Preliminary identification and phylogenetic relationships of begomoviruses associated with Capsicum spp. in the Yucatan peninsula, Mexico

Rosa María Escobedo Gracia-Medrano, Josefina I. Maldonado-Borges, Lucila A. Sánchez-Cach, Yereni Minero-García, Cecilia Hernández-Zepeda, Oscar A. Moreno-Valenzuela

Abstract


Pepper plants with viral symptoms were collected in the Yucatan Peninsula, Mexico (YPM) with the objective to characterize the partial identity and the genetic and phylogenetic relationship of the begomoviruses infecting different pepper species, including Capsicum chinense, various C. annuum landraces, C. frutescens, C. a. var. aviculare, as well as some weeds. The leaf samples were collected during two severe whitefly infestation seasons. Total genomic DNA from the sampled plants was extracted and a fragment of the begomoviruses was amplified using universal primers. Amplicons obtained were sequenced and sequences were used for genetic and phylogenetic analysis. Our results demonstrate that 90.1 % of the total sampled plants (151) were infected with begomoviruses. The data identified Pepper golden mosaic virus (PepGMV) as the most frequent species found within cultivated, semi-cultivated, and wild-analyzed samples. In addition, sequence analysis indicates the presence of Euphorbia mosaic virus-Yucatán Peninsula (EuMV-YP) infecting a Habanero chili plant, as well as the predominance of PepGMV in different weed plant species. Genetic variation based on nucleotide distance analysis from partial DNA-A begomovirus sequences indicated that the PepGMV isolates were closely related among them sharing 95 to 99% nucleotide sequence identity. Data showed that begomovirus that infected the sampled plants included the partially identified species of PepGMV, Pepper huasteco yellow vein virus (PHYVV), Tomato severe leaf curl virus (ToSLCV), Tomato yellow leaf curl virus (TYLCV) and EuMV-YP.

Keywords


Capsicum annuum landraces; habanero chili; phylogeny; weed plants

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References


Ala-Poikela M, Svensson E, Rojas A, Horko T, Paulin L, Valkonen JPT and Kvarnheden A. 2005. Genetic diversity and mixed infections of begomoviruses infecting tomato, pepper and cucurbit crops in Nicaragua. Plant Pathology 54: 448-459. https://doi.org/10.1111/j.1365-3059.2005.01226.x.

Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W and Lipman DJ. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleid Acid Research 25: 3389-3402. https://doi.org/10.1093/nar/25.17.3389.

Anaya-Lopez JL, Torres-Pacheco I, Gonzalez-Chavira M, Garzon-Tiznado JA and Pons-Hernandez JL. 2003. Resistance to geminivirus mixed infections in mexican wild peppers. HortScience 38: 251-255. https://doi.org/10.21273/HORTSCI.38.2.251.

Ascencio-Ibañez JT, Diaz-Plaza R, Mendez-Lozano J, Monsalve-Fonnegra ZI, Argüello-Astorga GR and Rivera-Bustamante RF. 1999. First Report of Tomato yellow leaf curl Geminivirus in Yucatán, México. Plant Disease 83: 1178. https://doi.org/10.1094/PDIS.1999.83.12.1178A.

Bosland PW and Votova EJ. 2000. Peppers: Vegetable and spice Capsicums, Crop Production Science in Horticulture 12, CABI International UK. https://doi.org/10.1079/9781845938253.0000.

Brown JK, Frohlich D and Rosell R. 1995. The sweetpotato or silverleaf whiteflies: biotypes of Bemisia tabaci or a species complex? Annual Review of Entomology 40: 511-534. https://www.annualreviews.org/toc/ento/40/1.

Brown JK, Idris AM, Ostrow KM, Goldberg N, French R and Stenger DC. 2005. Genetic and Phenotypic Variation of the Pepper golden mosaic virus complex. Phytopathology 95: 1217-1224. https://doi.org/10.1094/PHYTO-95-1217.

Brown JK, Idris AM, Torres-Jerez I, Banks GK and Wyatt 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.

Carrillo-Tripp J, Lozoya-Gloria E and Rivera-Bustamante RF. 2007. Symptom remission and specific resistance of pepper plants after infection by Pepper golden mosaic virus. Phytopathology 97: 51-59. https://doi.org/10.1094/PHYTO-97-0051.

Cazares-Sanchez E, Ramirez-Vallejo P, Castillo-Gonzalez F, Soto-Hernandez M, Rodriguez-Gonzalez MT y Chavez-Servia JL. 2005. Capsaicinoides y preferencia de uso en diferentes morfotipos de chile (Capsicum annuum L.) del Centro-Oriente de Yucatán. Agrociencia 39: 627-638. https://www.redalyc.org/pdf/302/30239606.pdf.

Dellaporta SL, Wood J and Hicks JB. 1983. A Plant DNA Minipreparation: Version II. Plant Molecular Biology Reports 1: 19-21. https://link.springer.com/content/pdf/10.1007/BF02712670.pdf.

Duffy S and Holmes EC. 2007. Multiple introductions of the Old World Begomovirus Tomato yellow leaf curl virus into the New World. Applied Environmental Microbiology 73: 7114-7117. https://doi.or/10.1128/AEM.01150-07.

Echevarría-Machado I, Sanchez-Cach LA, Hernandez-Zepeda C, Rivera-Madrid R and Moreno-Valenzuela OA. 2005. A simple and efficient method for isolation of DNA in high mucilaginous plant tissues. Molecular Biotechnology 31: 129-136. https://doi.org/10.1385/MB:31:2:129.

Fauquet CM, Bisaro DM, Briddon RW, Brown JK, Harrison BD, Rybicki EP, Stenger DC and Stanley J. 2003. Revision of taxonomic criteria for species demarcation in the family Geminiviridae, and an updated list of begomovirus species. Archives of Virology 148: 405-421. https://doi.org/10.1007/s00705-002-0957-5.

Fauquet CM and Stanley J. 2005. Revising the way we conceive and name viruses below the species level: A review of geminivirus taxonomy calls for new standardized isolate descriptors. Archives of Virology 150: 2151-2179. https://doi.org/10.1007/s00705-005-0583-0.

Fernandes JJ, Carvalho MG, Andrade EC, Brommonschenkel SH, Fontes EPB and Zerbini FM. 2006. Biological and molecular properties of Tomato rugose mosaic virus (ToRMV), a new tomato-infecting begomovirus from Brazil. Plant Pathology 55: 513-522. https://doi.org/10.1111/j.1365-3059.2006.01395.x.

Fiallo-Olive E, Lett JM, Martin D P, Roumagnac P, Varsani A, Murilo-Zerbini F and Navas-Castillo J. 2021. ICTV Virus Taxonomy Profile: Geminiviridae 2021. Journal of General Virology 102: 1-2. https://doi.org/10.1099/jgv.0.001696.

Fiallo-Olive E, Rivera-Bustamante RF and Martinez-Zubiaur Y. 2010. First report of tobacco as a natural host of Euphorbia mosaic virus in Cuba. Plant Pathology 59: 795. https://doi.org/10.1111/j.1365-3059.2009.02238.x.

Font MI, Rubio L, Martínez-Culebras PV and Jordá C. 2007. Genetic structure and evolution of natural populations of viruses causing the tomato yellow leaf curl disease in Spain. Virus Research 128: 43-51. https://doi.org/10.1016/j.virusres.2007.04.003.

Garcia-Arenal F, Fraile A and Malpica JM. 2003. Variation and evolution of plant virus populations. International Microbiology 6: 225-232. https://doi.org/10.1007/s10123-003-0142-z.

Garrido-Ramirez ER and Gilbertson RL. 1998. First report of tomato mottle geminivirus infecting tomatoes in Yucatan, Mexico. Plant Disease 82: 592. https://doi.org/10.1094/PDIS.1998.82.5.592B.

Garzon-Tiznado JA, Acosta-Garcia G, Torres-Pacheco I, Gonzalez-Chavira M, Rivera-Bustamante RF, Maya-Hernandez V y Guevara-Gonzalez RG. Presencia de los geminivirus huasteco del chile (PHV), texano del chile variante Tamaulipas (TPV-T) y Chino del tomate (CdTV) en los estados de Guanajuato, Jalisco y San Luis Potosí, México. Revista Mexicana de Fitopatología 20: 45-52. https://www.redalyc.org/pdf/612/61220108.pdf.

Godinez-Hernández Y, Anaya-Lopez JL, Diaz-Plaza R, Gonzalez-Chavira M and Torres-Pacheco I. 2001. Characterization of resistance to Pepper Huasteco Geminivirus in chili peppers from Yucatán, México. HortScience 36: 139-142. https://doi.org/10.21273/HORTSCI.36.1.139.

Gregorio-Jorge J, Bernal-Alcocer A, Bañuelos-Hernandez B, Alpuche-Solís AG, Hernandez-Zepeda C, Moreno-Valenzuela O, Frías-Treviño G and Argüello-Astorga GR. 2010. Analysis of a new strain of Euphorbia mosaic virus with distinct replication specificity unveils a lineage of begomoviruses with short rep sequences in the DNA-B intergenic región. Virology Journal 7: 275. https://doi.org/10.1186/1743-422X-7-275.

Hernandez-Espinal LH, Enríquez-Verdugo I, Melgoza-Villagomez CM, Retes-Manjarrez JE, Velarde-Felix S, Linares-Flores PJ y Garzon-Tiznado JA. 2018. Análisis filogenético y distribución de begomovirus en el cultivo del chile (Capsicum annuum L.) en Sinaloa, México. Revista Fitotecnia Mexicana 41: 149-157. https://doi.org/10.35196/rfm.2018.2.149-157.

Hernandez-Verdugo S, Guevara-Gonzalez RG, Rivera-Bustamante RF and Oyama K. 2001. Screening wild plants of Capsicum annuum for resistance to Pepper huasteco virus (PHV): presence of viral DNA and differentiation among populations. Euphytica 122: 31-36. https://doi.org/10.1023/A:1012624830340.

Hernandez-Zepeda C, Idris AM, Carnevali G, Brown JK and Moreno-Valenzuela O. 2007a. Molecular characterization and experimental host range of Euphorbia mosaic virus-Yucatan Peninsula, a begomovirus species in the Squash leaf curl virus clade. Plant Patholology 56: 763-770. https://doi.org/10.1111/j.1365-3059.2007.01652.x.

Hernandez-Zepeda C, Idris AM, Carnevali G, Brown JK and Moreno-Valenzuela O. 2007b. Molecular characterization and phylogenetic relationships of two new bipartite begomovirus infecting malvaceous plants in Yucatan, Mexico Virus Genes 35: 369-377. https://doi.org/10.1007/s11262-007-0080-5.

Hernandez-Zepeda C, Idris AM, Carnevali G, Brown JK and Moreno-Valenzuela OA. 2007c. Preliminary identification and coat protein gene phylogenetic relationships of begomoviruses associated with native flora and cultivated plants from the Yucatan Peninsula of Mexico. Virus Genes 35: 825-833. https://doi.org/10.1007/s11262-007-0149-1.

Jones DR. 2003. Plant Viruses transmitted by whiteflies. European Journal of Plant Pathology 109: 195-219. https://doi.org/10.1023/A:1022846630513.

Lotrakul P, Valverde R A, De La Torre R, Sim J and Gómez A. 2000. Occurrence of a strain of Texas pepper virus in Tabasco and Habanero pepper in Costa Rica. Plant Disease 84: 168-172. https://doi.org/10.1094/PDIS.2000.84.2.168.

Mendez-Lozano J, Torres-Pacheco I, Fauquet CM, and Rivera-Bustamante RF. 2003. Interactions Between Geminiviruses in a naturally occurring mixture: Pepper huasteco virus and Pepper golden mosaic virus. Phytopathology 93: 270-277. https://doi.org/10.1094/PHYTO.2003.93.3.270.

Morales-Aguilar JJ, Rodriguez-Negrete EA, Camacho-Beltran E, Lopez-Luque CA, Leyva-Lopez NE, Jimenez-Díaz F, Voloudakis A, Santos-Cervantes ME and Mendez-Lozano J. 2019. Identification of Tomato yellow leaf curl virus, Pepper huasteco yellow vein virus and Pepper golden mosaic virus associated with pepper diseases in northern Mexico. Canadian Journal of Plant Pathology 41: 544-550. https://doi.org/10.1080/07060661.2019.1591509.

Morales F, Hilje L, Vallejos J, Sibaja G, Araya C and Araya R. 2005. Whiteflies as vectors of viruses in legume and vegetable mixed cropping systems in the tropical lowlands of Central America, Mexico and the Caribbean: Costa Rica, 217-221. In: Whitefly and Whitefly-borne Viruses in the Tropics: Building a Knowledge Base for Global Action. editors: Anderson P. K. and Morales F. J. CIAT publication No. 34, Cali, CO. http://ciat-library.ciat.cgiar.org/Articulos_CIAT/9586940748.pdf.

Rausch FF, de Albuquerque LC, de Brito GL, Boiteux LS, de Ávila AC and Inoue-Nagata K. 2008. Diversity and prevalence of Brazilian bipartite begomovirus species associated to tomatoes. Virus Genes 36: 251-258. https://doi.org/10.1007/s11262-007-0184-y.

Polston JE and Anderson PK. 1997. The Emergence of Whitefly-Transmitted Geminiviruses in Tomato in the Western Hemisphere. Plant Disease 81: 1358. https://doi.org/10.1094/PDIS.1997.81.12.1358.

Rodelo-Urrego M, García-Arenal F and Pagan I. 2015. The effect of ecosystem biodiversity on virus genetic diversity depends on virus species: A study of chiltepin-infecting begomoviruses in Mexico. Virus Evolution 1:1-13. https://doi.org/10.1093/ve/vev004.

Rodriguez-Negrete EA, Morales-Aguilar JJ, Dominguez-Duran G, Torres-Devora G, Camacho-Beltran E, Leyva-Lopez NE, Voloudakis AE, Bejarano ER and Mendez-Lozano J. 2019. High-throughput sequencing reveals differential begomovirus species diversity in non-cultivated plants in Northern-Pacific Mexico. Viruses 11: 594. https://doi.org/10.3390/v11070594.

Seal SE, vandenBosch F and Jeger MJ. 2006. Factors influencing begomovirus evolution and their increasing global significance: implications for sustainable control. Critical Reviews in Plant Sciences 25: 23-46. https://doi.org/10.1080/07352680500365257.

Tamura K, Stecher G and Kumar S. 2021. MEGA 11: Molecular Evolutionary Genetics Analysis (MEGA) Software version 11. Molecular Biology and Evolution 38: 3022–3027. https://doi.org/10.1093/molbev/msab120.

Torres-Herrera SI, Romero-Osorio A, Moreno-Valenzuela O, Pastor-Palacios G, Cardenas-Conejo Y, Ramirez-Prado JH, Riego-Ruiz L, Minero-Garcia Y, Ambriz-Granados S and Argüello-Astorga GR. 2019. A lineage of begomoviruses encode REP and AC4 proteins of enigmatic ancestry: hints on the evolution of geminiviruses in the New World. Viruses 11: 644. https://doi.org/10.3390/v11070644.

Torres-Pacheco I, Garzon-Tiznado JA, Brown JK, Becerra-Flora A and Rivera-Bustamante RF. 1996. Detection and distribution of geminiviruses in Mexico and the Southern United States. Phytopathology 86: 1186-1192. https://doi.org/10.1094/phyto-86-1186.

Villanueva-Alonzo HJ, Us-Camas RY, Lopez-Ochoa LA, Robertson D, Guerra-Peraza O, Minero-Garcia Y and Moreno-Valenzuela OA. 2013. A new virus-induced gene silencing vector based on Euphorbia mosaic virus-Yucatan peninsula for NPR1 silencing in Nicotiana benthamiana and Capsicum annuum var. Anaheim. Biotechnology Letters 35: 811-823. https://doi.org/10.1007/s10529-013-1146-1.




DOI: http://dx.doi.org/10.18781/R.MEX.FIT.2206-6

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