Development of ten species-specific primers for sustainable management of Pterygota macrocarpa K.Schum in Nigeria using MatK and RuBisCo genes
Vol 7, Issue 2, 2024
Abstract
In Nigeria, deforestation has led to an unimaginable loss of genetic variation within tree populations. Regrettably, little is known about the genetic variation of many important indigenous timber species in Nigeria. More so, the specific tools to evaluate the genetic diversity of these timber species are scarce. Therefore, this study developed species-specific markers for Pterygota macrocarpa using state-of-the-art equipment. Leaf samples were collected from Akure Forest Reserve, Ondo State, Nigeria. DNA isolation, quantification, PCR amplification, gel electrophoresis, post-PCR purification, and sequencing were done following a standardized protocol. The melting temperatures (TM) of the DNA fragments range from 57.5 ℃to 60.1 ℃ for primers developed from the MatK gene and 58.7 ℃ to 60.5 ℃ for primers developed from the RuBisCo gene. The characteristics of the ten primers developed are within the range appropriate for genetic diversity assessment. These species-specific primers are therefore recommended for population evaluation of Pterygota macrocarpa in Nigeria.
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1. Lawal A, Adekunle VAJ, Oghenekome UO. Molecular Characterization of the Genus Khaya in South West Nigeria using CPSSR Markers. Nigerian Journal of Genetics. 2023; 37(1): 87–98.
2. FAO. Global Forest Resources Assessment 2020: Main report. FAO; 2020.
3. Lawal A, Ariyo RO. Edge-Interior Disparities in Tree Species Diversity and Soil Physicochemical Properties in a Nigerian Strict Nature Reserve. Journal of Research in Forestry, Wildlife & Environment. 2023; 15(2): 268–280.
4. Lawal A, Adeyemi OA, Jimoh B. Does forest cover type affect the regeneration potential of tree species? A case study of Triplochiton scleroxylon in Akure forest reserve. Journal of Research in Forestry, Wildlife & Environment. 2024; 16(1): 62–67.
5. Barnes AD, Scherber C, Brose U, et al. Biodiversity enhances the multitrophic control of arthro pod herbivory. Sci. Adv. 2020; 6(45).
6. Lawal A, Adekunle VAJ,Onokpise OU. Phytotherapy and Polycyclic Logging: Implication on Genetic Multiplicity and Diversity of African Mahogany in Tropical Rainforest. Not. Sci. Biol. 2019; 11(1):21–25.
7. Borokini TI. A Systematic Compilation of IUCN Red-listed Threatened Plant Species in Nigeria. International Journal of Environmental Sciences Vol. 2014; 3: 104–133.
8. Ismail M, Ahmad A, Nadeem M, et al. Development of DNA barcodes for selected Acacia species by using rbcL and matK DNA markers. Saudi. J. Biol. Sci. 2020; 27(12): 3735–3742. doi: 10.1016/j.sjbs.2020.08.020
9. Utama MN, Etikawati NS, Susilowati A. New specific primer matK and rbcL region for DNA barcode pitcher plant Nepenthes spathulata. Biodiversitas. 2024; 25: 2515–2523.
10. Batta H, Ashong CA, Bashir AS. Press Coverage of Climate Change Issues in Nigeria and Implications for Public Participation Opportunities. J. Sustain. Develop. 2013; 6(2): 56–62.
11. Curtis PG, Slay CM, Harris NL, et al. Classifying drivers of global forest loss. For. Ecol. 2018; 1111: 108–1111.
12. Doyle JJ, Doyle JL. Isolation of plant DNA from fresh tissue. Focus. 1990; 12: 13–15.
13. Koko AF, Yue W, Abubakar GA, et al. Monitoring and Predicting Spatio-Temporal Land Use/Land Cover Changes in Zaria City, Nigeria, through an Integrated Cellular Automata and Markov Chain Model (CA-Markov). Sustainability. 2020; 12: 10452–10473.
14. Debnath M, Islam N, Gayen SK, et al. Prediction spatiotemporal (2030 and 2050) land-use and land-cover changes in Koch Bihar urban agglomeration (West Bengal), India, using artificial neural network-based Markov chain model. Modeling Earth Systems and Environment. 2023; 1–22.
15. Amaechi CF, Ugwu VC, Okoduwa AK. Geospatial Assessment of Land Use/Land Cover of the Federal Capital Territory: A Case Study for the year 2050. Ethiopian Journal of Environmental Studies and Management. 2024; 17(1): 95–109.
16. Antil S, Abraham JS, Sripoorna S, et al. DNA barcoding, an effective tool for species identification: A review. Mol. Biol. Rep. 2023; 50(1): 761–775.
17. Duan W, Fan G, Wang L, et al. Genetic diversity and population structure of Magnolia officinalis subsp. biloba revealed by EST-SSR markers. Journal of Genetics. 2014; 93(2): 467–471.
18. Ahmed SS. DNA barcoding in plants and animals: A critical review. Plant Sciences. 2022. doi: 10.20944/preprints202201.0310.v1
19. Chac LD, Thinh BB. Species identification through DNA barcoding and its applications: A review. Biol. Bull. 2023; 50(6): 1143–1156. doi: 10.1134/S106235902360229X
20. Lawal A, Sale FA, Arogundade JC. Characterization of MatK and RuBisCo Genes within the Population of Chrysophyllum albidum (G. Don) in Akure Forest Reserve, Ondo State, Nigeria. Biological and Environmental Sciences Journal for the Tropics. 2024; 21(1): 178–188.
21. Alexandrov OS, Karlov GI. The Development of New Species-Specific Molecular Markers Based on 5S rDNA in Elaeagnus L. Species. Plants. 2021; 10: 2–10.
22. Devi T, Prabhakaran N, Kamil D. Development of species specific markers for the identification of Trichoderma asperellum and Trichoderma harzianum. Vegetos. 2017; 30: 94–100.
23. Pierce KE, Wangh LJ. Effect of mismatches on the fluorescent signature of a DNA probe. Biophysical Journal. 2007; 93(2): 546–554.
24. Kumar P, Chatli MK, Mehta N, et al. Meat analogues: Health promising sustainable meat substitutes. Crit. Rev. Food Sci.Nutr. 2017; 57: 923–932.
25. Delghandi M, Delghandi MP, Goddard S. The significance of PCR primer design in genetic diversity studies: Exemplified by recent research into the genetic structure of marine species. Methods Mol. Biol. 2022; 2392: 3–15.
DOI: https://doi.org/10.24294/sf10776
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