Geminiviruses, in particular the members of the genus Begomovirus , are considered to be a major phytosanitary problem for tomato crops production in the world. They are responsible for yield losses of up to 20% to 100%. Regrettably, Togo is not spared from this situation. This work aims to show the genetic diversity of the begomoviruses affecting tomato crops production in Togo and their relationship with other begomoviruses. To achieve these objectives, 307 samples of tomato leaves and wild plant species with typical virus symptoms were collected in the Maritime, Plateaus, Central, Kara and Savannah regions and submitted to PCR analysis. The results revealed the presence of begomovirus in 25.40% of the analyzed samples. The PCR products obtained were submitted to direct sequencing. Phylogenetic analysis of sequences of DNA-A different regions of begomovirus identified in this work with that of other begomoviruses showed a nucleotide identity of 96% respectively for Tomato leaf curl Togo virus-Fontem, Tomato Leaf Curl Togo Virus , Ageratum leaf curl Cameroon Alphasatellite ; 98% respectively to Tomato leaf curl Nigeria virus , Ageratum leaf curl Cameroon virus , Tomato leaf curl Cameroon virus -Fontem, Ageratum leaf curl Cameroon virus and 99% respectively to Tomato leaf curl Kumasi virus , Pepper yellow vein Mali virus Bazegahot and Pepper yellow vein Mali virus -Ouaga. These results suggest a high degree of genetic diversity of tomato begomoviruses identified in Togo.
Brown, J.K., Zerbini, F.M., Navas-Castillo, J., Moriones, E., Ramos-Sobrinho, R., Silva, J.F., Fiallo-Olivé, E., Briddon, R., Hernández-Zepeda, C. and Idris, A. (2015). Revision of Begomovirus Taxonomy Based on Pairwise Sequence Comparisons. Archives of Virology, 160, 1593-1619. https://doi.org/10.1007/s00705-015-2398-y
Tsai, W.S., Shih, S.L., Venkatesan, S.G., Aquino, M.U., Green, S.K., Kenyon, L. and Jan, F.J. (2011) Distribution and Genetic Diversity of Begomoviruses Infecting Tomato and Pepper Plants in the Philippines. Annals of Applied Biology, 158, 275-287. https://doi.org/10.1111/j.1744-7348.2011.00462.x
Van Brunschot, S.L., Bergervoet, J.H., Pagendam, D.E., de Weerdt, M., Geering, A.D., Drenth, A. and Van der Vlugt, R.A. (2013) A Bead-Based Suspension Array for the Multiplexed Detection of Begomoviruses and Their Whitefly Vectors. Journal of Virological Methods, 198, 86-94. https://doi.org/10.1016/j.jviromet.2013.12.014
Zhou, Y.C., Noussourou, M., Kon, T., Rojas, M., Jiang, H., Chen, L.F., Gamby, K., Foster, R. and Gilbertson, R.L. (2008) Evidence of Local Evolution of Tomato-Infecting Begomovirus Species in West Africa: Characterization of Tomato Leaf Curl Mali Virus and Tomato Yellow Leaf Crumple Virus from Mali. Archives of Virology, 153, 693-706. https://doi.org/10.1007/s00705-008-0042-9
Hanssen, I.M., Lapidot, M. and Thomma, B. (2010) Emerging Viral Diseases of Tomato Crops. Molecular Plant-Microbe Interactions, 23, 539-548. https://doi.org/10.1094/MPMI-23-5-0539
Varsani, A., Navas-Castillo, J., Moriones, E., Hernandez-Zepeda, C., Idris, A., Brown, J.K., Murilo Zerbini, F. and Martin, D.P. (2014) Establishment of Three New Genera in the Family Geminiviridae: Becurtovirus, Eragrovirus and Turncurtovirus. Archives of Virology, 159, 2193-2203. https://doi.org/10.1007/s00705-014-2050-2
Adams, M.J., King, A.M.Q. and Carstens, E.B. (2013) Ratification Vote on Taxonomic Proposals to the International Committee on Taxonomy of Viruses. Archives of Virology, 158, 2023-2030. https://doi.org/10.1007/s00705-013-1688-5
Stanley, J., Bisaro, D.M., Briddon, R.W., Brown, J.K., Fauquet, C.M., Harrison, B.D., Rybicki, E.P. and Stenger, D.C. (2005) Family Geminiviridae. In: Fauquet, C.M., Mayo, M.A., Maniloff, J., Desselberger, U. and Ball, L.A., Eds., Eighth Report of the International Committee on Taxonomy of Viruses, Elsevier Academic Press, 301-326.
Melgarejo, T.A., Kon, T., Rojas, M.R., Paz-Carrasco, L., Zerbini, F.M. and Gilbertson, R.L. (2013) Characterization of a New World Monopartite Begomovirus Causing Leaf Curl Disease of Tomato in Ecuador and Peru Reveals a New Direction in Geminivirus Evolution. Journal of Virology, 87, 5397-5413. https://doi.org/10.1128/JVI.00234-13
Padidam, M., Beachy, R.N. and Fauquet, C.M. (1995) Tomato Leaf Curl Geminivirus from India Has a Bipartite Genome and Coat Protein Is Not Essential for Infectivity. Journal of General Virology, 76, 25-35. https://doi.org/10.1099/0022-1317-76-1-25
Rochester, D.E., Depaulo, J.J., Fauquet, C.M. and Beachy, R.N. (1994) Complete Nucleotide Sequence of the Geminivirus Tomato Yellow Leaf Curl Virus, Thailand Isolate. Journal of General Virology, 75, 477-485. https://doi.org/10.1099/0022-1317-75-3-477
Lefeuvre, P., Martin, D.P., Harkins, G., Lemey, P., Gray, A.J., Meredith, S., Lakay, F., Monjane, A., Lett, J.M., Varsani, A. and Heydarnejad, J. (2010) The Spread of Tomato Yellow Leaf Curl Virus from the Middle East to the World. Plos Pathogens, 6, e1001164. https://doi.org/10.1371/journal.ppat.1001164
Chen, L.F., Rojas, M., Kon, T., Gamby, K., Xoconostle-Cazares, B. and Gilbertson, R.L. (2009) A Severe Symptom Phenotype in Tomato in Mali Is Caused by a Reassortant between a Novel Recombinant Begomovirus (Tomato Yellow Leaf Curl Mali Virus) and a Betasatellite. Molecular Plant Pathology, 10, 415-430. https://doi.org/10.1111/j.1364-3703.2009.00541.x
Leke, W.N., Brown, J.K., Ligthart, M.E., Sattar, N., Njualema, D.K. and Kvarnheden, A. (2011) Ageratum Conyzoides: A Host to a Unique Begomovirus Disease Complex in Cameroon. Virus Research, 163, 229-237. https://doi.org/10.1016/j.virusres.2011.09.039
Osei, M.K., Akromah, R., Shih, S.L., Lee, L.M. and Green, S.K. (2008) First Report and Molecular Characterization of DNA A of Three Distinct Begomoviruses Associated with Tomato Leaf Curl Disease in Ghana. Plant Disease, 92, 1585. https://doi.org/10.1094/PDIS-92-11-1585B
Lohdi, M.A., Ye, G.N., Weeden, N.F. and Reisch, B.I. (1994) A Simple and Efficient Method for DNA Extraction from Grapevine Cultivars and Vitis Species. Plant Molecular Biology, 12, 6-13. https://doi.org/10.1007/BF02668658
Brown, J.K., Idris, A., Torres-Jerez, I., Banks, G.K. and Wyatt, S.D. (2001) The Core Region of the Coat Protein Gene Is Highly Useful for Establishing the Provisional Identification and Classification of Begomoviruses. Archives of Virology, 146, 1581-1598. https://doi.org/10.1007/s007050170080
Wyatt, S.D. and Brown, J.K. (1996) Detection of Subgroup III Geminivirus Isolates in Leaf Extracts by Degenerate Primers and Polymerase Chain Reaction. Phytopathology, 86, 1288-1293. https://doi.org/10.1094/Phyto-86-1288
Deng, D., Mcgrath, P.F., Robinson, D.J. and Harrison, B.D. (1994) Detection and Differentiation of Whitefly-Transmitted Geminiviruses in Plants and Vector Insects by the Polymerase Chain Reaction with Degenerate Primers. Annals of Applied Biology, 125, 327-336. https://doi.org/10.1111/j.1744-7348.1994.tb04973.x
Rojas, M.R., Gilbertson, R.L., Russell, D.R. and Maxwell, D.P. (1993) Use of Degenerate Primers in the Polymerase Chain Reaction to Detect Whitefly-Transmitted Geminiviruses. Plant Disease, 77, 340-347. https://doi.org/10.1094/PD-77-0340
Anfoka, G.H., Abhary, M. and Nakhla, M.K. (2005) Molecular Identification of Species of the Tomato Yellow Leaf Curl Virus Complex in Jordan. Journal of Plant Pathology, 87, 65-70. https://doi.org/10.4454/jpp.v87i1.898
Larkin, M.A., Blackshields, G., Brown, N.P., Chenna, R., Mcgettigan, P.A., Mcwilliam, H., Valentin, F., Wallace, I.M., Wilm, A., Lopez, R., Thompson, J.D., Gibson, T.J. and Higgins, D.G. (2007) Clustal W and Clustal X Version 2.0. Bioinformatics Applications, 23, 2947-2948. https://doi.org/10.1093/bioinformatics/btm404
Kon, T., Rojas, M.R., Abdourhamane, I.K. and Gilbertson, R.L. (2009) Roles and Interactions of Begomoviruses and Satellite DNAs Associated with Okra Leaf Curl Disease in Mali, West Africa. Journal of General Virology, 90, 1001-1013. https://doi.org/10.1099/vir.0.008102-0
Leke, W.N. and Kvarnheden, A (2014) Mixed Infection by Two West African Tomato-Infecting Begomoviruses and Ageratum Leaf Curl Cameroon Betasatellite in Tomato in Cameroon. Archives of Virology, 159, 3145-3148. https://doi.org/10.1007/s00705-014-2159-3
Inoue-Nagata, A.K., Lima, M.F. and Gilbertson, R.L. (2016) A Review of Geminivirus (Begomovirus) Diseases in Vegetables and Other Crops in Brazil: Current Status and Approaches for Management. Horticultura Brasileira, 34, 8-18. https://doi.org/10.1590/S0102-053620160000100002
Kon, T. and Gilbertson, R.L. (2012) Two Genetically Related Begomoviruses Causing Tomato Leaf Curl Disease in Togo and Nigeria differ in Virulence and Host Range But Do Not Require a Betasatellite for Induction of Disease Symptoms. Archives of Virology, 157, 107-120. https://doi.org/10.1007/s00705-011-1139-0
Tiendrébéogo, F., Lefeuvre, P., Hoareau, M., Traoré, V.S., Barro, N., Péréfarres, F., Reynaud, B., Traoré, A.S., Konaté, G., Lett, J.M. and Traoré, O. (2011) Molecular and Biological Characterization of Pepper Yellow Vein Mali Virus (PepYVMV) Isolates Associated with Pepper Yellow Vein Disease in Burkina Faso. Archives of Virology, 156, 483-487. https://doi.org/10.1007/s00705-010-0854-2
Ha, C., Coombs, S., Revill, P., Harding, R., Vu, M. and Dale, J. (2008) Molecular Characterization of Begomoviruses and DNA satellites from Vietnam: Additional Evidence That the New World Geminiviruses Were Present in the Old World Prior to Continental Separation. Journal of General Virology, 89, 312-326. https://doi.org/10.1099/vir.0.83236-0