Genetic Diversity Analysis of Rambutan (Nephelium lappaceum L.) Using Dna Barcodes and ISSR Markers
Author(s)
Do Tan Khang , Nguyen Pham Anh Thi , Tran Thanh Men , Nguyen Van Ay , Tran Gia Huy , Nguyen Pham Hong Dao , Chau Ngoc Tuyen , Tran Nhan Dung ,
Download Full PDF Pages: 07-13 | Views: 439 | Downloads: 128 | DOI: 10.5281/zenodo.5141551
Abstract
Rambutan (Nephelium lappaceum L.) brings enormous economic value for Vietnam. It is necessary to support the basic research to analyze genetic diversity among rambutan cultivars for identification and conservation. The objectives of this study were to analyze the genetic diversity by DNA barcodes and evaluate polymorphism by ISSR markers on eight rambutan cultivars. Fourteen specimens of eight rambutan cultivars collected to detect the differences in their genotype on the matK and ITS region, combined with ISSR technique. matK gene was sequenced on 12 specimens of rambutan and clustered into three groups on the phylogenetic tree. Besides, nine SNP locations have also been recorded in matK gene and five of them could be used to identify three cultivars including yellow-flesh rambutan, Java rambutan, and the hybrid rambutan Tien Cuong. Results of the polymorphism combining ISSR 10 and ISSR 23 primers gave an average of 11 polymorphic bands per primer. In which, six polymorphic bands were recorded to identify the original rambutan, yellow-flesh rambutan and the hybrid rambutan Tien Cuong. As a conclusion, these diverse characters could be potentially applied in rambutan cultivars identification as well as building a DNA database for Vietnamese rambutan.
Keywords
DNA barcode, ISSR, ITS, matK, rambutan
References
i. Buerki, S., Forest, F., Acevedo-Rodríguez, P., Callmander, M.W., Nylander, J.A.A., Harrington, M., Sanmartín, I., Küpfer, P. and Alvarez, P., 2009. Plastid and nuclear DNA markers reveal intricate relationships at subfamilial and tribal levels in the soapberry family (Sapindaceae). Molec. Phylogen. Evol. 51: 238–258.
ii. Degani, C., Deng, J., Beiles, A., El-Batsri, R., Goren, M., Gazit, S., 2003. Identifying Lychee (Litchi chinensis Sonn.) Cultivars and their Genetic Relationships Using Intersimple Sequence Repeat (ISSR) Markers. J. AMER. SOC. HORT. SCI. 128(6):838–845.
iii. Dong, F., Lin, Z., Lin, J., Ming, R., Zhang, W., 2020. The complete chloroplast genome sequence of rambutan (Nephelium lappaceum Linn.): Genome Structure and Comparative Analysis within Sapindaceae family. Research Square.
iv. Doyle, J., 1991. DNA Protocols for Plants. In: Hewitt, G.M., Johnston, A.W.B. and Young, J.P.W., Eds., Molecular Techniques in Taxonomy, Springer, Berlin, Heidelberg, 283-293.
v. Edwards, K. J., and Gadek, P. A., 2001. Evolution and biogeography of Alectryon (Sapindaceae). Molecular Phylogenetics and Evolution 20: 14-26.
vi. Harrington, M.G., Edwards, K.J., Johnson, S.A., Chase, M.W., Gadek, P.A., 2005. Phylogenetic inference in Sapindaceae sensu lato using plastid matK and rbcL DNA sequences. Syst. Bot. 30, 366–382.
vii. Kong, D., Ma, C., Zhang, Q., Li, L., Chen, X., Zeng, H., Guo, D., 2014. Leading dimensions in absorptive root trait variation across 96 subtropical forest species. New Phytol. 2014 Aug; 203(3):863-72.
viii. Madihah, A.M., Chikmawati, T., Hartana, A., 2018. Characterization of Rambutan Cultivars (Nephelium lappaceum) Based on Leaf Morphological and Genetic. Biosaintifika 10 (2): 252-259.
ix. Morton, J., 1987. Pulasan. Trong: Fruits of warm climates. Julia F. Morton, Miami, FL. p. 265–266.
x. Napitu, C.S.P.L.S., Chikmawati, T., and Djuita, N.R., 2016. Keberagaman genetik kerabat rambutan liar (Nephelium spp.) di Kabupaten sanggau, Kalimantan Barat berdasarkan marka SSR dan ISSR. Floribunda 5(4), 115-125.
xi. Qiu, Y.X., Luo, Y.P., Comes, H.P., Ouyang, Z.Q., Fu, C.X., 2007. Population genetic diversity and structure of Dipteronia dyerana (Sapindaceae), a rare endemic from Yunnan Province, China, with implications for conservation. TAXON 56 (2) 427-437.
xii. Sukmandari, N.S., Dash, G.K., Jusof, W.H.W., Hanafi, M., 2017. A Review on Nephelium lappaceum L. Research J. Pharm. and Tech. 2017; 10(8): 2819-2827.
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