Análisis Bioinformático de Variantes del Viroide del Manchado Solar del Palto y los Genes de Proteínas de Unión a ARN del Cloroplasto de Persea americana
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Date
2017
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Universidad Nacional de Trujillo
Abstract
El Viroide del Manchado Solar del Palto, ASBVd, es un patógeno que genera estragos en el cultivo Persea americana “palto” a nivel mundial. Se conoce que es una estructura de ARN circular de aproximadamente 247 nt y que posee varias cuasi-especies o variantes. En este estudio se realizó un análisis de variabilidad entre la totalidad de las accesiones de variantes del ASBVd en el GenBank, calculando así los porcentajes de mutaciones puntuales. Se encontraron 104 secuencias de ASBVd con 0.251% de deleciones, 0.407% de inserciones, 0.290% de transiciones y 0.568% de transversiones. Se construyó un árbol filogenético, usando el software libre MEGA 7, donde se determinó que las accesiones de ASBVd están divididas en tres subgrupos con inicios de divergencia distintos a partir de su antecesor común. Finalmente, se encontraron los niveles de homología entre genes rbp33 y rbp35, que codifican para las proteínas PARBP33 y PARBP35 que están íntimamente relacionadas con el ASBVD, y RBPs o secuencias similares en otras especies. Los genes rbp33 y rbp35 mostraron 63.270% de homología, rbp33 vs. otras especies mostraron 55.162% de homología y rbp35 vs. otras especies mostraron 51.673% de homología.
Avocado Sunblotch Viroid, ASBVd, is a pathogen that generates problems in the Persea Americana “avocado” cultivar throughout the world. It is known to be a circular RNA structure of approximately 247 nt and that it has many quasi-species or variants. In this study a variability analysis was carried out amongst the totality of variants accessions of ASBVd in the GenBank, thus calculating the percentages of point mutations. 104 ASBVd accessions were found with, 0.251% of deletions, 0.407% of insertions, 0.290% of transitions and 0.568% of transversiones. A phylogenetic tree was built, using the free software MEGA 7, where it was determined that ASBVd accessions were divided into three subgroups that had different divergence initiations from their common antecessor. Finally, the levels of homology between rbp33 and rbp35 genes were found, which code for PARBP33 and PARBP35 proteins that are intimately related to ASBVd, and RBPs or similar sequences in other species. The rbp33 and rbp35 genes showed 63.270% of homology, rbp33 vs. other species showed 55.1673% of homology and rbp35 vs. other species showed 51.673% of homology.
Avocado Sunblotch Viroid, ASBVd, is a pathogen that generates problems in the Persea Americana “avocado” cultivar throughout the world. It is known to be a circular RNA structure of approximately 247 nt and that it has many quasi-species or variants. In this study a variability analysis was carried out amongst the totality of variants accessions of ASBVd in the GenBank, thus calculating the percentages of point mutations. 104 ASBVd accessions were found with, 0.251% of deletions, 0.407% of insertions, 0.290% of transitions and 0.568% of transversiones. A phylogenetic tree was built, using the free software MEGA 7, where it was determined that ASBVd accessions were divided into three subgroups that had different divergence initiations from their common antecessor. Finally, the levels of homology between rbp33 and rbp35 genes were found, which code for PARBP33 and PARBP35 proteins that are intimately related to ASBVd, and RBPs or similar sequences in other species. The rbp33 and rbp35 genes showed 63.270% of homology, rbp33 vs. other species showed 55.1673% of homology and rbp35 vs. other species showed 51.673% of homology.
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Keywords
ASBVd, ARN, mutaciones, árbol filogenético, RBP, homología