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Species delimitation of nematode Meloidogyne species using COI marker


Citation :- Species delimitation of nematode Meloidogyne species using COI marker. Res. Crop. 25: 526-530
GAVIN GELDENHUYS gavin.geldenhuys@ul.ac.za
Address : Aquaculture Research Unit, School of Agricultural and Environmental Sciences, University of Limpopo, Private Bag X1106, Sovenga, 0727, South Africa
Submitted Date : 31-05-2024
Accepted Date : 6-08-2024

Abstract

New-generation molecular approaches and methods are currently being developed to accurately identify species and establish species boundaries. Various approaches to species delimitation are utilized to evaluate the species richness of poorly studied and highly diverse taxa. DNA barcoding has proven to be a powerful tool for species identification and delimitation. While DNA barcoding studies have been conducted in the family Heteroderidae, there has been a lack of research on species delimitation. Therefore, in 2024, a study was undertaken at the University of Limpopo to compare species delimitation analyses within the Meloidogyne genus based on the cytochrome c oxidase I (COI) region. In this study, ASAP species delimitation approaches were employed. A total of 73 sequences from South Africa were utilised (GenBank), representing four species (Meloidogyne sp, M. incognita, M. javanica, and M. enterolobii). The phylogenetic analyses grouped all the species into two major clades, with M. enterolobii being distinctly separate. In conclusion, the ASAP results showed no significant differences among the species. Therefore, the COI marker is not a suitable marker for Meloidogyne species.

Keywords

COI mtDNA Meloidogyne molecular markers phylogeny species delimitation

References

Aminisarteshnizi, M. (2022). Molecular characters of parasitic nematode (Hemicycliophora typica) associated with eggplant (Solanum melongena) using 28S rDNA from regions of South Africa. Res. Crop. 23: 449-52.  doi:10.31830/2348-7542.2022.060.
Carstens, B. C., Pelletier, T. A., Reid, N. M. and Satler, J. D. (2013). How to fail at species delimitation. Mol. Ecol. 22: 4369-83. doi:10.1111/mec.12413.
Hall, T. A. (1999). BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. url={https://api.semanticscholar.org/Corpus ID:82421255}.
Janssen, T., Karssen, G., Orlando, V., Subbotin, S. A. and Bert, W. (2017). Molecular characterization and species delimiting of plant-parasitic nematodes of the genus Pratylenchus from the penetrans group (Nematoda: Pratylenchidae). Mol. Phylogenetics Evol. 117: 30-48. doi:10.1016/j.ympev.2017.07.027.
Janssen, T., Karssen, G., Verhaeven, M., Coyne, D. and Bert, W. (2016). Mitochondrial coding genome analysis of tropical root-knot nematodes (Meloidogyne) supports haplotype-based diagnostics and reveals evidence of recent reticulate evolution. Sci. Rep. 6: doi:10.1038/srep22591.
Kumar, S., Stecher, G., Li, M., Knyaz, C. and Tamura, K. (2018). MEGA X: molecular evolutionary genetics analysis across computing platforms. Mol. Biol. Evol. 35: doi:10. 1093/molbev/msy096.
Perry, R., Moens, M. and Starr, J. L. (2009). Root-knot nematodes. CABI Digital Library, Ebook. pp. 488.
Powers, T., Harris, T., Higgins, R., Mullin, P. and Powers, K. (2018). Discovery and identification of Meloidogyne species using COI DNA barcoding. J. Nematol. 50: 399-412.  doi:10.21307/jofnem-2018-029.
Puillandre, N., Brouillet, S. and Achaz, G. (2021). ASAP: Assemble species by automatic partitioning. Mol. Ecol. Resour. 21: 609-20. doi:10.1111/1755-0998.13281.
Rambaut, A. (2017). FigTree v.1.4.4. Accessed 2020 Oct 25. http://tree.bio.ed.ac.uk/software/ figtree/.
Rannala, B. and Yang, Z. (2020). Species delimitation. Editors: Scornavacca, C. Delsuc, F. and Galtier, N. Book Licensed under Creative Commons License CC-BY-NC-ND 4.0, Phylogenetics in the Genomic Era. Chapter 5.5.
Shao, H., Zhang, P., You, C., Li, C., Feng, Y. and Xie, Z. (2020). Genetic diversity of the root-knot nematode Meloidogyne enterolobii in mulberry based on the mitochondrial COI gene. Ecol. Evol. 10: 5391-401. doi:10.1002/ece3.6282.
Shokoohi, E. (2023). First observation on morphological and molecular characters of Bitylenchus ventrosignatus (Tobar Jiménez, 1969) Siddiqi, 1986 isolated from tomato in Dalmada, South Africa. Biologia 78: 3599-07. doi:10.1007/s11756-023-01494-4.
Villesen, P. (2007). FaBox: An online toolbox for fasta sequences. Mol. Ecol. Resour. 7: 965–68. doi:10.1111/j.1471-8286.2007.01821.x.

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