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Identifier 000426912
Title Evolutionary forces in the genomic neighborhoods of polymorphic transposable elements in plant populations
Alternative Title Μελέτη των των εξελικτικών δυνάμεων στις περιοχές πολυμορφικών μεταθετών στοιχείων σε πληθυσμούς φυτών
Author Γαρεφαλάκη, Ιωάννα Γ.
Thesis advisor Παυλίδης, Παύλος
Reviewer Κοτζαμπάσης, Κυριάκος
Σαρρής, Παναγιώτης
Abstract Transposable Elements (TEs) have been shown to evolve under the effects of either positive and/or negative selection. Some of them is believed to be beneficial to organisms and they can even be domesticated by their host genome, contributing to genomic diversity and adaptation of natural populations or crops. The polymorphic landscape of TE at the population level of many species as well as their adaptive capacity is still unknown. Our goal is first, to characterize the evolutionary forces in the genomic neighborhoods of polymorphic TEs in natural populations of economically important plants. Second, to detect and characterize Transposable Element Insertion Polymorphisms (TIPs) in a large gene pool, and third, to gain access to genetic diversity at species level. Here, we traced TIPs from the previously published 3000 rice genome project database, using Mobile Element Locator Tool (MELT), a software developed specifically for the detection of (TIPs) from large datasets. Using SweeD, a maximum-likelihood approach to infer selective sweeps and localize recent and strong positive selection, we detected the action of recent and strong Darwinian selection in TE polymorphic genomic regions following the insertion of the TE or its absence.
Language English
Subject Evolution
Issue date 2019-11-29
Collection   Faculty/Department--Faculty of Sciences and Engineering--Department of Biology--Post-graduate theses
  Type of Work--Post-graduate theses
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