Title Finding and Visualization of LTR Retrotransposons in Arabidopsis thaliana
Authors Mehmet GEZGİNCİ, Matej LEXA
Abstract Transposons are mobile genetics elemets found in DNA. These elements could contribute to cause diaseses or produce desired genes more. Arabidopsis thaliana has a widespread, small genome and it is an annual plant. Thanks to these properties scientists sequenced all genome of A. thaliana. It is easy to access the sequences via internet. In this study we aimed to find and visualize LTR retrotransposons in A. thaliana. For the study, all genome sequences belonging to A. thaliana, and known LTR retrotransposons downloaded using Internet. To prove existence of transposons in A. thaliana, BLAST was done between the genome sequences and the LTR retrotransposons. Outputs of BLAST were transferred to database created in Sequel Pro application. Using the database algorithms was written in Python. Output of the algorithms was used in Integrative Genomics Viewer application to visualize retrotransposon in A. thaliana. As a result it was proven all chromosomes of A. thaliana had retrotransposons LTR. This information could allow scientists to develop new treatment techniques.
Keywords Arabidopsis thaliana, Bioinformatics, LTR Retrotransposons, Python, Integrative Genomics Viewer
Journal BIBAD - Research Journal of Biological Sciences
Issue Issue 1
Page 019-021
Year 2015
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