Genome characterisation of a distinct species of Begomovirus causing leaf curl disease in sweetpotato [Ipomoea batatas L. (Lam)] in India

References

• Arguello-Astorga, G.R., Guevara-Gonzalez, R.G., Herrera-Estrella, L.R., & Rivera- Bustamante, R.F. (1994). Geminivirus replication origins have a group-specific organization of iterative elements: A model for replication. Virology, 203, 90–100. doi:10.1006/viro.1994.1458
   PubMed Web of Science ®Google Scholar
• Banks, G.K., Bedford, I.D., Beitia, F.J., Rodriguez-Cerezo, E., & Markham, P.G. (1999). A novel geminivirus of Ipomoea indica (Convolvulacae) from Southern Spain. Plant Disease, 83, 486. doi:10.1094/PDIS.1999.83.5.486B
   PubMedGoogle Scholar
• Briddon, R.W., Bull, S.E., & Bedford, I.D. (2006). Occurrence of Sweet potato leaf curl virus in Sicily. Plant Pathology, 55, 286. doi:10.1111/j.1365-3059.2005.01273.x
   Web of Science ®Google Scholar
• Brown, J.K., Zerbini, F.M., Navas-Castillo, J., Moriones, E., & Ramos Sobrinho, R. (2015). Revision of Begomovirus taxonomy based on pairwise sequence comparisons. Archives of Virology, 160, 1593–1619. doi:10.1007/s00705-015-2398-y
   PubMed Web of Science ®Google Scholar
• Bryant, D., & Moulton, V. (2004). Neighbor-net: An agglomerative method for the construction of phylogenetic networks. Molecular Biology and Evolution, 21, 255–265. doi:10.1093/molbev/msh018
   PubMed Web of Science ®Google Scholar
• Campos-Olivas, R., Louis, J.M., Clerot, D., Gronenborn, B., & Gronenborn, A.M. (2002). The structure of a replication initiator unites diverse aspects of nucleic acid metabolism; Proc. Proceedings of the National Academy of Sciences, 99, 10310–10315. doi:10.1073/pnas.152342699
   PubMed Web of Science ®Google Scholar
• Cohen, J., Franck, A., Vetten, H.J., Lesemann, D.E., & Loebenstein, G. (1992). Purification and properties of closterovirus-like particles associated with a white-fly-transmitted disease of sweet potato. Annals of Applied Biology, 121, 257–268. doi:10.1111/j.1744-7348.1992.tb03438.x
   Web of Science ®Google Scholar
• Di-Feo, L., Nome, S.F., Biderbost, E., Fuentes, S., & Salazar, L.F. (2000). Etiology of sweet potato chlorotic dwarf disease in Argentina. Plant Disease, 84, 35–39. doi:10.1094/PDIS.2000.84.1.35
   PubMed Web of Science ®Google Scholar
• Fauquet, C.M., Bisaro, D.M., Briddon, R.W., Brown, J.K., Harrison, B.D., Rybicki, E.P., … Stanley, J. (2003). Revision of taxonomic criteria for species demarcation in the family Geminiviridae, and updated list of begomovirus species. Archives of Virology, 148, 405–421. doi:10.1007/s00705-002-0957-5
   PubMed Web of Science ®Google Scholar
• Fauquet, C.M., & Stanley, J. (2003). Geminivirus classification and nomenclature: Progress and problems. Annals of Applied Biology, 142, 165–189. doi:10.1111/j.1744-7348.2003.tb00241.x
   Web of Science ®Google Scholar
• Fiallo-Olivé, E., Lapeira, D., Louro, D., & Navas-Castillo, J. (2018). First report of sweet potato leaf curl virus and sweet potato leaf curl deltasatellite 1 infecting blue morning glory in Portugal. Diseases Notes, 102(5): 1043.
   Google Scholar
• Fuentes, S., & Salazar, L.F. (2003). First report of Sweet potato leaf curl virus in Peru. Plant Disease, 87, 98.93. doi:10.1094/PDIS.2003.87.1.98C
   Google Scholar
• Henryk, C., Hariton-Shalev, A., Sobol, I., Gorovits, R., & Ghanim, M. (2015). The incredible journey of begomoviruses in their Whitefly Vector. Viruses, 9, 1–19.
   Web of Science ®Google Scholar
• Huson, D.H., & Bryant, D. (2006). Application of phylogenetic networks in evolutionary studies. Molecular Biology and Evolution, 23, 254–267. doi:10.1093/molbev/msj030
   PubMed Web of Science ®Google Scholar
• ICTVdB Management. (2006). Sweet potato leaf curl virus. In: C. B€uchen-Osmond (Ed.), ICTVdB—The universal virus database, version 4. (pp. 33–45). New York: Columbia University.
   Google Scholar
• Kumar, S., Stecher, G., Li, M., Knyaz, C., & Tamura, K. (2018). MEGA X: Molecular evolutionary genetics analysis across computing platforms. Molecular Biology and Evolution, 35, 1547–1549. doi:10.1093/molbev/msy096
   PubMed Web of Science ®Google Scholar
• Laufs, J., Schumacher, S., Geisler, N., Jupin, I., & Gronenborn, B. (1995). Identification of tyrosine of geminivirus replication protein. FEBS Letters, 377, 258–262. doi:10.1016/0014-5793(95)01355-5
   PubMed Web of Science ®Google Scholar
• Lefeuvre, P., Harkins, G.W., Lett, J.M., Briddon, R.W., Chase, M.W., Moury, B., & Martin, D.P. (2011). Evolutionary timescale of the begomoviruses: Evidence from integrated sequences in the Nicotiana genome. PLoS One, 16:6, e19193. doi:10.1371/journal.pone.0019193
   Web of Science ®Google Scholar
• Loebenstein, G. (2015). Control of Sweet Potato Virus. Diseases Advances in Virus Research, 91, 33–45.
   PubMed Web of Science ®Google Scholar
• Lotrakul, P., & Valverde, R.A. (1999). Cloning of a DNA-A-like genomic component of sweet potato leaf curl virus: Nucleotide sequence and phylogenetic relationships. Molecular Plant Pathology On-Line, Publication. Retrieved from http://www.bspp.org.uk/mppol/1999/0206LOTRAKUL
   Google Scholar
• Lotrakul, P., Valverde, R.A., Clark, C.A., Sim, J., & De-La, T.R. (1998). Detection of a gemivirus infecting sweet potato in the United States. Plant Disease, 82, 1253–1257. doi:10.1094/PDIS.1998.82.11.1253
   PubMed Web of Science ®Google Scholar
• Lotrakul P, Valverde RA, Clark CA, Sim J, De-La TR (1998). Detection of a geminivirus infecting sweet potato in the United States. Plant Dis 82:1253–1257
   PubMed Web of Science ®Google Scholar
• Lozano, G., Trenado, H.P., Valverde, R.A., & Castillo, J.N. (2009). Novel begomovirus species of recombinant nature in sweet potato (Ipomoea batatas) and Ipomoea indica: Taxonomic and phylogentic implications. Journal of General Virology, 90, 2550–2562. doi:10.1099/vir.0.012542-0
   PubMed Web of Science ®Google Scholar
• Luan, Y.S., Zhang, J., & An, L.J. (2006). First report of sweet potato leaf curl virus in China. Plant Disease, 90, 1111. doi:10.1094/PD-90-1111C
   PubMed Web of Science ®Google Scholar
• Luan, Y.S., Zhang, J., Liu, D.M., & Li, W.L. (2007). Molecular characterization of sweet potato leaf curl virus isolate from China (SPLCV-CN) and its phylogenetic relationship with other members of the Geminiviridae. Virus Genes, 35, 379–385. doi:10.1007/s11262-007-0084-1
   PubMed Web of Science ®Google Scholar
• Miano, D.W., LaBonte, D.R., Clark, C.A., Valverde, R.A., Hoy, M.W., Hurtt, S., & Li, R. (2006). First report of a begomovirus infecting sweetpotato in Kenya. Plant Disease, 90, 832. doi:10.1094/PD-90-0832B
   PubMed Web of Science ®Google Scholar
• Muhire, B., Martin, D.P., & Brown, J.K. (2013). A genome-wide pairwise identity based proposal for the classification of viruses in the genus Mastrevirus (Geminiviridae). Archives of Virology, 158, 1411–1424. doi:10.1007/s00705-012-1601-7
   PubMed Web of Science ®Google Scholar
• Mariana Cantu’ -Iris, Guillermo Pastor-Palacios, Jorge Armando Mauricio-Castillo, Bernardo Bañuelos-Herna’ndez, Jesu’s Aaro’n Avalos-Calleros, Alejandro Jua’rez-Reyes, Rafael Rivera-Bustamante, Gerardo R, Argu” ello-Astorga. (2019). Analysis of a new begomovirus unveils a composite element conserved in the CP gene promoters of several Geminiviridae genera: Clues to comprehend the complex regulation of late genes. PLOS ONE, 14(1), 1–24.
   Web of Science ®Google Scholar
• Nawaz-ul-Rehman, M.S., & Fauquet, C.M. (2018). Evolution of geminiviruses and their satellites. FEBS Letters, 18:583, 1825–1832.
   Google Scholar
• Orozco, B.M., & Hanley-Bowdoin, L. (1998). Conserved sequence and structural motifs contribute to the DNA binding and cleavage activities of a geminivirus replication protein. Journal of Biological Chemistry, 273, 24448–24456. doi:10.1074/jbc.273.38.24448
   PubMed Web of Science ®Google Scholar
• Osaki, T., & Inouye, T. (1991). Transmission characteristics and cytopathology of a white-fly transmitted virus isolated from sweet potato leaf curl diseases. Bulletin of University of Osaka Prefecture. Series B, Agriculture and biology, 43, 11–13.
   Google Scholar
• Paprotka, T., Boiteux, L.S., Fonseca, M.E., Resende, R.O., Jeske, H., Faria, J.C., & Ribeiro, S.G. (2010). Genomic diversity of sweet potato geminiviruses in a Brazilian germplasm bank. Virus Research, 149, 224–233. doi:10.1016/j.virusres.2010.02.003
   PubMed Web of Science ®Google Scholar
• Pardina, P.R., Luque, A., Nome, C., Colomba, E.L., Delgado, S.F., & Di Feo, L. (2012). First report of sweet potato leaf curl virus infecting sweet potato in Argentina. Australasian Plant Disease Notes, 7, 157–160. doi:10.1007/s13314-012-0073-7
   Google Scholar
• Park, J., Kim, S., Choi, E., Kwak, H.R., Kim, M.K., Lee, K.Y., … Lee, S. (2011). Molecular characterization of sweet potato leaf curl virus (SPLCV) isolates from Korea: Phylogenetic relationship and recombination analysis. Acta virologica, 55, 327–335. doi:10.4149/av_2011_04_327
   PubMed Web of Science ®Google Scholar
• Prasanth, G., & Hegde, V. (2008). Occurrence of Sweetpotato feathery mottle virus and Sweetpotato leaf curl Georgia virus on sweetpotato in India. Plant Disease, 92, 311. doi:10.1094/PDIS-92-2-0311B
   PubMed Web of Science ®Google Scholar
• Rojas, M.R., Hagen, C., Lucas, W.J., & Gilbertson, R.L. (2005). Exploiting chinks in the plant’s armor: Evolution and emergence of geminiviruses. Annual Review of Phytopathology, 43, 361–394. doi:10.1146/annurev.phyto.43.040204.135939
   PubMed Web of Science ®Google Scholar
• Sinha, B., & Tarafdar, J. (2007). Occurrence and detection of sweet potato virus disease (SPVD) in West Bengal. Journal of Applied Horticulture, 9, 1–4.
   Google Scholar
• Thompson, J.D., Higgins, D.G., & Gibson, T.J. (1994). CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Research, 22, 4673–4680. doi:10.1093/nar/22.22.4673
   PubMed Web of Science ®Google Scholar
• Vadivukarsi, T., Girish, K.R., & Usha, R. (2007). Sequence and recombination analysis of the gemonivirus replication initiator protein. Journal of Biosciences, 32, 17–29. doi:10.1007/s12038-007-0003-6
   PubMed Web of Science ®Google Scholar
• Varma, A., & Malathi, V.G. (2003). Emerging geminiviruses problems: A serious threat to crop production. Annals of Applied Biology, 142, 145–164. doi:10.1111/j.1744-7348.2003.tb00240.x
   Web of Science ®Google Scholar
• Wasswa, P., Otto, B., Maruthi, M.N., Mukasa, S.B., Monger, W., & Gibson, R.W. (2011). First identification of a sweet potato begomovirus (sweepovirus) in Uganda: Characterization, detection and distribution. Plant Pathology, 60, 1030–1039. doi:10.1111/j.1365-3059.2011.02464
   Web of Science ®Google Scholar
• Zerbini, F.M., Briddon, R.W., Idris, A., Martin, D.P., Moriones, E., Navas-Castillo, J., … ICTV Report Consortium. (2017). ICTV virus taxonomy profile: Geminiviridaev. Journal of General Virology, 98, 131–133. doi:10.1099/jgv.0.000738
   PubMed Web of Science ®Google Scholar
• Zhang, S.C., & Ling, K.S. (2011). Genetic diversity of sweet potato begomoviruses in the United States and identification of a natural recombinant between sweet potato leaf curl virus and sweet potato leaf curl Georgia virus. Archives of Virology, 156, 955–968. doi:10.1007/s00705-011-0930-2
   PubMed Web of Science ®Google Scholar