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Title: Desarrollo de pipelines bioinformáticos aplicados a la mejora genética de plantas
Author: Moncusí Moix, Anna
Tutor: Pizarro Tobías, Paloma
Others: Universitat Oberta de Catalunya
Merino, David  
Keywords: bioinformatics
genetic improvement
Issue Date: Jun-2018
Publisher: Universitat Oberta de Catalunya
Abstract: The use of molecular markers has revolutionized the rhythm and precision of the genetic analysis of plants, being an important discipline to ensure food security by developing varieties that cope with the environmental stresses and contribute towards sustainable development of agriculture. The objective of this research was to develop a pipeline for bioinformatic and biostatistical analysis of the data obtained in the applied biotechnology laboratory of Semillas Fitó company. The first goal was to obtain a function in R to carry out studies of basic parameters of the genotyping data such as heterozygosity, PIC, inbreeding and the percentage of missing data. A function has been obtained in R to encode the data, which allows to realize the second goal, the analysis of the genetic data comparing R, Flapjack, GGT and TASSEL, selecting from a decision matrix R as the best software and with more flexibility to carry out future analyzes. MapDisto and MapMaker have also been compared to analyze the similarities and differences in the construction of linkage maps. The distribution of the SNPs in the chromosomes has also been represented to obtain a global view of the distribution of the data using the PhenoGram software. Finally, the third goal was to develop an R function for the analysis of Marker-Assisted Backcrossing.
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