DNA amplification fingerprinting in coconut: protocol optimization and analysis of resistance to root (wilt) disease
Keywords:
Root (wilt) Disease, DNA Amplification Fingerprinting, Oligonucleotide Primers, Coconut, Host Plant Resistance
Abstract
Root (wilt) disease is a serious malady in coconut causing a loss of approximately 968 million nuts a year in India. Integrated management practices are the only suggested methods to reduce its effect to some extent, while the development of resistant varieties will offer a permanent solution for which concrete breeding efforts are required. Considering the long life cycle of coconut, selection of resistant varieties through conventional methods will be time consuming and laborious. Molecular markers offer numerous advantages over markers traditionally used in plant mapping and selective breeding. Here, we present the optimization of PCR conditions for DNA amplification fingerprinting (DAF) of coconut using arbitrary oligonucleotide primers. Three of the primers could detect variations between root (wilt) resistant and susceptible coconut palms. This study constitutes the basis for future efforts to tag the root (wilt) resistant gene(s) in coconut.
References
Anonymous, 1985. Coconut root (wilt) disease. Intensity, production loss and future strategy - a survey report. CPCRI, Kasaragod 45pp.
Anonymous. 1986. Annual Report for 1986. CPCRI, Kasaragod, India 205pp.
Assefa, S., Taliferro, C.M., Anderson, M.P., de los Reyes, B.G., and Edwards, R.M. 1999. Diversity among Cynodon accessions and taxa based on DNA amplification fingerprinting. Genome 42: 465-474.
Bassam, B.J. and Caetano-Anollés, G. 1993. Silver staining of DNA in polyacrylamide gels. Appl. Biochem. Biotechnol. 42: 181-188.
Butler, E. J. 1908. Report on coconut palm disease in Travancore. Agri. Res. Inst. Pusa Bulletin No. 9, 23pp.
Caetano-Anollès, G., Bassam, B.J. and Gresshoff, P.M. 1991. DNA amplification fingerprinting with short arbitrary oligonucleotide primers. Biotechnol. 9: 553-557.
Caetano-Anollès, G., Bassam, B.J. and Gresshoff, P.M.1992. Primer-template interaction during DNA amplification fingerprinting with single arbitrary oligonucleotides. Molec. Gen. Genet. 235: 157-165.
Caetano-Anollès, G., Callahan, L.M., William, A.E., Weaver, K.R. and Gresshoff, P.M. 1995. DNA amplification fingerprinting analysis of Bermuda grass (Cynodon): Genetic relationships between species and interspecific crosses. Theor. Appl. Genet. 91: 228-235.
Cardena, R., Ashburner, G.R. and Oropeza, C. 2003. Identification of RAPDs associated with resistance to lethal yellowing of the coconut (Cocos nucifera L.) palm. Hort. Sci. 98: 257-263.
He, G., Prakash, C.S. and Jarret, R.L. 1995. Analysis of genetic diversity in sweet potato (Ipomoaea batatus) germplasm collection using DNA amplification fingerprinting. Genome 38: 938-945.
Innis, M.A. and Gelfand, D. H. 1990. PCR protocols: A guide to methods and application. Academic Press, New York.
Jacob, P.M., Nair, R.V. and Rawther, T.S.S. 1998. In: Coconut Root (Wilt) Disease. K.U.K. Nampoothiri and P.K. Koshy (Eds.). Codeword Process and Printers, Mangalore, India pp. 97-104.
Mathewkutty, T.I. 1998. Strategies to combat root (wilt) disease in Kerala. Indian Cocon. J. 29(4): 95-98.
Muralidharan, A., Nair, M.G. and Jayasankar, N.P. 1986. Response of coconut root (wilt) disease to management practices. Indian Cocon. J. 17(1): 3-6.
Nair, M.K., Koshy, P.K., Jacob, P.M., Nair, R.V., Bhaskara Rao, E.V.V., Nampoothiri, K.U.K. and Iyer, R.D. 1996. A root (wilt) disease resistant coconut hybrid and strategy for resistance breeding. Indian Cocon. J. 27(1): 2-5.
Nair, R.V. Jacob, P.M. Rajesh, M.G. and Thomas, R.J. 2003. Incidence of root (wilt) disease in various cross combinations of West Coast Tall variety of coconut. Cord 21 (1): 45-50.
Pillai, N.K. 1911. Naleekeram. Vidyabhivardini Press, Quilon, India.
Radha, K. and Lal, S.B. 1972. Diagnostic symptoms of root (wilt) disease of coconut. Indian J. Agric. Sci. 42: 410-413.
Richard-Molard, C., Wuilleme, S., Scheel, C., Gresshoff, P.M., Morot-Gaudry, J.F. and Limami, A.M. 1999. Nitrogen-induced changes in morphological development and bacterial susceptibility of Belgian endive (Cichorium intybus L.) are genotype-dependent. Planta (Berl.) 209(4): 389-398.
Shahnejat, A.A.B., Yazdi-Samadi, B. and Abd-Mishani, C. 1999. Identification of DAF marker for the yellow rust resistance gene Yr5 in wheat. Iranian J. Agric. Sci. 30: 783-789.
Sreenivasan, N. 1991. Occurrence of coconut leaf rot in relation to root (wilt) disease. Indian Cocon. J. 21(10): 14-18.
Upadhyay, A., Parthasarathy, V.A., Seema, G. and Karun, A. 1999. An efficient method of DNA extraction from coconut. Agrotropica 11(1): 35-38.
Vincent, J., Gurling, H. and Melmer, G. 1994. Oligonucleotides as short as 7-mers can be used for PCR amplification. DNA and Cell Biol. 13: 75-82.
Yazdi-Samadi, B., Young, L., Gresshoff, P.M. and Allen, F. L. 1996. Application of DAF technology to find potential markers associated with resistance to soybean cyst nematode, race 3. Soybean Genet. Newslett. 23: 230-233.
Anonymous. 1986. Annual Report for 1986. CPCRI, Kasaragod, India 205pp.
Assefa, S., Taliferro, C.M., Anderson, M.P., de los Reyes, B.G., and Edwards, R.M. 1999. Diversity among Cynodon accessions and taxa based on DNA amplification fingerprinting. Genome 42: 465-474.
Bassam, B.J. and Caetano-Anollés, G. 1993. Silver staining of DNA in polyacrylamide gels. Appl. Biochem. Biotechnol. 42: 181-188.
Butler, E. J. 1908. Report on coconut palm disease in Travancore. Agri. Res. Inst. Pusa Bulletin No. 9, 23pp.
Caetano-Anollès, G., Bassam, B.J. and Gresshoff, P.M. 1991. DNA amplification fingerprinting with short arbitrary oligonucleotide primers. Biotechnol. 9: 553-557.
Caetano-Anollès, G., Bassam, B.J. and Gresshoff, P.M.1992. Primer-template interaction during DNA amplification fingerprinting with single arbitrary oligonucleotides. Molec. Gen. Genet. 235: 157-165.
Caetano-Anollès, G., Callahan, L.M., William, A.E., Weaver, K.R. and Gresshoff, P.M. 1995. DNA amplification fingerprinting analysis of Bermuda grass (Cynodon): Genetic relationships between species and interspecific crosses. Theor. Appl. Genet. 91: 228-235.
Cardena, R., Ashburner, G.R. and Oropeza, C. 2003. Identification of RAPDs associated with resistance to lethal yellowing of the coconut (Cocos nucifera L.) palm. Hort. Sci. 98: 257-263.
He, G., Prakash, C.S. and Jarret, R.L. 1995. Analysis of genetic diversity in sweet potato (Ipomoaea batatus) germplasm collection using DNA amplification fingerprinting. Genome 38: 938-945.
Innis, M.A. and Gelfand, D. H. 1990. PCR protocols: A guide to methods and application. Academic Press, New York.
Jacob, P.M., Nair, R.V. and Rawther, T.S.S. 1998. In: Coconut Root (Wilt) Disease. K.U.K. Nampoothiri and P.K. Koshy (Eds.). Codeword Process and Printers, Mangalore, India pp. 97-104.
Mathewkutty, T.I. 1998. Strategies to combat root (wilt) disease in Kerala. Indian Cocon. J. 29(4): 95-98.
Muralidharan, A., Nair, M.G. and Jayasankar, N.P. 1986. Response of coconut root (wilt) disease to management practices. Indian Cocon. J. 17(1): 3-6.
Nair, M.K., Koshy, P.K., Jacob, P.M., Nair, R.V., Bhaskara Rao, E.V.V., Nampoothiri, K.U.K. and Iyer, R.D. 1996. A root (wilt) disease resistant coconut hybrid and strategy for resistance breeding. Indian Cocon. J. 27(1): 2-5.
Nair, R.V. Jacob, P.M. Rajesh, M.G. and Thomas, R.J. 2003. Incidence of root (wilt) disease in various cross combinations of West Coast Tall variety of coconut. Cord 21 (1): 45-50.
Pillai, N.K. 1911. Naleekeram. Vidyabhivardini Press, Quilon, India.
Radha, K. and Lal, S.B. 1972. Diagnostic symptoms of root (wilt) disease of coconut. Indian J. Agric. Sci. 42: 410-413.
Richard-Molard, C., Wuilleme, S., Scheel, C., Gresshoff, P.M., Morot-Gaudry, J.F. and Limami, A.M. 1999. Nitrogen-induced changes in morphological development and bacterial susceptibility of Belgian endive (Cichorium intybus L.) are genotype-dependent. Planta (Berl.) 209(4): 389-398.
Shahnejat, A.A.B., Yazdi-Samadi, B. and Abd-Mishani, C. 1999. Identification of DAF marker for the yellow rust resistance gene Yr5 in wheat. Iranian J. Agric. Sci. 30: 783-789.
Sreenivasan, N. 1991. Occurrence of coconut leaf rot in relation to root (wilt) disease. Indian Cocon. J. 21(10): 14-18.
Upadhyay, A., Parthasarathy, V.A., Seema, G. and Karun, A. 1999. An efficient method of DNA extraction from coconut. Agrotropica 11(1): 35-38.
Vincent, J., Gurling, H. and Melmer, G. 1994. Oligonucleotides as short as 7-mers can be used for PCR amplification. DNA and Cell Biol. 13: 75-82.
Yazdi-Samadi, B., Young, L., Gresshoff, P.M. and Allen, F. L. 1996. Application of DAF technology to find potential markers associated with resistance to soybean cyst nematode, race 3. Soybean Genet. Newslett. 23: 230-233.
Published
2005-06-01
How to Cite
K. Jayadev, M.K. Rajesh, K. Devakumar, Regi Jacob Thomas, R.V. Nair, & V.A. Parthasarathy. (2005). DNA amplification fingerprinting in coconut: protocol optimization and analysis of resistance to root (wilt) disease. CORD, 21(01), 34. https://doi.org/10.37833/cord.v21i01.396
Section
Articles
