SEQUENCE ANALYSIS OF COAT PROTEIN GENE AND 3` NONCODING REGION OF SWEET POTATO FEATHERY MOTTLE VIRUS (SPFMV) ISOLATED FROM EGYPT
Abstract
The coat protein gene and the 3' non-coding region of sweet potato feathery mottle virus, SPFMV, isolated from Egypt was subjected to reverse transcriptional polymerase chain reaction, RT-PCR, cloned and applied to sequence analysis. The 1164 nucleotides sequenced representing the full-length coat protein gene were found to code for 330 amino acids with MW of 35 kDa. In addition, 222 nucleotides of 3' non-coading region excluding the poly-A tail were sequenced. Data comparison to the published sequences revealed that the nucleic acid sequence of the Egyptian SPFMV isolate has 98% homology with the common strain, C, isolated from South Africa and 98.4% homology of the deduced amino acids. The phylogenic analysis indicated that the Egyptian isolate occurs within the C strains of identified SPFMV.References
Adams, M. J., J. F. Antoniw and C. M. Fauquet (2005). Molecular criteria for genus and species discrimination within the family Potyvirida. Archives of Virology, 150: 459- 479.
Ashoub, A., M. Knoblauch, W. S. Peters and A. J. E. van Bel (2006). A simple extraction method for RNA isolation from plants. Egypt. J. Genet. & Cytol., 35: 187-194.
Ashoub, A., M. M. El Far, D. Prüfer and T. Nasr El-Din (2008). Comparison of methods to detect sweet potato feathery mottle virus (SPFMV) in sweet potatoes. Egyptian J. Genet. & Cytol. (Accepted)
Ausubel, F. M., R. Brent, R. E. Kingston, D. D. Moore, J. D. Seidman, J. A. Smith and K. Struhl (Edt.) (1995). Current Protocols in Molecular Biology. (New York: John Wiley and Sons).
Brunt, A. A., K. Crabtree, M. J. Dallwitz, A. J. Gibbs, L. Watson and E. J. Zurcher (Eds.) (1996). Plant Viruses Online: Descriptions and Lists from the VIDE Database. Version: 20th August 1996.' URL http://biology.anu.edu.au/Groups/MES/vide/
Cali, B. B. and J. W. Moyer (1981). Purification, serology, and particle morphology of two russet crack strains of sweetpotato feathery mottle virus. Phytopatology, 71: 302-305.
Colinet, D., J. Kummert, P. Lepoivre and J. Semal (1994). Identification of distinct potyviruses in mildly infected sweetpotato by the polymerase chain reaction with degenerate primers. Phytopathology, 84: 65-69.
Colinet, D., M. Nguyen, J. Kummert, P. Lepoivre and F. Z. Xia (1998). Differentiation among potyviruses infecting sweet potato based on genus and virus-specific reverse transcription polymerase chain reaction. Plant Diseases, 82: 223- 229.
Frankel, M. J., C. W. Ward and D. D. Shukla (1989). The Use of 3' Noncoding Nucleotide Sequences in the Taxonomy of Potyviruses: Application to Watermelon Mosaic Virus 2 and Soybean Mosaic Virus-N. Journal of General Virology, 70: 2775-2783.
Gibson, R. W. and V. Aritua (2000). Sweetpotato virus disease in Africa. African Potato Conference Proceeding, 5: 373-377.
Gibson, R. W., I. Mpembe, T. Alicai, E. E. Carey, R. O. M. Mwanga, S. E. Seal and H. J. Vetten (1998). Symptoms, aetiology and serological analysis of sweet potato virus disease in Uganda. Plant Pathology, 47: 95-102.
Hanada, K., J. Sakai, M. Nishiguchi, T. Usugi and M. Onuki (2000). Molecular characterization of sweetpotato viruses occurring in Japan. p 10-13. In: Nakazawa, Y., and K. Ishiguro (Eds). International Workshop on Sweetpotato Cultivar Decline Study, Proceedings, Kyushu National Agricultural Experiment Station, Miyakonjo, Japan. Langeveld, S. A., J. M. Dore, J. Memelink, A. F. L. M. Derks, C. I. M. van der Vlugt, C. J. Asjes and J. F. Bol (1991). Identification of potyviruses using the polymerase chain reaction with degenerate primers. Journal of General Virology, 72: 1531-1541.
Mori, M., J. Sakai, T. Kimura, T. Usugi, T. Hayashi, K. Hanada and M. Nishiguchi (1995). Nucleotide sequence analysis of two nuclear inclusion body and coat protein genes of a sweet potato feathery mottle virus severe strain (SPFMV-S) genomic RNA. Archives of Virology, 140: 1473- 1482.
Moyer, J. W. and L. F. Salazar (1989). Virus and virus-like diseases of 22 A. ASHOUB AND MERVAT M. M. EL FAR sweet potato. Plant Disease, 73: 451- 455.
Pappu, S. S., R. Brand, H. R. Pappu, E. P. Rybicki, K. H. Gough, M. J. Frenkel and C. L. Niblett (1993). A polymerase chain reaction method adapted for selective amplification and cloning of 3´ sequences of potyviral genomes: Application to dasheen mosaic virus. Journal of Virological Methods, 41: 9-20.
Ryu, K. H., S. J. Kim and W. M. Park (1998). Nucleotide sequence analysis of the coat protein genes of two Korean isolates of sweet potato feathery mottle potyvirus. Archives of Virology, 143: 557- 562.
Sakai, J. (2000). Identification of four SPMV strains and SPVG by RTPCR and RFLP methods. p. 85-89. In: Nakazawa, Y. and K. Ishiguro (Eds). International Workshop on Sweetpotato Cultivar Decline Study, Proceedings, Kyushu National Agricultural Experiment Station, Miyakonjo, Japan. Sakai, J., M. Mori, M. Morshita, K. Tanaka, K. Hanada, T. Usugi and M. Nishiguchi (1997). Complete nucleotide sequence and genome organization of sweet potato feathery mottle virus (S strain) genomic RNA: the large coading region of the P1 gene. Archives of Virology, 142: 1553-1562.
Shukla, O. D. and W. C. Ward (1988). Amino acid sequence homology of coat proteins as a basis for identification and classification of the potyvirus group. Journal of General Virology, 69: 2703-2710.
Usugi T., M. Nakano, A. Akira and T. Hayashi (1991). Three filamentous viruses from sweet potato in Japan. Annals of the Phytopathological Society of Japan, 57: 512-521.
Ward, C. W. and D. D. Shukla (1991). Taxonomy of potyviruses: current problems and some solutions. Intervirology, 32: 269-296.
