Morphological description and DNA barcoding study of Paramignya trimera collected in Khanh Hoa, Vietnam

Phi Thi Cam Mien; Pham Bich Ngoc; Chu Hoang Ha; Nguyen Duc Bach

doi:10.15625/1811-4989/15090

Author affiliations

Authors

Phi Thi Cam Mien Biotechnology faculty, Vietnam National University of Agriculture https://orcid.org/0000-0003-2800-7741
Pham Bich Ngoc
Chu Hoang Ha
Nguyen Duc Bach

DOI:

https://doi.org/10.15625/1811-4989/15090

Keywords:

Đặc điểm hình thái paramignya, ITS, mã vạch DNA, matK, rbcL

Abstract

Paramignya trimera is a valuable traditional medicinal plant, typically distributing in Khanh Hoa, Vietnam. In recent years, P. trimera has been exploited to treat liver diseases such as hepatitis, cirrhosis and liver cancers. The recorded during the investigation, in Khanh Hoa currently appears a number of species with similar phenotypes known collectively as P. trimera and appeared some morphology with differences in leaf morphology and thorns. Therefore, this study was carried out for identification, breeding and propagation conservation.This study has been described, characterized morphological characteristics and analyzed DNA barcodes based on ITS, matK and rbcL gene markers. About the morphology, P. trimera is distinguished from other species of the genus Paramignya with the following characteristics: elongated, single leaf, leaf-shaped lobe end, leaf veins shaped like a feather. Petiole with big, pointed and straight spines. Corolla 3, 6 stamens, upper election, with three sepals and two ovule leaves, the seed has a seed coat. The analysis of DNA barcodes shows that the results combination of the analysis of the three regions of ITS, matK and rbcL can be used to determine the genetic relationship between five samples of P. trimera. The nucleotide sequence lengths of the samples for the three regions of the ITS, matK and rbcL genes are 850 bp, 850 bp and 500 bp, respectively. On the basis of phenotypic tree analysis, the samples (X1, X2, X3, X4, X5) have the same evolutionary origin in ITS, matK and rbcL. Base on to identified the five morphological forms of P. trimera distributed in Khanh Hoa as the same species and expanded the distribution area as well as in-depth research on P. trimera morphologies in Khanh Hoa, Vietnam.

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References

Burkill, I. H. (1931) "An enumeration of the species of Paramignya, Atalantia and Citrus, found in Malaya." Gardens Bulletin Straits Settlements 5: 212-220.

Cheng, T., C. Xu, L. Lei, C. Li, Y. Zhang and S. Zhou (2016). "Barcoding the kingdom Plantae: new PCR primers for ITS regions of plants with improved universality and specificity." Mol Ecol Resour 16(1): 138-149.

Cuenoud, P., V. Savolainen, L. W. Chatrou, M. Powell, R. J. Grayer and M. W. Chase (2002). "Molecular phylogenetics of Caryophyllales based on nuclear 18S rDNA and plastid rbcL, atpB, and matK DNA sequences." Am J Bot 89(1): 132-144.

Cuong, N. M., Huong, T. T., Khanh, P. N., Tai, N. V., Ha, V. T., Son, N. T., Tai, B. H., Kim, Y. H. (2015). "Paratrimerins A and B, Two New Dimeric Monoterpene-Linked Coumarin Glycosides from the Roots and Stems of Paramignya trimera." Chem Pharm Bull (Tokyo) 63(11): 945-949.

DOYLE, J.J.; DOYLE J.L. Isolation of plant DNA from fresh tissue. Focus, v.12, p.13-15, 1990

Group, C. P. W. (2009). "A DNA barcode for land plants." Proc Natl Acad Sci USA 106(31): 12794-12797

Ho, P. H. (2000) “An Illustrated Flora of Vietnam,” Ho Chi Minh City Youth Publishing House, Ho Chi Minh City, 2000

Khan, I. A. (2007). "Citrus germplasm resources." In Citrus Genertics, Breeding and Biotechnology, CAB International Chapter. 4: 45-140.

Kimura, M. (1980). "A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences." J Mol Evol 16(2): 111-120.

Kumar, S., G. Stecher, M. Li, C. Knyaz and K. Tamura (2018). "MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms." Mol Biol Evol 35(6): 1547-1549.

Kurz, W. S. (1876). "International Plant Names Index." Journal of the Asiatic Society of Bengal. Part 2. Natural History. Calcutta 44(3): 135.

Kyndt, T., B. Van Droogenbroeck, E. Romeijn-Peeters, J. P. Romero-Motochi, X. Scheldeman, P. Goetghebeur, P. Van Damme and G. Gheysen (2005). "Molecular phylogeny and evolution of Caricaceae based on rDNA internal transcribed spacers and chloroplast sequence data." Mol Phylogenet Evol 37(2): 442-459.

Mabberley, D. J. (1998). "Australian Citreae with notes on other Aurantioideae (Rutaceae)." Telopea 7(4): 333-344.

Mabberley, D. J. (2004). "Citrus (Rutaceae): A Review of Recent Advances in Etymology, Systematics and Medical Applications." Blumea journal of plant taxonomy and plant geography 49(2-3): 481-498.

Mansour Aliabadian, V. N., Ahmad Mahmoudi, Mehdi Naderi, Ronald Vonk, Miguel Vences (2014). "ExcaliBAR: a simple and fast software utility to calculate intra- and interspecific distances from DNA barcodes." Contributions to Zoology, 83(1): 79-83.

Meier, R., G. Zhang and F. Ali (2008). "The use of mean instead of smallest interspecific distances exaggerates the size of the "barcoding gap" and leads to misidentification." Syst Biol 57(5): 809-813.

Nguyen, V. T., J. A. Sakoff and C. J. Scarlett (2017). "Physicochemical Properties, Antioxidant and Anti-proliferative Capacities of Dried Leaf and Its Extract from Xao tam phan (Paramignya trimera)." Chem Biodivers 14(6): 3.

T.T.L. Bui, H.P. Dang, T.N. Nguyen (2015), “Investigation of chemical constituents of chloroform extract of the stem of Paramignya trimera (Oliver) Burkill (Rutaceae)”, Biology. Chemical Journal, 20(4), pp.37-45 (in Vietnamese).

M.C. Nguyen, T.H. Tran, N.K. Pham, T.S. Ninh, T.C. Nguyen, T.T. Do (2016), “Hepatoprotective activities of Paramignya trimera roots in mice model with liver injury by paracetamol”, Science and technology Journal, 54(1), pp.37-45 (in Vietnamese).

L.T.A. Hoang, D.C. Kim, W. Ko, T.M. Ha, N.X. Nhiem, P.H. Yen, B.H. Tai, L.H. Truong, V.N. Long, T. Gioi, T. Hong Quang, C.V. Minh, H. Oh, Y.C. Kim, P.V. Kiem (2017), “Anti-inflammatory coumarins from Paramignya trimera”, Pharm Biol., 55(1), pp.1195-1201.

Puillandre, N., A. Lambert, S. Brouillet and G. Achaz (2012). "ABGD, Automatic Barcode Gap Discovery for primary species delimitation." Mol Ecol 21(8): 1864-1877.

Sahu, S. K., M. Thangaraj and K. Kathiresan (2012). "DNA Extraction Protocol for Plants with High Levels of Secondary Metabolites and Polysaccharides without Using Liquid Nitrogen and Phenol." ISRN Mol Biol 2012(205049): 205049.

Son, N. T. (2018). "Notes on the genus Paramignya: Phytochemistry and biological activity." Bulletin of Faculty of Pharmacy, Cairo University 56(1): 1-10.

Tanak, T. (1928). "No. 69. Notes on the Dutch Indian species of Rutaceae-Aurantieae.

(Revisio Aurantiacearum-V.)." Mededeelingen'sRyks Herbarium Leiden: 1-13.

Thwaites, G. H. K. (1861). "Paramignya armata (Thwaites) Oliv.,." Journal of the Linnean Society. Botany. London 5(2): 43.

V.T. Nguyen, N.M.Q. Pham, Q.V. Vuong, C.B. Michael, A.V. Altenaa, J.S. Christopher (2015), “Phytochemical Retention and Antioxidant Capacity of Paramignya trimera Root as Prepared by Different Drying Methods”, An International Journal, 34(3), pp.324-334.

V. Kumar, N. M. M. N., D.B.M. Wickramaratne (1991). "Tirucallane derivatives from Paraminya monophylla fruits." Phytochemistry 301: 231-1233.

Van Tang Nguyen, N. M. Q. P., Quan Van Vuong, Michael C.Bowyer, Ian A. van Altena & Christopher J. Scarlett (2015) "Phytochemical retention and antioxidant capacity of Xao tam phan ( Paramignya trimera ) root as prepared by different drying methods." Drying Technology 34 (3): 324–334.

Wiart, C. (2006). "Medicinal Plants of Asia and the Pacific." Taylor & Fancis Group.

Zhu Y, et al. (2010) Effect of epigallocatechin-3-gallate on the activity of alpha-glucosidase in vitro, Wei Sheng Yan Jiu 39(2):168-71, 176