School of Animal, Plant and Environmental Sciences (Journal Articles)

Permanent URI for this collectionhttps://hdl.handle.net/10539/38026

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Start date: 2024

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    Draft genome sequence of the fungal pathogen Penicillium expansum (PPRI25879) isolated in South Africa
    (Elsevier, 2025-02) Chan, Wai Yin; Rauwane, Molemi; Figlan, Sandiswa; Ntushelo, Khayalethu
    Objectives: Penicillium expansum, a necrotrophic plant pathogen with a wide range of fruit hosts, is an important causal agent of blue mold rot. The fruit business suffers significant financial losses because of blue mold rot that occurs during fruit storage, transportation, and sale. The objective of this work was to generate a high-quality draft genome assembly of P. expansum, which will contribute to enhancing the management of blue mold, especially in stone and pome fruits, including grapes, by improving our understanding of the epidemiology of the pathogen and its interactions with the host. Data description: Here, we describe the genome sequence of Penicillium expansum isolate PPRI25879, one of the most virulent strains isolated from grapes in South Africa. Sequencing reads from P. expansum produced approximately 3.5 Gb. The assembly generated a draft genome of size 32.1 Mb, consisting of 1648 contigs, with an N50 of 508 KB. Examination of the genome completeness with Benchmarking Universal Single-Copy Orthologs (BUSCO) showed the draft genome carries 97.9% of the 746 genes in the Eurotiomycetes_odb10 database. The draft genome sequence will allow improved genomic comparisons among the most important pathogens belonging to the Penicillium genus, with the aim of improving our knowledge of their plant-pathogen interactions, population biology, and control.
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    Spatio-temporal trends in daily precipitation extremes over the Enkangala escarpment of South Africa: 1961–2021
    (Springer, 2025-02) Abubakar, Hadisu Bello; Scholes, Mary C.; Engelbrecht, Francois A.
    The Intergovernmental Panel on Climate Change in its Sixth Assessment Report reported that increases in extreme weather events can already be detected in every region in the world. For eastern southern Africa the report provides evidence of an increasing trend in extreme precipitation events, but more research is needed to understand how this change is manifesting over regions as diverse as South Africa’s eastern escarpment and northern Mozambique. This study evaluates the trends in extreme precipitation over the Enkangala Escarpment, part of South Africa’s eastern escarpment, over the period 1961 to 2021. Daily precipitation data covering 22 stations with fewer than 10% missing values over 61 years were obtained from the South African Weather Service. A total of twelve extreme events precipitation indices were computed using the ClimPACT2 package, and a time series trend analysis was performed using the Trend Free Whitening Mann Kendal test and a field significance test. The results indicate significant increasing trends in nine out of the twelve extreme events indices that were investigated. The three indices which have shown significant decreasing trends include Consecutive Wet days (CWD) at (0.03 day/year total annual rainfall (PRCPTOT) (0.61 mm/decade) and the annual count of days when precipitation≥10 mm (R10mm) of 0.32 days/decade. Indices such Rx1 days, Rx3 days and Rx5 days exhibited increasing trends of 0.2 days/decade each. Other indices with an increasing trend are CDD (3.6 day/decade), R20mm (0.2 days/decade) and R30mm (0.2 days/decade). The R95p (11.2 mm/decade) and R99p (6.0 mm/decade) indices, and Simple Daily Intensity Index(0.4 mm/decade) also exhibit positive trends over the study period. Overall the analysis is indicative of a change in the nature of rainfall over the Enkangala escarpment of South Africa, with annual rainfall totals, the number of consecutive wet days and the frequency of events with smaller thresholds such as 10 mm/day decreasing, but with extreme events of larger thresholds occurring more frequently. That is, when it rains, it tends to rain more intensely than in the past. The use of a field significance test was useful to formalise when relatively small but spatially homogeneous trends detected at separate weather stations yield statistical significance. The findings of the paper are relevant to decision and policy in multiple of socio-economic sectors active in South Africa’s eastern escarpment.
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    Confocal microscopy and molecular analyses reveal anal secretory apparatus in immatures and recover transcontinental Clade of Gall Mites (Eriophyoidea) from Tamarisks
    (MDPI, 2024-04) Sivu, Situngu; Chetverikov , Philipp E.; Ngubane-Ndhlovu, Nompumelelo P.; Elhalawan, Ashraf; Amrine, James
    Tamarisk is an invasive evergreen shrub native to arid regions of Africa and Eurasia and is considered a weed in some countries with dry climates. The complex of gall mites from tamarisks includes fourteen species from four genera of the family Eriophyidae. We reinvestigated the type species of the genus Dicruvasates, D. tamaricis from Egypt, described D. ngubani n. sp. from Tamarix usneoides from South Africa, and revised the generic concept of Dicruvasates. This genus possesses cuticular plates marking longitudinal opisthosomal ridges typical of various phyllocoptine genera, e.g., Echinacrus. We sequenced three genes of Dicruvasates and Phyllocoptes mites from Tamarix and Echinacrus from Frangula, combined our sequences with the data from GenBank, and performed single-gene phylogenetic analyses. All analyses inferred the following: (1) a transcontinental clade Tam comprising Dicruvasates + Aceria + Phyllocoptes from Tamarix; (2) Echinacrus distantly related to Dicruvasates, suggesting the homoplastic nature of the cuticular plates on the opisthosomal ridges, and (3) polyphyly of the genera Aceria and Phyllocoptes. We also investigated partially cleared specimens of Dicruvasates under CLSM and, for the first time, visualized a well-developed anal secretory apparatus (ASA) in the immatures of gall mites, which was previously shown to be a specialized system evolved in Eriophyoidea for silk production. We hypothesize that the ASA contributes to finding nymphs by conspecific males and advocate for the importance of the future molecular biology studies of gall mite silk for developing new methods for controlling mites based on the knowledge of their ecology, behavior, and silk gene genetics.