First records of the fruit pest <i>Drosophila suzukii </i>(Matsumura, 1931) (Diptera: Drosophilidae) in South Africa

White-breasted cormorants Phalacrocorax [carbo] lucidus breed around South Africa's coast and at inland localities. Along the coasts of the Northern, Western and Eastern Cape provinces, numbers breeding were similar during the periods 1977–1981 (1 116 pairs at 41 localities) and 2008–2012 (1 280 pairs at 41 localities). Along the coast of KwaZulu-Natal (not counted in 1977–1981), 197 pairs bred at nine localities in 2008–2012, when the overall number breeding around South Africa's coastline was about 1 477 pairs. Between the two study periods, numbers decreased in the Northern and Western Cape provinces following the loss of several breeding localities, but they increased in the Eastern Cape. In the Western Cape, however, numbers were stable east of Cape Agulhas and at nine well-monitored West Coast localities that were surveyed from 1978 to 2012. White-breasted cormorants breed throughout the year, with breeding at some localities more seasonal than at others and the timing of peaks in breeding varying at and between localities. In the vicinity of Saldanha Bay/Langebaan Lagoon (Western Cape), in Algoa Bay (Eastern Cape) and in northern KwaZulu-Natal, it is likely that birds moved between breeding localities in different years, although breeding often occurred at the same locality over several years. Human disturbance, presence of predators, competition for breeding space and occurrence of breeding by other waterbirds may influence movements between colonies. Securing sufficient good habitat at which white-breasted cormorants may breed will be important for conservation of the species. The species may breed at an age of 4 years, possibly younger. The bulk of their diet around South Africa's coast consists of inshore marine and estuarine fish species that are not intensively exploited by humans.

SummaryThe exotic Tamarix chinensis and T. ramosissima, believed to have been introduced into South Africa in the early 1900s to control erosion on mine dumps, are invading riparian zones and have been proven to hybridise with T. usneoides, which is native to southern Africa. In this study, we document the abundance of invasive Tamarix genotypes in South Africa. Eleven riparian zones from the Northern, Eastern and Western Cape Provinces were surveyed. Three quadrats of 600 m2 each were selected per site. Plant density, canopy cover and tree height were recorded to quantify invasiveness. Leaf samples were randomly collected from an average of eight individuals per site to record genotypes of the invaders. Tamarix density and canopy cover were significantly greater than those of co‐occurring trees and shrubs in Olifants River in De Rust (Western Cape Province). A linear correlation between percentage Tamarix spp. cover and other co‐occurring tree and shrub species showed a strong negative relationship (R2 = 0.78). Genetic analysis showed that the Western and Eastern Cape Provinces have the highest proportion of the exotic Tamarix species and their hybrids. This suggests that these two provinces require urgent management intervention to contain the spread of the weed. The distinctions made between the native and the exotic Tamarix species and their hybrids should also facilitate the testing and future release of potential biological control agents.

Three species of Nassella have naturalized in South Africa. Nassella trichotoma and N. tenuissima are declared weeds under category 1b of the National Environmental Management: Biodiversity Act (NEM:BA) and occur mainly in the montane grasslands of the Western and Eastern Cape provinces. Nassella neesiana is not listed in NEM:BA but is naturalized in the Eastern Cape, Western Cape and Free State provinces. Research conducted in the 1970s and 1980s led to vigorous government-funded awareness and control campaigns which ended in 2000. No research on Nassella distribution or control has been undertaken since then. Despite this hiatus, Nassella remains a dangerous genus in southern Africa, given the serious impacts of these species in similar social-ecological systems in Australia and New Zealand. This paper presents a synthesis of available information about Nassella invasions in South Africa and identifies research gaps. It specifically addresses these questions: What identification issues exist? What is the current spatial distribution of Nassella? What is the autecology of the genus? What are the social-ecological impacts of Nassella? What control measures are currently applied and what are their strengths and limitations? What do we know about Nassella distribution and its response to climate change? This paper highlights many knowledge gaps about Nassella, such as the species’ current distribution range, field identification and detection difficulties, and the uncoordinated control efforts that require urgent research to inform an effective management response.

Molecular characterisation and epidemiology of enterovirus-associated aseptic meningitis in the Western and Eastern Cape Provinces, South Africa 2018-2019.

To determine the clinical profile and outcomes of health care workers (HCWs) with extensively drug resistant tuberculosis (XDR-TB) in the Eastern and Western Cape Provinces of South Africa. Retrospective case record review of 334 patients with XDR-TB reported during the period 1996-2008 from Western and Eastern Cape Province, Cape Town, South Africa. Case records of HCWs with XDR-TB were analysed for clinical and microbiological features, and treatment outcomes. From 334 case records of patients with XDR-TB, 10 HCWs were identified. Eight of ten were HIV-uninfected, and four of 10 had died of XDR-TB despite treatment. All 10 HCWs had received an average of 2.4 courses of TB treatment before being diagnosed as XDR-TB. In the Eastern and Western Cape provinces of South Africa XDR-TB affects HCWs, is diagnosed rather late, does not appear to be related to HIV status and carries a high mortality. There is an urgent need for the South African government to implement WHO infection control recommendations and make available rapid drug susceptibility testing for HCWs with suspected multidrug-resistant (MDR)/XDR-TB. Further studies to establish the actual risk and sources of infection (nosocomial or community) are required.

The number of African penguins Spheniscus demersus breeding in South Africa collapsed from about 56 000 pairs in 2001 to some 21 000 pairs in 2009, a loss of 35 000 pairs (>60%) in eight years. This reduced the global population to 26 000 pairs, when including Namibian breeders, and led to classification of the species as Endangered. In South Africa, penguins breed in two regions, the Western Cape and Algoa Bay (Eastern Cape), their breeding localities in these regions being separated by c. 600 km. Their main food is anchovy Engraulis encrasicolus and sardine Sardinops sagax, which are also the target of purse-seine fisheries. In Algoa Bay, numbers of African penguins halved from 21 000 pairs in 2001 to 10 000 pairs in 2003. In the Western Cape, numbers decreased from a mean of 35 000 pairs in 2001–2005 to 11 000 pairs in 2009. At Dassen Island, the annual survival rate of adult penguins decreased from 0.70 in 2002/2003 to 0.46 in 2006/2007; at Robben Island it decreased from 0.77 to 0.55 in the same period. In both the Western and Eastern Cape provinces, long-term trends in numbers of penguins breeding were significantly related to the combined biomass of anchovy and sardine off South Africa. However, recent decreases in the Western Cape were greater than expected given a continuing high abundance of anchovy. In this province, there was a south-east displacement of prey around 2000, which led to a mismatch in the distributions of prey and the western breeding localities of penguins.

Lycium ferocissimum Miers (Solanaceae) is an indigenous shrub in South Africa but has become invasive in several countries including Australia, where chemical and mechanical control methods have proved costly and unsustainable. In Australia, biological control is being considered as a management option, but the herbivorous insects associated with the plant in its native range are not well known. The aim of this study was to survey the phytophagous insects associated with L. ferocissimum in South Africa and prioritise promising biological control agents. In South Africa, the plant occurs in two geographically distinct areas, the Eastern and Western Cape provinces. Surveys for phytophagous insects on L. ferocissimum were carried out repeatedly over a two-year period in these two regions. The number of insect species found in the Eastern Cape Province (55) was higher than that in the Western Cape Province (41), but insect diversity based on Shannon indices was highest in the Western Cape Province. Indicator species analysis revealed eight insect herbivore species driving the differences in the herbivore communities between the two provinces. Based on insect distribution, abundance, feeding preference and available literature, three species were prioritised as potential biological control agents. These include the leaf-chewing beetles Cassida distinguenda Spaeth (Chrysomelidae) and Cleta eckloni Mulsant (Coccinellidae) and the leaf-mining weevil Neoplatygaster serietuberculata Gyllenhal (Curculionidae).

Research examining hormonal injectable contraceptive continuation has focused on clients' intentional discontinuation. Little attention, however, has been paid to unintentional discontinuation due to providers' management of clients who would like to continue use but arrive late for their scheduled reinjections. A cross-sectional survey of 1,042 continuing injectable clients at 10 public clinics was conducted in South Africa's Western and Eastern Cape provinces. Bivariate logistic regression analyses were used to identify associations between specific variables and the likelihood of receiving a reinjection, among clients who returned to clinics late but within the two-week grace period for reinjection. Of 626 continuing clients in the Western Cape, 29% were up to two weeks late and 25% were 2-12 weeks late for their scheduled reinjection; these proportions among 416 continuing clients in the Eastern Cape were 42% and 16%, respectively. Only 1% of continuing clients in the Western Cape who arrived during the two-week grace period did not receive a reinjection; however, 36% of similar clients in the Eastern Cape did not receive a reinjection. Among late clients in the Eastern Cape who did not receive a reinjection, 64% did not receive any other method. Few variables were significant in bivariate analyses; however, certain characteristics were associated with receiving reinjections among late clients in the Eastern Cape. It is common for clients to arrive late for reinjections in this setting. Providers should adhere to protocols for the reinjection grace period and have a contraceptive coverage plan for clients arriving past the grace period to reduce clients' risk of unintentional discontinuation and unintended pregnancy.

Honeybush (Cyclopia spp.) is an indigenous, leguminous member of the Cape fynbos biome growing in the coastal winter rainfall districts of the Western and Eastern Cape Provinces of South Africa (Joubert et al. 2011). Honeybush is used for the production of herbal teas and is harvested from wild-growing and cultivated plantations (du Toit et al. 1998). Very little is known regarding diseases caused by pathogens on this indigenous plant. Only one report of twig dieback on honeybush caused by several Diaporthe Nitschke species have been reported in South Africa (Smit et al. 2021). Several honeybush producers reported poor growth and dieback in their C. subternata plantations in the Western Cape Province, South Africa. Symptoms included twig dieback, branch dieback, death of branches as well as death of entire plants. In April 2008, branches from 8-year-old cultivated plants with dieback symptoms were collected in Stellenbosch. Fungal isolations were carried out from affected material as described by Van Niekerk et al. (2004) which consistently revealed the presence of a Botryosphaeriaceae species. Two isolates were grown on water agar with sterile pine needles and incubated at 25˚C using a 12-hour day/night cycle and near-ultraviolet light. Pycnidia formed after two weeks. Morphological characteristics similar to Neofusicoccum australe (Slippers, Crous & Wingfield) Crous, Slippers & Phillips were observed (Phillips et al. 2013). Conidia were hyaline, aseptate, fusiform with subtruncate bases (16.8-)18.8-22.1(-24.6) × (4.8-)5.3-6.1(-6.4) µm (n=50). Conidiogenous cells were holoblastic, hyaline and subcylindrical to flask-shaped tapering to the apex (11-15 × 2 µm) (n=10). Colonies on potato dextrose agar were light primrose turning olivaceous grey after 7 days with a light-yellow pigment diffusing into the medium. Mycelia was moderately dense with an appressed centre mat. The identity of the isolates was further confirmed by sequencing the ribosomal RNA Internal Transcribed Spacer (ITS) and the elongation factor 1-alpha (EF-1α) gene regions using primer pairs ITS4-ITS5 (White et al. 1990) and EF1-728F-EF1-986R (Alves et al. 2008), respectively. Sequences had a 100% similarity to N. australe ex-type CMW6837 isolate (accessions AY339262 and AY339270) (Slippers et al. 2004). Two isolates (STEU6554 and STEU6557) were deposited in the culture collection at the Department of Plant Pathology at Stellenbosch University and the sequences were submitted to GenBank with accession numbers ON745603, ON745604, ON746573 and ON746574. Pathogenicity tests using the two N. australe isolates were conducted by inoculating two shoots each of three field-grown C. subternata plants with a 4mm colonised potato dextrose agar (PDA) mycelium plug of each isolate on wounds made by a 4mm cork borer (Van Niekerk et al. 2004). A third shoot was inoculated with a uncolonized PDA plug as the negative control. After 12 weeks, brown-black lesions that were significantly longer (average 55.2 mm) than the uncolonized agar plug control (16.1 mm) were observed. Lesions were observed in all three plants. Neofusicoccum australe was re-isolated (van Niekerk et al. 2004) from all inoculated shoots confirming Koch's postulates. The economic impact and damages caused by N. australe as well as its incidence and severity on honeybush in South Africa is unknown. However, the pathogen caused dieback of entire branches and death of plants indicating that it could be an important pathogen of honeybush. Additionally, N. australe is one of the most important disease-causing Botryosphaeriaceae pathogens on a wide range of economical fruit and vine crops globally (Mojeremane et al. 2020). This is the first report of N. australe as a known pathogen causing decline and dieback of C. subternata in South Africa.

AimWe investigated the invasion history of Lycium ferocissimum, a spine‐covered shrub native to South Africa that was introduced to Australia in the mid‐1800s, and has since developed into a damaging invasive plant of undisturbed landscapes and pastures. In addition to identifying the provenance of the Australian plants, we tested for evidence of admixture, and contrasted genetic diversity and structuring across the native and introduced ranges.LocationSamples were collected across South Africa (24 localities) and Australia (26 localities).MethodsWe used genotyping‐by‐sequencing (3117 SNPs across 381 individuals) to assess population genetic structuring in L. ferocissimum across Australia and South Africa. Coalescent analyses were used to explicitly test contrasting invasion scenarios.ResultsClear geographic genetic structuring was detected across South Africa, with distinct clusters in the Eastern and Western Cape provinces. The L. ferocissimum plants in Australia form their own genetic cluster, with a similar level of genetic diversity as plants in South Africa. Coalescent analyses demonstrated that the lineage in Australia was formed by admixture between Eastern Cape and Western Cape plants, with most of the genetic material from the Australian lineage originating from the Western Cape. Our analyses suggest that L. ferocissimum plants were originally introduced to South Australia, though it is unclear whether admixture occurred before or after its introduction to Australia. We detected little evidence of geographic genetic structure across Australia, although many of the populations were genetically distinct from one another.Main ConclusionsOur results illustrate how admixture can result in genetically diverse and distinct invasive populations. The complex invasion history of L. ferocissimum in Australia poses particular challenges for biological control. We suggest potential biological control agents should be screened against admixed plants (in addition to plants from the Eastern and Western Cape) to test whether they provide effective control of the genetically distinct invasive lineage.

Limited studies have been undertaken with regard to virus complexes contributing to the aetiology of sweet potato virus disease (SPVD) in South Africa (SA). In this study, a metagenomic approach was adopted to reveal the genetic diversity of viruses infecting sweet potato. In order to undertake a comprehensive analysis of viral sequences, total RNA was isolated from 17 asymptomatic and symptomatic sweet potato plants that were collected from the Eastern (EC) and Western Cape (WC) provinces of SA. DNase-treated total RNA was depleted of ribosomal RNA (rRNA) and deep-sequenced using the Illumina MiSeq platform. Genomic DNA, isolated from the same plants, underwent rolling circle amplification (RCA) and deep sequencing. Sequence reads were analysed with the CLC Bio Genomics Workbench. Both de novo and reference-guided assemblies were performed resulting in four near full-length RNA virus genomes. BLAST searches using de novo assembled sequences against published virus genomes confirmed the presence of previously detected begomoviruses in the Western Cape (WC) province, namely Sweet potato mosaic virus (SPMaV) and Sweet potato leaf curl Sao Paulo virus (SPLCSPV). The begomoviruses were detected in mixed infections with two major disease-causing RNA viruses, Sweet potato feathery mottle virus (SPFMV) and Sweet potato chlorotic stunt virus (SPCSV). The sequence data further demonstrated mixed infections of RNA and DNA viruses from 11 of the 17 sequenced samples. Metagenomics is a reliable diagnostic tool for virus diversity detection, in particular virus-complexes and synergies affecting disease aetiology.

Genotyping of multidrug-resistant (MDR) Mycobacterium tuberculosis strains isolated from tuberculosis (TB) patients in four South African provinces (Western Cape, Eastern Cape, KwaZulu-Natal, and Gauteng) revealed a distinct population structure of the MDR strains in all four regions, despite the evidence of substantial human migration between these settings. In all analyzed provinces, a negative correlation between strain diversity and an increasing level of drug resistance (from MDR-TB to extensively drug-resistant TB [XDR-TB]) was observed. Strains predominating in XDR-TB in the Western and Eastern Cape and KwaZulu-Natal Provinces were strongly associated with harboring an inhA promoter mutation, potentially suggesting a role of these mutations in XDR-TB development in South Africa. Approximately 50% of XDR-TB cases detected in the Western Cape were due to strains probably originating from the Eastern Cape. This situation may illustrate how failure of efficient health care delivery in one setting can burden health clinics in other areas.

Cineraria lobata is a highly variable species centred in the Western and Eastern Cape Provinces, South Africa, with disjunct populations in Mpumalanga and Limpopo Provinces. Morphological variation was examined in order to delimit the species and to determine whether recognition at infraspecific levels was warranted. Plants from the Ngwenya Hills, Swaziland, similar to C. lobata in leaf shape and size, but with glabrous cypselae and a distinct type of trichome, are recognized as a distinct, but closely related species, C. ngwenyensis. Cluster Analysis and Principal Coordinates Analysis supported the recognition of four subspecies in C. lobata: from the Western Cape (ssp. lobata), Karoo (ssp. lasiocaulis), Soutpansberg (ssp. soutpansbergensis) and Eastern Cape (ssp. platyptera) regions. Five forms of C. lobata ssp. lobata from the Western Cape are also informally recognised.

Gang violence has been extensively highlighted as an issue of national concern in South Africa. Gangs also pose concerns about the social contexts of the communities in which they are found. The Western Cape and Eastern Cape provinces have had the most prolific occurrences of gangsterism. Here gangs have demonstrated unique characteristics that set them apart from gangs in other areas. This article examines the context of gangsterism in the selected provinces by means of a comparative analysis. The purpose is to provide some strategies for effective intervention. The discussion also interrogates how or why intervention efforts may have failed and what could be improved in order to strengthen the chances of success of future interventions in affected communities.

During August 1996, stripe (yellow) rust, caused by Puccinia striiformis f. sp. tritici, was observed for the first time on bread wheat (Triticum aestivum) in the Western Cape, South Africa. Ensuing surveys during the growing season indicated that stripe rust occurred throughout most of the wheat-producing areas in the winter rainfall regions of the Northern, Western, and Eastern Cape provinces. The disease was also observed on irrigated wheat in the summer rainfall area south of Kimberley. Stripe rust was most severe in the Western Cape, where prolonged cool and wet conditions favored epidemic development and necessitated extensive and often repeated applications of triazole fungicides. Due to spike infection and destruction of foliage, significant losses in grain quantity and quality occurred in certain fields. Avirulence/virulence characteristics of 32 stripe rust isolates, collected from commercial wheat fields, trap nurseries, and triticale, were determined on 17 standard differential wheat lines and seven supplementary testers supplied by C. R. Wellings, Plant Breeding Institute, Cobbitty, Australia. All isolates were representative of one pathotype, characterized by avirulence to Chinese 166 (Yr1), Vilmorin 23 (Yr3), Moro (Yr10), Strubes Dickkopf, Suwon 92/Omar, Clement (Yr2,9), Triticum aestivum subsp. spelta var. album (Yr5), Hybrid 46 (Yr4), Reichersberg 42 (Yr7), Heines Peko (Yr2,6), Nord Desprez (Yr3), Carstens V, Spaldings Prolific, Heines VII (Yr2), Federation*4/Kavkaz (Yr9), and Avocet-S/Yr15, and by virulence to Kalyansona (Yr2), Heines Kolben (Yr2,6), Lee (Yr7), Compair (Yr8), and Federation 1221. Cultivars Trident (Yr17), Avocet-R (YrA), and Selkirk (YrSk) appeared heterogeneous for stripe rust reaction. The pathotype resembled race 6E16, previously detected in East and North Africa, the Middle East, and western Asia. Pathotype identity was confirmed at IPO-DLO, Wageningen, using one South African isolate of P. striiformis f. sp. tritici. In view of the rapid dispersal of the pathogen during 1996, susceptibility of several high-yielding cultivars, and favorable climatic conditions in many wheat-growing areas, stripe rust is considered potentially damaging to South African wheat production. Field observations and seedling tests have shown, however, that certain cultivars are resistant to the introduced pathotype. At present the genetic basis of this resistance is largely unknown.