. Eluate toxicity testing revealed that C. elegans growth, fertility, and reproduction inhibition were not dependent on mining activities or the CBSQG predictions. Toxicity was instead likely due to Cd, Fe, Mn, Ni, Pt, and Pb. In conclusion, the investigated region is loaded with a high geogenic background resulting in high reproduction inhibition. The mining activities lead to additional environmental metal contamination (particularly Pt), contributing to environmental soil and sediment toxicity.

Antibiotic resistance is known to impact treatment efficiency of Plesiomonas infections negatively with fatal outcomes. This study investigated antibiogram fingerprint of P. shigelloides (n = 182) isolated from three South Africa rivers using the disc diffusion technique. Environmental pollution and analogous health risk (given infections) that could associate with the freshwaters and empirical treatment of Plesiomonas were assessed using Antibiotic Resistance Index (ARI) and Multiple Antibiotic Resistance Indices (MARI), respectively. Thirteen EUCAST recommended (ERAs) and eleven non-recommended antibiotics (NAs) used as first line agents in the treatment of gastroenteritis and extraintestinal infections were tested. Resistance against ERAs decreased from cefoxitin (37.91%), cefuroxime (35.17%), cefepime (31.87%), ceftriaxone (29.67%), ciprofloxacin (18.13%), trimethoprim-sulfamethoxazole (10.44%), piperacillin/tazobactam (8.79%), ertapenem (4.95%), norfloxacin (4.40%), levofloxacin (2.75%), meropenem (1.10%) to imipenem (0.55%). The isolates had higher resistance (≥36.07%) against NAs but were susceptible to amikacin (67.58%), gentamycin (73.08%), and tetracycline (80.77%). MARI of the isolates were significantly different between ERAs and NAs (P-value < 0.05) and had an average of 0.17 ± 0.18 and 0.45 ± 0.13, respectively. About 33.87% and 95.63% of the isolates had MARI value from 0.23 to 0.62 and 0.27–0.82 to ERAs and NAs, respectively. Also, ERAs-based and NAs-based ARI across sampling units showed significantly different (P-value < 0.05) means of 0.18 ± 0.09 and 0.46 ± 0.05, respectively. MARI attributed low risk of empirical treatment to recommended antibiotics but higher risk to non-recommended antibiotics. Model estimated successful and unsuccessful empirical treatment of infections risks due to resistance in the isolates using recommended antibiotics as 65.93% and 34.07%, respectively; 1.65% and 98.35% in the case of non-recommended antibiotics, respectively. ARI based on recommended antibiotics identified potential environmental pollutions in a number of sites. Resistance in freshwater P. shigelloides especially against cephalosporin, quinolones and fluoroquinolones is distressing and might suggests high pollution of the freshwaters in the Eastern Cape Province.

Evidence is accumulating about the impacts of plastics on marine life. The prevalence of plastics in seabird nests has been used as an indicator of levels of this pollutant in the ocean. However, the lack of a framework for defining sample sizes and errors associated with estimating the prevalence of plastic in nests prevents researchers from optimising time and reducing impacts of fieldwork. We present a method to determine the confidence intervals for the prevalence of debris in seabird nests and provide, for the first time, information on the prevalence of these items in nests of the Hartlaub’s gull Larus hartlaubii, the African penguin Spheniscus demersus, the great white pelican Pelecanus onocrotalus, and the white-breasted cormorant Phalacrocorax lucidus in South Africa. The method, based on observations and resampling simulations and tested here for nests of 12 seabird species from 15 locations worldwide, allows for straightforward hypothesis testing. Appropriate sample sizes can be defined by combining this method with a Bayesian approach. We show that precise estimates of prevalence of debris in nests can be obtained by sampling around 250 nests. Smaller sample sizes can be useful for obtaining rough estimates. For the Hartlaub’s gull, the African penguin, the great white pelican, and the white-breasted cormorant, debris were present in 0.75%, 3.00%, 6.41%, and 25.62% of the respective nests. Our approach will help researchers to determine errors associated with the prevalence of debris recorded in seabird nests and to optimise time and costs spent collecting data. It can also be applied to estimate confidence intervals and define sample sizes for assessing prevalence of plastic ingestion by any organism.

Ingestion of anthropogenic litter has been well documented in marine vertebrates, but comparatively little is known about marine invertebrates. We report macrolitter ingestion by the sandy anemone Bunodactis reynaudi at Muizenberg beach in False Bay, South Africa. Monthly surveys from May 2015 to August 2019 collected 491 ingested litter items (9.4 ± 14.9 items·month⁻¹, 39.8 ± 71.5 g·month⁻¹), of which >99% were plastic. The number of ingested items was correlated with the abundance of stranded items and ingestion peaked in autumn when seasonal rains washed more litter into the bay. Most ingested litter was clear (39%), white (16%) and black/purple (15%). Comparison with environmental litter showed selection for flexible plastics, particularly bags/packets and food packaging. Experimental feeding trials found that B. reynaudi selected for pieces of HDPE bag suspended in seawater for 2–20 days, suggesting that biofilms enhance the palatability of flexible plastics. Studies are needed to assess the possible impacts of plastic ingestion on B. reynaudi. While only a small proportion of the population currently ingest litter, ingestion might become more common if environmental litter loads increase. This might negatively affect the anemone’s ability to respond to other environmental changes such as increasing levels of heavy metal pollution.

The microplastic particles with 29 pyrolyzate compounds of marine water samples from the seashore locations in Cape Town, South Africa were analysed using Pyrolysis- GC-TOF-MS. The mass spectra data documented the presence of various chemical groups that include alkanes, alkenes, dienes, fatty acids and esters, biphenyl and benzene (along with derivatives). Out of 16 identified polymers in the study area, polythene (PE) was the dominant in six out of seven locations with 87.5% followed by polyethylene terephthalate (PET) and polyvinylchloride (PVC) in five (71.4%) and four (57.1%) out of seven locations respectively. The other constituent polymers of microplastics identified through pyrolyzates were polystyrene (PS), polyamide 12 (PA-12) polyacrylic acid (PAA) and ethyl vinyl acetate (EVA) copolymer. The microplastic samples contained six additives predominantly in the family of fatty acid esters and nine plasticizers from alcohols, carboxylic esters and acids. The base peaks of m/z 41, 43, 55, 57, 69, 73, 91, 102, 105, 127 and 154 were characterized respectively with the fragmented species of C₃H₅⁺, C₃H₇⁺, C₄H₇⁺, C₄H₉⁺, C₅H₉⁺, C₃H₅O₂⁺, C₇H₇⁺, C₃H₁₀O₂⁺(McLafferty ion), C₈H₉⁺, C₈H₁₅O⁺ and C₁₂H₁₀⁺. Accordingly to Globally Harmonized System (GHS) of hazard classification, about 27.4% of pyrolyzates are Irritants, 31.4% of pyrolyzates found to be Irritants along with other hazards such as Flammable, Compressed Gas, Environmental Hazard, Corrosive, Health Hazard, Acute Toxicity and Allergy. About 41.2% of the pyrolyzates are not classified under the Irritant category. Characterizations of the plastic microparticles from the seven seashore locations such as FTIR, SEM with EDX and TGA were also done and discussed to understand the functional groups, surface morphology with elemental composition and stability respectively of the polymeric microparticles.

The individual effects of biological constituents of particulate matter (PM) such as fungal spores, on lung function in children are not well known. This study investigated the seasonal short-term effect of daily variation in Alternaria and Cladosporium fungal spores on lung function in schoolchildren.This panel study evaluated 313 schoolchildren in informal settlements of the Western Cape of South Africa, exposed to spores of two commonly encountered fungi, Alternaria and Cladosporium species. The children provided forced-expiratory volume in 1-s (FEV₁) and peak-expiratory flow (PEF) measurements thrice daily for two consecutive school-weeks in summer and winter. Daily PM₁₀ levels, from a stationary ambient air quality monitor and fungal spore levels using spore traps were measured in each study area throughout the year. The effects of Alternaria and Cladosporium spores, on lung function were analysed for lag periods up to five-days, adjusting-for PM₁₀, other pollen exposures, study area, and other host and meteorological factors. Same-day exposure-response curves were computed for both fungal species.There was more variability in Alternaria spores level with noticeable peaks in summer. There were consistent lag-effects for Alternaria on PEF compared to Cladosporium, with the largest PEF deficit observed in winter (mean deficit: 13.78 L/min, 95%CI: 24.34 to −3.23 L/min) per 10spores/m³ increase in Alternaria spores on lag day-2. Although there were no observable lag-effects for Alternaria and Cladosporium on FEV₁, same-day effects of Cladosporium spores on FEV₁ was present across both seasons. Threshold effects of Alternaria on both PEF and FEV₁ deficits were apparent at levels of 100 spores/m³, but could not be explored for Cladosporium beyond the levels observed during the study.The study provides evidence for the independent effects of daily exposure to ambient fungal spores of Alternaria and Cladosporium on lung function deficits, more especially in winter for PEF.