Phylogenetic position of Pratylenchus sp. (Nematoda: Pratylenchidae) associated with grasslands using 28S rDNA from South Africa

Abstract

 Plant-parasitic nematodes are the main nematodes that live in the soil, causing yield loss in various crops. As endoparasites, Pratylenchus species can reduce the yield of grass and other plants by feeding on their roots. Because of its parasitic nature on plants, this species requires careful identification; in South Africa's Limpopo Province, grasslands are among the most vital agricultural resources. Therefore, this molecular study was conducted in 2023 at Limpopo University to identify the nematode from South Africa's soils using 28S rDNA marker. The recovered nematode was extracted using the tray method, and then its DNA was extracted using the chelex method. The nematode was identified as Pratylenchus. Afterward, 28S rDNA was amplified using specific primers to identify the nematode at the molecular level. The Nblast analysis based on the large subunit ribosomal DNA showed South African Pratylenchus had 99% similarity (OQ343703) with the South African population. Phylogenetic analysis using maximum likelihood placed this species with those molecularly identified as Pratylenchus in the same clade with highly supported (100) bootstrap values. In conclusion, this species was identified using 28S rDNA; however, other rDNA markers, such as ITS rDNA and mtDNA is recommended for a better understanding of Pratylenchus phylogeny.