“Interacción entre la proteína de resistencia de yuca RXAM2 y efectores de Xanthomonas phaseoli pv. manihotis”

The Cassava bacterial blight is a disease caused by the bacterium Xanthomonas phaseoli pv. manihotis (Xpm) and has been reported in all regions of the world where cassava is cultivated. The most economical and effective strategy for the management of the disease is the use of resistant varieties, bu...

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Main Author:	Silva Fernández, Lesly Ximena
Other Authors:	Díaz Tatis, Paula Alejandra
Format:	Tesis y disertaciones (Maestría y/o Doctorado)
Language:	spa
Published:	Universidad Antonio Nariño 2022
Subjects:	Inmunidad vegetal Bacteriosis vascular Modelamiento estructural Acoplamiento molecular Polimorfismos 540 Plant immunity Cassava bacterial blight Structural modeling Molecular docking Polymorphisms
Online Access:	http://repositorio.uan.edu.co/handle/123456789/6385
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author	Silva Fernández, Lesly Ximena
author2	Díaz Tatis, Paula Alejandra
author_facet	Díaz Tatis, Paula Alejandra Silva Fernández, Lesly Ximena
author_sort	Silva Fernández, Lesly Ximena
collection	DSpace
description	The Cassava bacterial blight is a disease caused by the bacterium Xanthomonas phaseoli pv. manihotis (Xpm) and has been reported in all regions of the world where cassava is cultivated. The most economical and effective strategy for the management of the disease is the use of resistant varieties, but there have been few studies aimed at understanding the molecular basis of the resistance of cassava to this pathogen. Recently it was identified that the NLR protein named RXM2 confers resistance to different strains of Xpm. However, the molecular mechanism used by this protein to recognize Xpm effectors is unknown. This project allowed the generation of the possible three-dimensional structure of RXAM2 and XopE1, XopE4, XopC2, XopAK and XopV effectors of Xpm, by homology modeling. The LRR domain was identified as the possible responsible for the recognition of the effectors, through rigid and flexible molecular docking. On the other hand, it was possible to identify sites under negative selection in 65 Xpm strains, which suggests a high conservation between the effectors present in strains from different biogeographic regions.
format	Tesis y disertaciones (Maestría y/o Doctorado)
id	repositorio.uan.edu.co-123456789-6385
institution	Repositorio Digital UAN
language	spa
publishDate	2022
publisher	Universidad Antonio Nariño
record_format	dspace
spelling	repositorio.uan.edu.co-123456789-63852024-10-09T22:37:17Z “Interacción entre la proteína de resistencia de yuca RXAM2 y efectores de Xanthomonas phaseoli pv. manihotis” Silva Fernández, Lesly Ximena Díaz Tatis, Paula Alejandra Reyes Guzmán, Edwin Alfredo Inmunidad vegetal Bacteriosis vascular Modelamiento estructural Acoplamiento molecular Polimorfismos 540 Plant immunity Cassava bacterial blight Structural modeling Molecular docking Polymorphisms The Cassava bacterial blight is a disease caused by the bacterium Xanthomonas phaseoli pv. manihotis (Xpm) and has been reported in all regions of the world where cassava is cultivated. The most economical and effective strategy for the management of the disease is the use of resistant varieties, but there have been few studies aimed at understanding the molecular basis of the resistance of cassava to this pathogen. Recently it was identified that the NLR protein named RXM2 confers resistance to different strains of Xpm. However, the molecular mechanism used by this protein to recognize Xpm effectors is unknown. This project allowed the generation of the possible three-dimensional structure of RXAM2 and XopE1, XopE4, XopC2, XopAK and XopV effectors of Xpm, by homology modeling. The LRR domain was identified as the possible responsible for the recognition of the effectors, through rigid and flexible molecular docking. On the other hand, it was possible to identify sites under negative selection in 65 Xpm strains, which suggests a high conservation between the effectors present in strains from different biogeographic regions. La bacteriosis vascular de la yuca es una enfermedad ocasionada por la bacteria Xanthomonas phaseoli pv. manihotis (Xpm) y se ha reportado en todas las regiones del mundo donde se cultiva la yuca. La estrategia más económica y efectiva para el manejo de la enfermedad es la utilización de variedades resistentes, pero han sido pocos los estudios encaminados a entender la base molecular de la resistencia de la yuca a este patógeno. Recientemente se identificó que la proteína NLR llamada RXAM2 confiere resistencia a diferentes cepas de Xpm. Sin embargo, se desconoce el mecanismo molecular que emplea esta proteína para reconocer efectores de Xpm. Este proyecto permitió la generación de la posible estructura tridimensional de RXAM2 y XopE1, XopE4, XopC2, XopAK y XopV efectores de Xpm, mediante modelado por homología. Se identificó principalmente al dominio LRR como el posible responsable del reconocimiento de los efectores, a través de acoplamiento rígido y flexible. Por otro lado, se logró identificar, sitios sujetos a selección negativa en 65 cepas de Xpm, lo que sugiere una alta conservación entre los efectores presentes en cepas de diferentes regiones biogeográficas. Magíster en Bioquímica Maestría Presencial Investigación 2022-04-30T16:42:43Z 2022-04-30T16:42:43Z 2021-11-24 Tesis y disertaciones (Maestría y/o Doctorado) info:eu-repo/semantics/acceptedVersion http://purl.org/coar/resource_type/c_bdcc http://purl.org/coar/version/c_970fb48d4fbd8a85 Tesis/Trabajo de grado - Monografía - Maestría http://repositorio.uan.edu.co/handle/123456789/6385 Almagro Armenteros, J. J., Sønderby, C. K., Sønderby, S. K., Nielsen, H., & Winther, O. (2017). DeepLoc: prediction of protein subcellular localization using deep learning. Bioinformatics, 33(21), 3387-3395. https://doi.org/10.1093/bioinformatics/btx548 Aristizábal, J., & Sánchez, T. (2007). Guía técnica para producción y análisis de almidón de yuca. FAO. http://www.fao.org/documents/card/es/c/cd9e42e3-7200-5990-b0a7-073d05bbcb2a/ Arrieta Ortiz, M. L., Rodríguez R, L. M., Pérez Quintero, Á. L., Poulin, L., Díaz, A. C., Arias Rojas, N., Trujillo, C., Restrepo Benavides, M., Bart, R., Boch, J., Boureau, T., Darrasse, A., David, P., de Bernonville, T. D., Fontanilla, P., Gagnevin, L., Guérin, F., Jacques, M. A., Lauber, E., … Bernal, A. (2013). Genomic Survey of Pathogenicity Determinants and VNTR Markers in the Cassava Bacterial Pathogen Xanthomonas axonopodis pv. Manihotis Strain CIO151. PLoS ONE, 8(11). https://doi.org/10.1371/journal.pone.0079704 Bagaria, A., Jaravine, V., Huang, Y. J., Montelione, G. T., & Güntert, P. (2012). Protein structure validation by generalized linear model root-mean-square deviation prediction. Protein Science, 21(2), 229-238. 10.1002/pro.2007 Bart, R., Cohn, M., Kassen, A., McCallum, E. J., Shybut, M., Petriello, A., Krasileva, K., Dahlbeck, D., Medina, C., Alicai, T., Kumar, L., Moreira, L. M., Rodrígues Neto, J., Verdier, V., Santana, M. A., Kositcharoenkul, N., Vanderschuren, H., Gruissem, W., Bernal, A., & Staskawicz, B. J. (2012). High-throughput genomic sequencing of cassava bacterial blight strains identifies conserved effectors to target for durable resistance. Proceedings of the National Academy of Sciences of the United States of America, 109(28), 1972-1979. https://doi.org/10.1073/pnas.1208003109 Bart, R. S., & Taylor, N. J. (2017). New opportunities and challenges to engineer disease resistance in cassava, a staple food of African small-holder farmers. PLoS Pathog, 13(5). https://doi.org/10.1371/journal.ppat.1006287 Bastard, K., Saladin, A., & Prévost, C. (2011). Accounting for Large Amplitude Protein Deformation during in Silico Macromolecular Docking. International journal of molecular sciences, 12(2), 1316-1333. https://doi.org/10.3390/ijms12021316 Bent, A., & Mackey, D. (2007). The New Paradigm and a Lifetime Supply of Questions. Annual review of phytopathology, 45, 399-436. https://doi.org/10.1146/annurev.phyto.45.062806.094427 Bentham, A. R., Zdrzalek, R., De la Concepcion, J. C., & Banfield, M. J. (2018). Uncoiling CNLs: Structure/Function Approaches to Understanding CC Domain Function in Plant NLRs. Plant and Cell Physiology, 59(12), 2398-2408. https://doi.org/10.1093/pcp/pcy185 Bernhofer, M., Dallago, C., Karl, T., Satakopam, V., Heinzinger, M., Littmann, M., Olenyi, T., Qiu, J., Schütze, K., Yachdav, G., Ashkenazy, H., Ben-Tal, N., Bromberg, Y., Goldberg, T., Kajan, L., O'Donoghue, S., Sander, C., Schafferhans, A., Schlessinger, A., … Rost, B. (2021). PredictProtein - Predicting Protein Structure and Function for 29 Years. Nucleic Acids Research, 49(1), 535-540. https://doi.org/10.1093/nar/gkab354 instname:Universidad Antonio Nariño reponame:Repositorio Institucional UAN repourl:https://repositorio.uan.edu.co/ spa Acceso abierto Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) https://creativecommons.org/licenses/by-nc-nd/4.0/ info:eu-repo/semantics/openAccess http://purl.org/coar/access_right/c_abf2 application/pdf application/pdf application/pdf Universidad Antonio Nariño Maestría en Bioquímica Facultad de Ciencias Bogotá - Circunvalar
spellingShingle	Inmunidad vegetal Bacteriosis vascular Modelamiento estructural Acoplamiento molecular Polimorfismos 540 Plant immunity Cassava bacterial blight Structural modeling Molecular docking Polymorphisms Silva Fernández, Lesly Ximena “Interacción entre la proteína de resistencia de yuca RXAM2 y efectores de Xanthomonas phaseoli pv. manihotis”
title	“Interacción entre la proteína de resistencia de yuca RXAM2 y efectores de Xanthomonas phaseoli pv. manihotis”
title_full	“Interacción entre la proteína de resistencia de yuca RXAM2 y efectores de Xanthomonas phaseoli pv. manihotis”
title_fullStr	“Interacción entre la proteína de resistencia de yuca RXAM2 y efectores de Xanthomonas phaseoli pv. manihotis”
title_full_unstemmed	“Interacción entre la proteína de resistencia de yuca RXAM2 y efectores de Xanthomonas phaseoli pv. manihotis”
title_short	“Interacción entre la proteína de resistencia de yuca RXAM2 y efectores de Xanthomonas phaseoli pv. manihotis”
title_sort	interaccion entre la proteina de resistencia de yuca rxam2 y efectores de xanthomonas phaseoli pv manihotis
topic	Inmunidad vegetal Bacteriosis vascular Modelamiento estructural Acoplamiento molecular Polimorfismos 540 Plant immunity Cassava bacterial blight Structural modeling Molecular docking Polymorphisms
url	http://repositorio.uan.edu.co/handle/123456789/6385
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