Identification and molecular characterization of the complete genome of three viruses infecting lulo (<i>Solanum quitoense</i>) crops in Antioquia (Colombia)

Main Article Content


Yuliana Gallo
Luisa Fernanda Toro
Helena Jaramillo
Pablo Andrés Gutiérrez
Mauricio Marín


Lulo is one the most promising crops in the Andean region of Colombia because of its unique organoleptic properties and potential for industrial processing. In Antioquia, there has been a marked increase of lulo plants exhibiting typical symptoms of viral diseases, such as interveinal yellowing, mosaics and sprout deformation. In this research, we studied the presence of viruses infecting lulo in bulked leaf samples from Eastern Antioquia. Viruses were detected using Next-generation sequencing (NGS), with confirmation by RT-PCR. The NGS resulted in a total of 10’777,822 paired-end reads, of which 40.4% corresponded to Cucumber mosaic virus (CMV), 0.09% to Potato yellow vein virus (PYVV) and 0.06% to Alstroemeria necrotic streak virus (ANSV). Complete genome sequences were obtained for each of these viruses. RT-PCR primers for CMV and ANSV detection were designed using the assembled genomes reported in this study. Future research should investigate the effect of these viruses on crop yield, plant longevity and seed quality as well as their means of transmission, host range and specific symptoms.


Article Details


The copyright of the articles and illustrations are the property of the Revista Colombiana de Ciencias Hortícolas. The editors authorize the use of the contents under the Creative Commons license Attribution-Noncommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0). The correct citation of the content must explicitly register the name of the journal, name (s) of the author (s), year, title of the article, volume, number, page of the article and DOI. Written permission is required from publishers to publish more than a short summary of the text or figures.


Agronet. 2018. Área cosechada, producción y rendimiento de lulo, 2007-2015. En:; consulta: enero de 2018.

Álvarez, N. 2016. Caracterización del viroma en tejido foliar de Physalis peruviana en Antioquia utilizando técnicas moleculares. Tesis de pregrado. Facultad de Ciencias, Universidad Nacional de Colombia, Medellín, Colombia.

Álvarez, D., P. Gutiérrez y M. Marín. 2017. Secuenciación del genoma del Potato yellow vein virus (PYVV) y desarrollo de una prueba molecular para su detección. Bioagro 29(1), 3-14.

Ardila, G., G. Fischer y J.C. García. 2015. La poda de tallos y racimos florales afecta la producción de frutos de lulo (Solanum quitoense var. septentrionale). Rev. Colomb. Cienc. Hortic. 9(1), 24-37. Doi:

Bolger, A.M., M. Lohse y B. Usadel. 2014. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30(15), 2114-2120. Doi:

Cámara de Comercio de Bogotá. 2015. Manual de Lulo. Gill Sans, Bogotá, Colombia.

Cardona W., L. Bautista-Montealegre, N. Flórez-Velasco y G. Fischer. 2016. Desarrollo de la biomasa y raíz en plantas de lulo (Solanum quitoense var. septentrionale) en respuesta al sombrío y anegamiento. Rev. Colomb. Cienc. Hortic. 10(1), 53-65. Doi:

Domínguez, M. y J.A. Crespo. 2008. El Tomato spotted wilt virus (TSWV), una seria amenaza para nuestro país. Cuba Tabaco 9(2), 58-67.

Ebratt, E., R. Acosta, O. Martínez, O. Guerrero y W. Turizo. 2013. Tomato spotted wilt virus (TSWV), weeds and thrip vectors in the tomato (Solanum lycopersicum L.) in the Andean region of Cundinamarca (Colombia). Agron. Colomb. 31(1), 58-67.

Franco, G., J. Bernal, M.J. Giraldo y P.J. Tamayo. 2002. El Cultivo del lulo. Manual Técnico. Asohofrucol, Bogotá, Colombia.

Gish, W. y D.J. States. 1993. Identification of protein coding regions by database similarity search. Nat. Genet. 3(3), 266-272. Doi:

Grabherr, M.G., B.J. Haas, M. Yassour, J.Z. Levin, D.A. Thompson, I. Amit, X. Adiconis, L. Fan, R. Raychowdhury, Q. Zeng, Z. Chen, E. Mauceli, N. Hacohen, A. Gnirke, N. Rhind, F. di Palma, B.W. Birren, C. Nusbaum, K. Lindblad-Toh, N. Friedman y A. Regev. 2011. Full-length transcriptome assembly from RNA-seq data without a reference genome. Nat. Biotechnol. 29(7), 644-652. Doi:

Green, J., D. Mollov, L. Tran, R. Álvarez-Quinto, J. Ochoa, D. Quito-Ávila y A. Karasev. 2018. Characterization of a new tymovirus causing stunting and chlorotic mosaic in naranjilla (Solanum quitoense). Plant Dis. 102(5), 911-918. Doi:

Gutiérrez, P.A., J.F. Alzate y M. Marín. 2015. Complete genome sequence of an isolate of Potato virus X (PVX) infecting cape gooseberry (Physalis peruviana) in Colombia. Virus Genes 50(3), 518-522. Doi:

Guzmán, M. y P. Rodríguez. 2010. Susceptibility of Solanum phureja (Juz. et Buk.) to Potato yellow vein virus. Agron. Colomb. 28(2), 219-224. Doi:

Guzmán-Barney, M., L. Franco-Lara, D. Rodríguez, L. Vargas y J.E. Fierro. 2012. Yield losses in Solanum tuberosum Group Phureja cultivar Criolla Colombia in plants with symptoms of PYVV in field trials. Am. J. Pot. Res. 89(6), 438-447. Doi:

Jaramillo, M., P. Gutiérrez, L.E. Lagos, J.M. Cotes y M. Marin. 2011. Detection of a complex of viruses in tamarillo (Solanum betaceum) orchards in the Andean region of Colombia. Trop Plant Pathol. 36(3), 150-159. Doi:

Hassani-Mehraban, A., M. Botermans, J.T.L. Verhoeven, E. Meekes, J. Saaijer, D. Peters, R. Goldbach y R. Kormelink. 2010. A distinct tospovirus causing necrotic streak on Alstroemeria sp. in Colombia. Arch. Virol. 155(3), 423-428. Doi:

Hassani-Mehraban, A, M. Westenberg, J.T.J. Verhoeven, B.T.L.H. van de Vossenberg, R. Kormelink y J.W. Roenhorst. 2016. Generic RT-PCR tests for detection and identification of tospoviruses. J. Virol. Methods 233, 89-96. Doi:

Horvath, J. 1987. Reaction of wild Solanum species to different viruses. J. Indian Potato Assoc. 14(3-4), 104-108.

Jacquemond, M. 2012. Cucumber mosaic virus. Adv. Virus Res. 84, 439-504. Doi:

King, A.M.Q., M.J. Adams, E.B. Carstens, E.J. Lefkowitz (eds). 2012. Virus taxonomy: classification and nomenclature of viruses. Ninth Report of the International Committee on Taxonomy of Viruses. Elsevier; Academic Press, San Diego, CA.

Kumar, S., G. Stecher y K. Tamura. 2016. MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Mol. Biol. Evol. 33(7), 1870-1874. Doi:

Li, H. y R. Durbin. 2009. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25(14), 1754-1760. Doi:

Liu, Y.Y., S.L. Yu, Y.F. Lan, C.L. Zhang, S.S. Hou, X.D. Li, X.Z. Chen y X.P. Zhu. 2009. Molecular variability of five cucumber mosaic virus isolates from China. Acta Virol. 53(2), 89-97. Doi:

Livieratos, I., E. Eliasco, G. Muller, R. Olsthoorn, L. Salazar, W. Pleij y R.H. Coutts. 2004. Analysis of the RNA of Potato yellow vein virus: evidence for a tripartite genome and conserved 3’-terminal structures among members of the genus Crinivirus. J. Gen. Virol. 85(7), 2065-2075. Doi:

Marín, M. y P. Gutiérrez. 2016. Principios de virología molecular de plantas tropicales. Corpoica, Mosquera, Colombia. Doi:

Muñoz-Baena, L., P. Gutiérrez y M. Marín. 2017. Secuenciación del genoma completo del Potato yellow vein virus (PYVV) en tomate (Solanum lycopersicum) en Colombia. Acta biol. Colomb. 22(1), 5-17. Doi:

Nei, M. y S. Kumar. 2000. Molecular evolution and phylogenetics. Oxford University Press, Oxford, UK.

Nouri, S., R. Arevalo, B.W. Falk y R.L. Groves. 2014. Genetic structure and molecular variability of Cucumber mosaic virus isolates in the United States. PLoS ONE 9(5), e96582. Doi:

Olaya, N., N. Velásquez, M. Betancourt, W.J. Cuellar y H.R. Pappu. 2017. First Report of natural infection of tomato (Solanum lycopersicum L.) and bell pepper (Capsicum annuum) by Alstroemeria necrotic streak virus in Colombia. Plant Dis. 101(6), 1065. Doi:

Roossinck, M.J., L. Zhang y K. Hellwald. 1999. Rearrangements in the 5’ nontranslated region and phylogenetic analyses of cucumber mosaic virus RNA3 indicate radial evolution of three subgroups. J. Virol. 73(8), 6752-6758.

Salazar, L., G. Muller, M. Querci, J. Zapata y R. Owens. 2000. Potato yellow vein virus: its host range, distribution in South America and identification as a Crinivirus transmitted by Trialeurodes vaporariorum. Ann. Appl. Biol. 137(1), 7-19. Doi:

Tepfer, M., G. Girardot, L. Feneant, H. Tamarzizt, E. Verdin, B. Moury y M. Jacquemond. 2016. A genetically novel, narrow-host-range isolate of Cucumber mosaic virus (CMV) from Rosemary. Arch. Virol. 161(7), 2013-2017. Doi:

Tamayo, P.J, R.A. Navarro y C. de La Rotta. 2003. Enfermedades del cultivo de lulo en Colombia: guía de diagnóstico y control. Boletín Técnico No.18. Corpoica, Bogotá, Colombia.

Thompson, J., R. Jamie, L. Langenhan, M. Fuchs y K. Perry. 2015. Genotyping of cucumber mosaic virus isolates in western New York State during epidemic years. Characterization of an emergent plant virus population. Virus Res. 210(2), 169-177. Doi:

Torres, R., J. Larenas, C. Fribourg y J. Romero. 2012. Pepper necrotic spot virus, a new tospovirus infecting solanaceous crops in Peru. Arch. Virol. 157(4), 609-615. Doi:

Untergasser, A., I. Cutcutache, T. Koressaar, J. Ye, B.C. Faircloth, M. Remm y S. Rozen. 2012. Primer3- new capabilities and interfaces. Nucl. Acids Res. 40(15), 1-12. Doi:

Vaca, J., I. Torres, J. Peñaranda y F. Aristizábal. 1999. Identificación de potivirus presentes en plantas de lulo (Solanum quitoense lam). Rev. Colomb. Biotecnol. 2(2), 9-15.

Williams, L.V., P.M. López, K. Shohara y E.B. Biderbost. 2001. Occurrence and geographical distribution of tospovirus species infecting tomato crops in Argentina. Plant Dis. 85(12), 1227-1229. Doi:

Zitter, T.A. y J.F. Murphy. 2009. Cucumber mosaic virus. En: The Plant Health Instructor, http://; consulta: enero de 2018.

Zuluaga, M. 1996. Plagas y enfermedades del lulo (Solanum quitoense Lam.). Boletín de Sanidad Vegetal - ICA. 11, 37-41.


Download data is not yet available.