Low Nucleotide Sequence Variation in the Region of ITS1 of Para Rubber Tree (Hevea brasiliensis Muell. Arg.)
Abstract
Para rubber tree (Hevea brasiliensis Muell. Arg.) is an important economic crop of Thailand which currently is the world’s top exporter. However, the conventional morphological characterization of the para rubber tree requires specialists. This study aims to use molecular genetic analysis of the Internal Transcribed Spacer 1 (ITS1) region of ten para rubber cultivars by using Polymerase chain reaction (PCR) technique and sequencing as a cultivar DNA marker. The PCR products of all cultivars were 503 base pairs in length and size of the ITS1 region is 226 base pairs, with 0.88% difference (2/226) indicating low variation between cultivars. Therefore, the ITS1 region is not a suitable DNA marker for the para rubber tree identification at the cultivar level.Keywords : DNA marker, rubber tree, Internal Transcribed Spacer 1, ITS1, PCRReferences
Chaiprasit, L. & Boonphakdee, C. (2014). Internal transcribed spacer sequences of the para rubber tree.
In Proceedings The 6th National Science Research Conference, 20-21 March, 2014. (pp166-169).
Burapha University, Chonburi, Thailand. (in Thai)
China Plant BOL Group. (2011). Comparative analysis of a large dataset indicates that internal transcribed
spacer (ITS) should be incorporated into the core barcode for seed plants. Proceedings of the National Academy of Sciences, 108(49), 19641-19646.
Costa, J., Campos, B., Amaral, J.S., Nunes, M.E., Oliveira, M.B., & Mafra, I. (2016). HRM analysis targeting
ITS1 and matK loci as potential DNA mini-barcodes for the authentication of Hypericum perforatum and Hypericum androsaemum in herbal infusions. Food Control, 61, 105-114.
Dong, L., Wortley, A., Wang, H., Li, D., & Lu, L. (2011). Efficiency of DNA barcodes for species delimitation:
A case in Pteryfuella Oliv. (Orobanchaceae). Journal of Systematics and Evolution, 49(3), 189-202.
Ghada, B., Olfa, S., Khaled, C., Messaoud, M., Mohamed, M., Mokhtat, T., & Amel, S.H. (2009). Sequence
analysis of the internal transcribed spacers (ITSs) region of the nuclear ribosomal DNA (nrDNA) in fig
cultivars (Ficus carica L.). Scientia Horticulture, 120, 34-40.
Kress, W.J., & Erickson, D.L. (Eds.). (2012). DNA Barcodes: Methods and Protocols, Human Press,
New York.
Li, X., Yang, Y., Henry, R.J., Rossetto, M., Wang, Y., & Chen, S. (2015). Plant DNA barcoding: from gene to genome. Biological Review, 90, 157-166.
Rinthong, P., Paktipat W., Lertsatitthanakorn, P., & Caichompoo, W. (2014). Identification of reo noi (Amomum uliginosum K.D. Koenig) crude drug using ITS1 DNA marker of nuclear DNA. Isan Journal of Pharmaceutical Sciences, 10(1), 32-41. (in Thai)
Rinthong, P., Pianchana, P., & Caichompoo, W. (2013). Botanical origin of reoyai based on the internal transcribed spacer 1 nucleotide sequence data of nuclear DNA. Thai Pharmaceutical and Health Science Journal, 8(3), 93-97. (in Thai)
Rubber Authority of Thailand. (2016). Recommended Rubber tree verities. Para Rubber electronic bullettin, 37(2), 2-41. (in Thai)
Sawatdikarn, S. (2014). Industrial field crop. Bangkok: Odian Store Limited Partnership. (in Thai)
Tamura, K., Stecher, G., Peterson, D., Filipski, A., & Kumar, S. (2013). MEGA6: Molecular evolutionary genetics analysis version 6.0. Molecular Biology Evolution, 30(12), 2725-2729.
Wang, X., Liu, C., Huang, L., Bengtsson-Palme, J., Chen, H., Zhang, J., Cai, D., & Li, J. (2015). ITS1: a DNA barcode better than ITS2 in eukaryotes?. Molecular Ecology Resources, 15, 573-586.
Waraput, O., & Boonphakdee, C. (2013). Genetic Diversity of the Para Rubber Tree (Heveabra silliensis
Muell Arg.) Base on partial sequence of Cinnamyl alcohol dehydrogenase gene. Thai Journal of
Genetics, S1, 218-221. (in Thai)
Xiang, X., Zhang, J., Lu, A., & Li, R. (2011). Molecular identification of species in Juglandaceae: A tired method. Journal of Systematics and Evolution, 49(3), 252-260.
Yameun, N., & Boonphakdee, C. (2013). DNA fingerprint of the para rubber trees (Hevea brasiliensis Muell. Arg) based on partial sequences of the caffeate o-methyl-transferase gene. Thai Journal of Genetics, S1, 262-265. (in Thai)
In Proceedings The 6th National Science Research Conference, 20-21 March, 2014. (pp166-169).
Burapha University, Chonburi, Thailand. (in Thai)
China Plant BOL Group. (2011). Comparative analysis of a large dataset indicates that internal transcribed
spacer (ITS) should be incorporated into the core barcode for seed plants. Proceedings of the National Academy of Sciences, 108(49), 19641-19646.
Costa, J., Campos, B., Amaral, J.S., Nunes, M.E., Oliveira, M.B., & Mafra, I. (2016). HRM analysis targeting
ITS1 and matK loci as potential DNA mini-barcodes for the authentication of Hypericum perforatum and Hypericum androsaemum in herbal infusions. Food Control, 61, 105-114.
Dong, L., Wortley, A., Wang, H., Li, D., & Lu, L. (2011). Efficiency of DNA barcodes for species delimitation:
A case in Pteryfuella Oliv. (Orobanchaceae). Journal of Systematics and Evolution, 49(3), 189-202.
Ghada, B., Olfa, S., Khaled, C., Messaoud, M., Mohamed, M., Mokhtat, T., & Amel, S.H. (2009). Sequence
analysis of the internal transcribed spacers (ITSs) region of the nuclear ribosomal DNA (nrDNA) in fig
cultivars (Ficus carica L.). Scientia Horticulture, 120, 34-40.
Kress, W.J., & Erickson, D.L. (Eds.). (2012). DNA Barcodes: Methods and Protocols, Human Press,
New York.
Li, X., Yang, Y., Henry, R.J., Rossetto, M., Wang, Y., & Chen, S. (2015). Plant DNA barcoding: from gene to genome. Biological Review, 90, 157-166.
Rinthong, P., Paktipat W., Lertsatitthanakorn, P., & Caichompoo, W. (2014). Identification of reo noi (Amomum uliginosum K.D. Koenig) crude drug using ITS1 DNA marker of nuclear DNA. Isan Journal of Pharmaceutical Sciences, 10(1), 32-41. (in Thai)
Rinthong, P., Pianchana, P., & Caichompoo, W. (2013). Botanical origin of reoyai based on the internal transcribed spacer 1 nucleotide sequence data of nuclear DNA. Thai Pharmaceutical and Health Science Journal, 8(3), 93-97. (in Thai)
Rubber Authority of Thailand. (2016). Recommended Rubber tree verities. Para Rubber electronic bullettin, 37(2), 2-41. (in Thai)
Sawatdikarn, S. (2014). Industrial field crop. Bangkok: Odian Store Limited Partnership. (in Thai)
Tamura, K., Stecher, G., Peterson, D., Filipski, A., & Kumar, S. (2013). MEGA6: Molecular evolutionary genetics analysis version 6.0. Molecular Biology Evolution, 30(12), 2725-2729.
Wang, X., Liu, C., Huang, L., Bengtsson-Palme, J., Chen, H., Zhang, J., Cai, D., & Li, J. (2015). ITS1: a DNA barcode better than ITS2 in eukaryotes?. Molecular Ecology Resources, 15, 573-586.
Waraput, O., & Boonphakdee, C. (2013). Genetic Diversity of the Para Rubber Tree (Heveabra silliensis
Muell Arg.) Base on partial sequence of Cinnamyl alcohol dehydrogenase gene. Thai Journal of
Genetics, S1, 218-221. (in Thai)
Xiang, X., Zhang, J., Lu, A., & Li, R. (2011). Molecular identification of species in Juglandaceae: A tired method. Journal of Systematics and Evolution, 49(3), 252-260.
Yameun, N., & Boonphakdee, C. (2013). DNA fingerprint of the para rubber trees (Hevea brasiliensis Muell. Arg) based on partial sequences of the caffeate o-methyl-transferase gene. Thai Journal of Genetics, S1, 262-265. (in Thai)
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Published
2017-07-25
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บทความวิจัยจากการประชุมวิชาการระดับชาติ"วิทยาศาสตร์วิจัย"ครั้งที่ 9
