Phylogenetic Relationships of Local Durian Species based on Morphological Characteristics and PCR-RFLP Analysis of the Ribosomal Internal Transcribed Spacer (ITS) DNA
(1) Department of Integrated Sciences, Semarang State University, Semarang 50229 Indonesia
(2) Department of Biology, Semarang State University, Semarang 50229 Indonesia
Abstract
In this study, twenty local durian accessions obtained from Central Java in situ collection were characterized using the morphological characteristics and the restriction patterns which generated from the region spanning the internal transcribed spacers ITS LEU and ITS 4. Morphological characteristics of durian leaf, stem, tree, and fruit showed variations for the different accessions, whereas polymerase chain reaction (PCR) products of ribosomal DNA region showed a low length of variation. The size of the PCR products and the restriction analyses with the restriction endonucleases Bsp1431yielded a restriction pattern for each accessions. The results of this study can be utilized by local durian farmers as a preliminary reference for durian propagation. The data obtained need to be supported by further research using the other molecular markers to obtain more accurate data. The clear identity of durian species can help the management of propagation systems by farmers to get superior local durian.
How to Cite
Fibriana, F., & Hadiyanti, L. N. (2016). Phylogenetic Relationships of Local Durian Species based on Morphological Characteristics and PCR-RFLP Analysis of the Ribosomal Internal Transcribed Spacer (ITS) DNA. Biosaintifika: Journal of Biology & Biology Education, 8(3), 362-370.
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Baldwin B. G., Sanderson, M. J., Porter J. M., Wojciechowski M. F., Campbell C. S., & Donoghue, M. J. (1995). The ITS region of nuclearribosomal DNA: a valuable source of evidenceon angiosperm phylogeny. Annals of the Missouri Botanical Garden, 82(2), 247-277.
Baum, D. A., Small, R. L., & Wendel, J. F. (1998). Biogeography and floral evolution of Baobabs Adansonia, Bombacaceae as inferred from multiple data sets. Systematic Biology, 47(2), 181-207.
Bioversity International. (2007). Descriptor for Durian. Rome: Italy
Bretting, P. K., & Widrlechner, M. P. (1995). Genetic markers and plant genetic resource management. Plant Breeding Reviews, 13, 11-86.
Ekasari, T. W. D. (2011). Analisis Keanekaragaman Genetika Kultivar Pisang Menggunakan Penanda PCR-RFLP pada Internal Transcribed Spacer (ITS) DNA Ribosomal. Thesis. Semarang: Universitas Negeri Semarang.
Esquinas-Alcazar, J. T. (1993). Plant genetic resources.In: Hayward MD, Bosemark NO, and Romagosa I (eds.). Plant Breeding: Principles and Prospects. Chapman and Hall, London, p. 33-51.
Fang, G., Hamrnar, S. & Grumet, R. (1992). A quick and inexpensive method for removing polysaccharides from plant genomic DNA. Biofeedback 13(1), 52-54.
Hikmah, R. U. (2013). The molecular diversity of durian based on internal transcribed spacers fragment of ribosomal DNA using PCR-RFLP analysis. Thesis. Semarang: Universitas Negeri Semarang.
Karp, A., Kresovich, S., Bhat, K. V., Ayad, W. G. & Hodgkin, T. (1997). Molecular tool in plant genetic resources conservation: a guide to the technologies. IPGRI Tech. Bull.
Kawata, M., Matsumura, Y., Oikawa, T., Kimizu, M., Fukumoto, F., & Kuroda, S. (2003). Analysis of DNA extraction buffer components from plant tissue by polymerase chain reaction. Analytical biochemistry, 318(2), 314-317.
Umar, M., Ponnuswami, M., Agarajan, P., Eyakumar, P., & Enthil, S. (2013). Molecular characterization of ten mango cultivars using simple sequence repeat (SSR) markers. Phytochemistry, 1(3), 51-63.
Maras, M. (2008). An ITS DNA Sequence-Based Phylogenic Study of Some Heracleum L. (Umbelliferae) Species From Turkey’s Partial Flora. Turkish J Biochem. 33(4), 163–168.
Michiels, A., Van den Ende, W., Tucker, M., Van Riet, L., & Van Laere, A. (2003). Extraction of high-quality genomic DNA from latex-containing plants. Analytical biochemistry, 315(1), 85-89.
Nafsi, N. I. (2007). Diversity analysis of durian (DuriozibethinusMurr.) varieties using microsatellite markers, Thesis. Bandung: School of Bioscience and Biotechnology, Bandung Institute of Technology.
Nakamura, H, Kaneko, S & Yamaoka, Y. (1998). PCR-SSCP Analysis of the Ribosomal DNA ITS Region of the Willow Rust Fungi in Japan. Ann. Phytopathol. Soc. Jpn; 64(2), 102-109.
Nandariyah. (2007). Identification of the genetic diversity of salak Java cultivars based on RAPD analysis. Agrosains, 9(2),70-76.
Novayandi, A. (2004). Analisis Keanekaragaman Durian Lokal Serang Berdasarkan Penanda Morfologi, Isozim, dan Gabungan Morfologi-Isozim. Thesis. Bogor: Institut Pertanian Bogor.
Nwakanma, D. C., Pillay, M., Okoli, B. E., & Tenkouano, A. (2003). PCR-RFLP of the ribosomal DNA internal transcribed spacers (ITS) provides markers for the A and B genomes in Musa L. Theoretical and Applied Genetics, 108(1), 154-159.
Pandin, D. S. (2010). Penanda DNA untuk PemuliaanTanaman Kelapa (Cocosnucifera L). Perspektif, 9(1), 21-35.
Pettigrew, J. D., Karen, L. B., Adhil, B., Eunice, G., Ngalla, J., Jean, M., Emily, W. & Claudia, E. V. (2012). Morphology, ploidy and molecular phylogenetics reveal a new diploid species from Africa in the baobab genus Adansonia(Malvaceae: Bombacoideae). Taxon, 61(6), 1240-1250
Retnoningsih, A., Megia, R., Rifai, M. A., & Hartana, A. (2010). Characterization and evaluation of Musa acuminate cultivars in Indonesia based on microsatellite markers. Floribunda, 4(1), 21-32.
Roux, K. H. (2009) Optimization and Troubleshooting in PCR. Cold Spring Harbour Laboratory Press, New York, 4(4), 1-6
Santoso, P. J.,Ghizan, B. S., Norihan, M. S. & Suhaimi, N. (2005). Phylogenetic Relationships Amongst 10 Durio Species Based on PCR-RFLP Analysis of Two Chloroplast Genes. Indonesian J Agri.Sci. 6(1), 20-27.
Semagn, K., Bjornstad, A. & Ndjiondjop, M. N. (2006). An overview of molecular marker methods for plants. Afr J Biotech.,5(25), 2540-2568.
Small, R. L., Cronn, R. C. & Wendel, J. F. (2004). The use of nuclear genes for phylogeny reconstruction in plants. Australian Systematic Botany. 17, 145-170.
Sobir, D., Guntoro, & Septimayani, I. (2005) Analisis Keragaman Genetik Enam Belas Aksesi Blewah (Cucumismelo L.) dengan Metode Random Amplified Polymorphic DNA (RAPD). Gakuryoku, 11(2), 177-180.
Tanskley, S. D., Young, N. D., Paterson, A. H., & Bonierbale, M. W. (1989). RFLP mapping in plant breeding: New tools for an old science. Biotechnology, 7(3), 257-264.
Test, U. (2005). The diversity of species and germplasm sources of durio (Duriospp.) in Indonesia. Buletin Plasma Nutfah. 11(1), 28-33.
Tinggal, S. A., Tirtosoekotjo, R. A., Mohamed, Z. A., Espino, R. R. C., Huat, K. S. & Sadakorn, J. (1994). Durian cultivars in ASEAN. In: NanthachaiS (ed.). Durian: Fruit development, postharvest physiology, handling and marketing in ASEAN. ASEAN Food Handling Bureau, Kuala Lumpur, p. 7-26.
Vanijajiva, O. (2012). The application of ISSR markers in genetic variance detection among Durian (Durio zibethinus Murr.) cultivars in the Nonthaburi province, Thailand. Procedia Engineering, 32, 155-159.
Vekemans, X., Hardy, O., Berken, B., Fofana, B., & Baudoin, J. P. (1998). Use of PCR-RFLP on chloroplast DNA to investigate phylogenetic relationships in the genus Phaseolus. Biotechnologie, agronomie, société et environnement, 2(2), 128-134.
Novelli, V. M., Cristofani, M., Souza, A. A., & Machado, M. A. (2006). Development and characterization of polymorphic microsatellite markers for the sweet orange (Citrus sinensis L. Osbeck). Genetics and Molecular Biology, 29(1), 90-96.
Yunus, M. (2004). Molecular markers for plant improvement. Marka Molekuler untuk Perbaikan Tanaman. Lokakarya Teknik Dasar Molekuler untuk Pemuliaan Tanaman. Bogor, Indonesia.
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