A PHYLOGENETIC ANALYSIS OF THE RBCL GENE SEQUENCE OF THE PLANT GENUS AEGOPODIUM L.

Authors

  • E. Kyrbassova Kazakh National Women’s Teacher Training University, 114/1 Gogol st., Almaty, Kazakhstan
  • А.А. Sartayeva Kazakh National Women’s Teacher Training University, 114/1 Gogol st., Almaty, Kazakhstan
  • М. Parmanbekova Kazakh National Women’s Teacher Training University, 114/1 Gogol st., Almaty, Kazakhstan
  • E.М. Imanova Kazakh National Women’s Teacher Training University, 114/1 Gogol st., Almaty, Kazakhstan
  • G.I. Yernazarova al-Farabi Kazakh National University, Kazakhstan, Almaty

DOI:

https://doi.org/10.26577/eb.2023.v97.i4.08

Keywords:

rbcL, Aegopodium L., Aegopodiumalpestre Ledeb., isolation DNA, phylogenetic analysis

Abstract

For many diseases, medicinal plants have been used in treatment since ancient times. The relevance of research on medicinal plants is growing day by day. This is due to the fact that the effect of medicinal plants is higher and the effect of chemical drugs is stronger. Currently, there are numerious studies on the effects of medicinal plants and it is proven that they act more sparingly than chemical drugs. In this regard, genetic taxonomic determination will be more effective than morphological identification of medicinal plants. Thanks to the bioinformatics, it is increasingly possible to identify genes isolated from plants, align them with genes in a database, and perform phylogenetic analysis. In our work, DNA was isolated from the leaves of Aegopodium alpestre Ledeb., and the rbcL gene was sequenced, then a phylogenetic analysis was carried out to determine the relationship with Aegopodium L., as well as with representatives of the Umbelliferae family. The study showed that the plant Aegopodium alpestre Ledeb. according to the sequences of the rbcL gene, it is closer to the genus Aegopodium L, in contrast to other representatives of the Apiaceae family. However, between them were not found strong similarities.

References

Abdel-Latif, A., Osman, G. Comparison of three genomic DNA extraction methods to obtain high DNA quality from maize. Plant Methods 13, 1 (2017). https://doi.org/10.1186/s13007-016-0152-4

«Aegopodium L.» Plants of the World Online. Royal Botanic Gardens, Kew. Retrieved 2022-12-16.

AlmiraZada, Puspasri S. Susanto, Raden L7 Putri, et al. DNA-FFPE isolation methods and performances of PCR kits// Cell MolBiol (Noisy le Grand) 2018, Volume 64, Issue 13

Andreas Kolter and Birgit Gemeinholzer. 2021. Plant DNA barcoding necessitates marker-specific efforts to establish more comprehensive reference databases. Genome. 64(3): 265-298. https://doi.org/10.1139/gen-2019-0198

Arslan M, Tezcan, Camcı H, Avcı MK. Effect of DNA Concentration on Band Intensity and Resolution in AgaroseGel Electrophoresis. Van Sag BilDerg 2021, 14, (3) 326-333. https://dergipark.org.tr/en/download/article-file/1874337

CBOL Plant Working Group. 2009. A DNA barcode for land plants. PNAS106(31): 12794-12797.DOI: 10.1073/pnas.0905845106

Che J, Chen H-M, Yang J-X, Jin J-Q, Jiang K, Yuan Z-Y, Murphy R W and Zhang Y-P 2012 Universal COI primers for DNA barcoding amphibians: UNIVERSAL COI PRIMERS FOR DNA BARCODING AMPHIBIANS Molecular Ecology Resources 12 247–58.

de Boer H, Rydmark MO, Verstraete B, Gravendeel B (2022) Molecular identification of plants: from sequence to species. Advanced Books. https://doi.org/10.3897/ab.e98875

Geary, J. and Bubela, T., 2019. Governance of a global genetic resource commons for non-commercial research: A case-study of the DNA barcode commons. The Commons Journal, 13(1), p.205-243.DOI: https://doi.org/10.18352/ijc.859

Gupta N. DNA Extraction and Polymerase Chain Reaction. J Cytol. 2019 Apr-Jun;36(2):116-117. doi: 10.4103/JOC.JOC_110_18. PMID: 30992648; PMCID: PMC6425773.

Grudzinskaya L.M., Gemedzhieva N.G., Nelina N.V., Karzhaubekova ZH.ZH.Annotated list of medicinal plants of Kazakhstan. – Almaty, 2014. – 200 p.

Gutteridge A and Burns M 2013 The Application of DNA Molecular Approaches for the Identification of Herbal Medicinal Products Journal of the Association of Public Analysts

Huang X.C., Ci X.Q., Conran J.G., Li J. Application of DNA barcodes in Asian tropical trees—A case study from xishuangbanna nature reserve, Southwest China. PLoSОNE. 2015;10:e0129295. doi: 10.1371/journal.pone.0129295.

Jianli Wang et al. Screening of universal DNA barcodes for identifying grass species of Gramineae// Front. Plant Sci., 2022 Sec. Plant Bioinformatics. Volum 13https://www.frontiersin.org/articles/10.3389/fpls.2022.998863/full

Kang, Y., Deng, Z., Zang, R. et al. DNA barcoding analysis and phylogenetic relationships of tree species in tropical cloud forests. Sci Rep 7, 12564 (2017). https://doi.org/10.1038/s41598-017-13057-0

Liu J, Shi L, Han J, Li G, Lu H, Hou J, Zhou X, Meng F, Downie SR. Identification of species in the angiosperm family Apiaceae using DNA barcodes. MolEcolResour. 2014 Nov;14(6):1231-8. doi: 10.1111/1755-0998.12262. Epub 2014 May 14. PMID: 24739357.

Mahima K, Sunil Kumar KN, Rakhesh KV, Rajeswaran PS, Sharma A, Sathishkumar R. Advancements and future prospective of DNA barcodes in the herbal drug industry. Front Pharmacol. 2022 Oct 21;13:947512. doi: 10.3389/fphar.2022.947512. PMID: 36339543; PMCID: PMC9635000.

Manhart JR. Phylogenetic analysis of green plant rbcL sequences. Mol Phylogenet Evol. 1994 Jun;3(2):114-27. doi: 10.1006/mpev.1994.1014. PMID: 8075831.

Marghali S, Zitouna N, Gharbi M, Fadhlaoui I, Trifi-Farah N. Evolution of rbcL among Lathyrus and Kupicha's classification. Genet Mol Res. 2014 Oct 27;13(4):8729-39. doi: 10.4238/2014.October.27.14. PMID: 25366764.

Nigmatullina N.V., Kuluev A.R., Kuluev B.R.Molecular markers used to determine the genetic diversity and video identification of wild plants// Biomika, 2018. – Vol. 10, No. 3. – pp. 290-318.

Samuel Kwawukume, Frank J. Velez, David Williams, Leqi Cui, Prashant Singh, Rapid PCR-lateral flow assay for the onsite detection of Atlantic white shrimp, Food Chemistry: Molecular Sciences,Volume 6,2023, 100164, ISSN 2666-5662,https://doi.org/10.1016/j.fochms.2023.100164.

Savolainen V, Chase MW, Hoot SB, Morton CM, Soltis DE, Bayer C, Fay MF, de Bruijn AY, Sullivan S, Qiu YL. Phylogenetics of flowering plants based on combined analysis of plastid atpB and rbcL gene sequences. Syst Biol. 2000 Jun;49(2):306-62. doi: 10.1093/sysbio/49.2.306. PMID: 12118410.

Schenk JJ, Becklund LE, Carey SJ, Fabre PP. What is the "modified" CTAB protocol? Characterizing modifications to the CTAB DNA extraction protocol. Appl Plant Sci. 2023 Jun 2;11(3):e11517. doi: 10.1002/aps3.11517. PMID: 37342162; PMCID: PMC10278931.

StevanusPharmawati M. 2021. Biodiversity and phylogenetic analyses using DNA barcoding rbcL gene of seagrass from Sekotong, West Lombok,Indonesia. Biodiversitas, Volum 22, /1, P: 50-57

W.John Kress. Plant DNA baecodes: Applications today and in the future// Journal of Systematics and evolution, 2017 https://onlinelibrary.wiley.com/doi/10.1111/jse.12254

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Published

2023-12-20

Issue

Section

МOLECULAR BIOLOGY AND GENETICS