EVALUATION OF THREE RNA EXTRACTION METHODS FROM THREE CULTIVARS OF MALAYSIAN UPLAND RICE
DOI:
https://doi.org/10.11113/jt.v78.4564Keywords:
Malaysian upland rice, RNA extraction, guanidine isothiocyanate, purity, downstream applicationsAbstract
Rice (Oryza sativa L.) can be divided into two major categories, which is upland rice and lowland rice. Apart from being the staple food for more than half of the world population, it is also known as model plant for functional genomics study. However, it possess high amount of starch and polysaccharide that makes the isolation of good quality RNA for downstream purposes often a difficult task. While there are many studies being carried out for lowland rice extraction, none has been reported for upland rice. This study is the first to report on evaluation of three RNA extraction methods for three Malaysian upland rice cultivars in order to determine the best method to isolate high grade RNA. The result obtained demonstrated that good quality RNA in terms of integrity, purity and quality can be isolated from young leaves of these cultivars  by using guanidine isothiocyanate based extraction method that is fast, simple and efficient and had been proven suitable for further downstream applications.Â
Â
Â
References
Khush, G. S. 1997. Origin, Dispersal, Cultivation and Variation of Rice. Plant Molecular Biology. 35(1-2): 25-34.
Shahsavari, E., Maheran, A., Akmar, A. S. N., Hanafi, M. M. 2010. The Effect of Plant Growth Regulator on Optimization of Tissue Culture System in Malaysian Upland Rice. African Journal of Biotechnology. 9(14): 2089-2094.
Bajaj, S., Mohanty, A. 2005. Recent Advances in Rice Biotechnology Towards Genetically Superior Transgenic Rice. Plant Biotechnology Journal. 3: 275-307.
Tyagi, A. K., Mohanty, A. 2000. Rice Transformation for Crop Improvement and Functional Genomics Plant Science. 158: 1-18.
Song, G. S., Zha, H. L., Wei, G., Zhu, Z. 2007. A Simple and Inexpensive Total RNA Extraction Method from the Rice Immature Seeds Rich in Polysaccharides. Journal of Agricultural Science and Technology. 9(4): 111-115.
Japelaghi, R. H., Haddad, R., Garoosi, G. A. 2011. Rapid and Efficient Isolation of High Quality Nucleic Acids from Plant Tissues Rich in Polyphenols and Polysaccharides. Molecular Biotechnology. (49): 129-137.
Asif, M. H., Dhawan, P., Nath, P. 2000. A Simple Procedure for the Isolation of High Quality RNA from Ripening Banana Fruit. Plant Molecular Biology Reporter. (18): 109-115.
Fang, G., Hammar, S., Grumet, R. 1992. A Quick and Inexpensive Method for Removing Polysaccharides from Plant Genomic DNA Biotechniques. 13(1): 52-56.
Jhala V. M., M., V. B., Thaker V. S. 2015. Simple and Efficient Protocol for RNA and DNA Extraction from Rice (Oryza sativa L.) for Downstream Applications. International Research Journal of Biological Sciences. 4(2): 62-67.
Suzuki, Y., Makino, A., Mae, T. 2001. An Efficient Method for Extraction of RNA from Rice Leaves at Different Ages Using Benzyl Chloride. Journal of Experimental Botany. 52(360): 1575-1579.
White, E. J., Venter, M., Hiten, N. F., Burger, J. T. 2008. Modified Cetyltrimethylammonium Bromide Method Improves Robustness and Versatility: The Benchmark for Plant RNA Extraction. Biotechnology Journal. (3): 1424-1428.
Wang, G., Wang, G., Zhang, X., Wang, F., Song, R. 2011. Isolation of High Quality RNA from Cereal Seeds Containing High Levels of Starch. Phytochemical Analysis. 23: 159-163.
Codeiro, M. C. R., Silva, M. S., Oliviera-Filho, E. C., Gayoso de Miranda, Z. D. J., Aquino, F. D. G., Fragoso, R. D. R., Almeida, J., Roveinia, L., Andrade, M. D. 2008. Optimization of a Method of Total RNA Extraction from Brazillian Native Plants Rich in Polyphenols and Polysaccharides. Simposio Internacional Savanas Tropicais ParlaMundi, Brazil. 12-17 October 2008.
Zhang, Y., Qin, Y., Guo, L., Zhou, Z., Liang, Z., Zhang, C., Guo, H. 2012. Isolation of High Quality RNA from Polyporus umbellatus (Pers.) Fries. Molecular Biology and Genetics. 15(5): 10.
Yu, D., Tang, H., Zhang, Y., Du, Z., Yu, H., Chen, Q. 2012. Comparison and Improvement of Different Methods of RNA Isolation from Strawberry (Fragria ananassa). Journal of Agricultural Science. 4(7): 51-56.
Zarei, A., Zamani, Z., Mousavi, A., Fatahi, R., Alavijeh, M. A., Dehsara, B., Salami, S. A. 2012. An Effective Protocol for Isolation of High-Quality RNA from Pomegranate Seeds. The Asian and Australasian Journal of Plant Science and Biotechnology. 6(1): 32-37.
Rosato, E. 2007. Circadian Rhythms: Methods and Protocols. Volume 362. Totowa, NJ: Humana Press Inc.
Del Aguila, E. M., Dutra, M. B., Silva, J. T., Paschoalin, V. M. F. 2005. Comparing Protocols for Preparation of DNA-free Total Yeast RNA Suitable for RT-PCR. BMC Molecular Biology. 6(9): 9-14.
Hou, P., Xie, Z., Zhang, L., Song, Z., Mi, J., He, Y., Li, Y. 2011. Comparison of Three Different Methods for Total RNA Extraction from Fritillaria unibracteata: A Rare Chinese Medicinal Plant. Journal of Medicinal Plants Research. 5(13): 2834-2838.
Rubio-Pina, J., and Zapata-Perez, O. 2011. Isolation of Total RNA from Tissues Rich in Polyphenols and Polysaccharides of Mangrove Plants. Electronic Journal of Biotechnology. 14(5).
Tao, N., Gao, Y., Liu, Y., Zhang, J. 2010. Extraction of High-quality RNA and Construction of a cDNA Library from Fruits of Lycium barbarum Linnaeus (Fructus lycii). Biotechnology & Biotechnological Equipment. 1569-1572.
Liao, Z., Chen, M., Guo, L., Gong, Y., Tang, F., Sun, X., Tang,K. 2004. Rapid Isolation of High-Quality Total RNA from Taxus and Ginkgo. Preparative Biochemistry & Biotechnology. 34(3): 209-214.
Jones, C. S., Iannetta, P. P. M., Woodhead, M., Davies, H. V., McNicol, R. J., Taylor, M. A. 1997. The Isolation of RNA from Raspberry (Rubus idaeus) Fruit. Molecular Biotechnology. 8: 219-221.
Gambino, G., Perrone, I., Gribaudo, I. 2008. A Rapid and Effective Method for RNA Extraction from Different Tissues of Grapevine and Other Woody Plants. Phytochemical Analysis. 19: 520-525.
Wang, T., Zhang, N., Du, L. 2005. Isolation of RNA of High Quality and Yield from Ginkgo biloba Leaves. Biotechnology Letters. 27: 629-633.
Ghangal, R., Raghuvanshi, S., Sharma, P. C. 2009. Isolation of Good Quality RNA from a Medicinal Plant Seabuckthorn, Rich in Secondary Metabolites. Plant Physiology and Biochemistry. 47:1113-1115.
Talyshinsky, M. M., Souprun, Y. Y., Huleihel, M. M. 200). Anti-viral Activity of Red Microalgal Polysaccharides Against Retrovirus. Cancer Cell International. 2: 2-8.
Lau, A. F., Siedlecki, J., Anleitner, J., Patterson, G. M. L., Caplan, F. R., Moore, R. E. 1993. Inhibition of Reverse Transcriptase Activity by Extracts of Cultured Blue-green Algae (Cyanophyta). Plant Medica. 59: 148-151.
Downloads
Published
Issue
Section
License
Copyright of articles that appear in Jurnal Teknologi belongs exclusively to Penerbit Universiti Teknologi Malaysia (Penerbit UTM Press). This copyright covers the rights to reproduce the article, including reprints, electronic reproductions, or any other reproductions of similar nature.
