International Journal of Genetics and Genomics
Volume 7, Issue 4, December 2019, Pages: 119-123
Received: Sep. 14, 2019;
Accepted: Nov. 4, 2019;
Published: Nov. 19, 2019
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Orakha Odhiambo Patrick, Department of Biological Sciences, Masinde Muliro University of Science and Technology (MMUST), Kakamega, Kenya
Hassan Were, Department of Agriculture and Land Use Management, Masinde Muliro University of Science and Technology (MMUST), Kakamega, Kenya
Millicent Ndonga, Department of Biological Sciences, Masinde Muliro University of Science and Technology (MMUST), Kakamega, Kenya
Mukoye Benard, Department of Biological Sciences, Masinde Muliro University of Science and Technology (MMUST), Kakamega, Kenya
Cowpea is an important legume crop for nutritional security, livestock feed and source of income in Kenya. Cowpea yield in Kenya is very low and declining further due to high incidences of pests and diseases among other factors. Like other pathogens, viruses have continued to cause yield losses of up to 100% depending on the prevailing epidemiological factors. This study had sought to determine the distribution, prevalence and genetic diversity of Cowpea Mild Mottle Virus (CPMMV) in western Kenya. Two surveys were conducted in the main legume growing areas of western Kenya. A total of 139 legume leafy samples were collected from 5 Counties; Bungoma, Nandi, Vihiga, Kakamega and Busia in June and October 2016. Collected samples were analyzed by Double Antibody Sandwich Enzyme Linked Immunosorbent Assay (DAS–ELISA) for detection CPMMV. ELISA was not carried out to test for CPPV1. Total RNA was extracted from the symptomatic leaf samples using RNeasy Mini Kit (Qiagen) according to the manufacturers’ protocol. Next Generation Sequencing (NGS) protocol proceeded. Assembled contigs were then subjected to a BLASTn search against the Genbank database. Phylogenetic analyses and comparisons were performed using MEGA X. Symptoms observed on legumes in the fields were mosaic, severe yellowing, chlorotic blotches and downward leaf curling. Some of the groundnut, cowpea and common bean samples collected in June and October tested CPMMV positive by DAS-ELISA. Legume samples of soybean, lablab, green grams, bambara nuts and legume weed collected tested negative for CPMMV. Results from Next Generation Sequencing technique revealed the presence of Cowpea Polero Virus 1 (CPPV1), the first full-length CPPV1 report and sequence to be reported in Eastern Africa. Phylogenetic analysis of VCP1 Kenyan isolate sequence revealed 98.27% similarity with that of Burkina faso isolate BE 167 (KY364846.1) (Palanga et al., 2017) and they clustered together. Kenyan isolate VCP1 and the Burkina faso BE 167 isolate are closely related. It is not clear if the spread of CPPV1 is through international trade from either country. Revelation of CPPV1 show that there could be more viruses affecting legume crops in the region whose identities are still unknown. There is need to conduct more diagnosis using NGS technique to detect more unknown but occurring viruses in the region. CPPV1 has been found infecting cowpea in Burkina faso, to the best of our knowledge this is the first report of CPPV1 in Kenya.
Orakha Odhiambo Patrick,
First Report of Cowpea Polero Virus 1 (CPPV1) Infecting Cowpea in Kenya, International Journal of Genetics and Genomics.
Vol. 7, No. 4,
2019, pp. 119-123.
Greenlife Crop Protection Africa; (2018). Cowpea Production.
Comlanvi Sitou Akibode; (2011). A plan B paper; Trends in the production, trade and consumption of food legume crops in Sub-Saharan Africa.
FAOSTAT Crop Production Statistics 2011.
Singh, B. B., and Emechebe, A. M. (1997). Advances in research on cowpea, Striga and Alectra. Pages 215–224 in Advances in cowpea research. Copublication of International Institute of Tropical Agriculture (IITA) and Japan International Research Center for Agricultural Sciences (JIRCAS), edited by B. B. Singh, D. R. Mohan Raj, K. E. Dashiell, and L. E. N. Jackai. IITA, Ibadan, Nigeria.
Domier LL (2012) Family Luteoviridae. In: King AMQ, Adams MJ, Carstens EB, Lefkowitz EJ (eds) Virus taxonomy: Ninth report of the International committee on the Taxonomy of Viruses. Elsevier Academic Press, Amsterdam, pp 1045-1053.
Pagan I, Holmes EC, (2010) Long term evolution of the Luteoviridae: Time scale and mode of Virus speciation. J Virol 84: 6177-6187.
Smirnova E, Firth AE, Miller WA, Scheidecker D, Brault V, Reinbold C, Rakotondrafara AM, Chung BY-W, Ziegler-Graff V (2015) Discovery of a small non-AUG initiated ORFin Polero-viruses and Luteoviruses that is required for long distance movement. PLos Pathog 11 (5): e1004868.
Nono-Womdim, R., Swai I. S., Green S. K., Gebre-Selassie K., Latterot H., Marchoux G., and Opena R. T. (1996). Tomato viruses in Tanzania: Identification, distribution and disease incidence. Journal of South African Society of Horticulture 6: 41–44.
Has et al., (2013). De novo transcript sequence reconstruction from RNA-Seq using the Trinity platform for reference generation and analysis.
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: 1547-15498.
Librado & Rozas (2009). DnaSP v5: a software for comprehensive analysis of DNA polymorphism data.
Lotos L, Maliogka VI and Katis NI. New Polero Viruses Associated with Yellowing Symptoms in Different Vegetable Crops in Greece.
Peipei Zhang, Yan Liu, Wenwen Liu, Mengji Cao, Sebastien Massart and Xifeng Wang; (2017). Identification, Characterisation and Full Length Sequence. Analysis of a novel Polero-Virus Associated with Wheat Leaf Yellowing Disease.
Imade Y. NSa and Kehinde T. Kareem. (2015). Additive Interactions of Unrelated Viruses in Mixed Infection of Cowpea (Vigna unguiculata L. Walp).
Akinjogunla, O. J., (2005). Effects of single and mixed inoculation with viruses on symptomatology, growth, yield and nutritive content of cowpea: (Vigna unquiculata) M. Sc. Thesis. University of Lagos, Nigeria.
Amayo, R., Arinaitwe, A. B., Mukasa, S. B., Tusiime, G., Kyamanywa, S., Rubaihayo, P. R. & Edema, R. (2012). Prevalence of viruses infecting cowpea in Uganda and their molecular detection. African Journal of Biotechnology 11: 14132-14139.
E. Palanga., D. P. Martin., S. Galzi., J. Zabre., Z. Bouda., J. M. Neya., M. Sawadogo., O. Traore., M. Peterschmitt., P. Roumagnac and D. Filloux (2014): Complete genome sequences of Cowpea Polero Virus 1 and Cowpea Polero Virus 2 infecting cowpea plants in Burkina Faso.