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Master Thesis

Sélection de gènes candidats chez des rosiers des XVIIIe et XIXe siècles et mise en place d'une stratégie de traitement des données permettant l'étude de leur diversité

Abstract : This report is part of the FloRHiGe project and more particularly the diversity study of candidate genes of roses which were selected during the 18th and 19th centuries, period when rose breeding was abundant. This report focused on the reflections and the strategies organized upstream to the diversity study of candidate genes. Its aim is to explain the choice of these genes and to develop the strategy of data processing organized. Ten candidate genes were selected for their role in the determinism of interest characters. Then a strategy of primers creation was developed to amplify in a specific way the genes while respecting constraints which were identified and ranked. The data processing on Galaxy allowed us to obtain clean mapped reads of good quality. The reflection concerning the choice of the parameters to be fixed for the quality trimming served to realize a compromise between the preservation of the poor quality bases and the loss of information due to the deletion of these. A method of sliding window was retained. The mapping software was chosen in a reasoned way by watching the good management of indels and SNP’s positions. Finally, an Excel® code was created for the reads assembly, the elimination of the sequencing errors and the haplotypes countig.
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Master Thesis
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https://dumas.ccsd.cnrs.fr/dumas-01203410
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Submitted on : Wednesday, September 23, 2015 - 8:59:29 AM
Last modification on : Monday, July 6, 2020 - 3:38:21 PM
Long-term archiving on: : Tuesday, December 29, 2015 - 9:27:50 AM

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Nathalie Jacquier. Sélection de gènes candidats chez des rosiers des XVIIIe et XIXe siècles et mise en place d'une stratégie de traitement des données permettant l'étude de leur diversité. Sciences agricoles. 2015. ⟨dumas-01203410⟩

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