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Identifier

000434221

Title

Exons going in circles: computational approaches reveal universal genomic architecture design of the CircExons

Alternative Title

Εξόνια που κάνουν κύκλους: υπολογιστικές προσεγγίσεις αποκαλύπτουν γενικό γενομικό αρχιτεκτονικό σχεδιασμό των κυκλικών εξονίων.

Author

Βαραμογιάννη Μαμάτση, Βασιλική Α.

Thesis advisor

Νικολάου, Χριστόφορος

Reviewer

Παυλίδης, Παύλος
Ηλιόπουλος, Ιωάννης

Abstract

Circular Exons (or CircExons) are single stranded RNA molecules, covalenty closed and belonged to the category of circRNAs (non conding RNAs). The mechanism of their production is assumed to be a special form of RNA splicing, called Back-Splicing, where the splicing machinery ligates a downstream splice donor site reversely with an upstream splice acceptor site, forming a 3-5 phosphodiester bond. In addition, CircExons are not randomly produced but each cell line produces specific CircExons. However, the mechanisms that result in this kind of strict recognition and production of the circular exons are remained unknown. In the present study, which was accomplished in the context of the Master Program ”Molecular Biology and Biomedicine”, is presented a genomic architecture pattern which corresponds to different human cell types and concerns DNA sequence and nucleosome positioning. In particular, here we support that CircExons present lower GC content but stronger nuclesome positioning than linear exons. Additionally, we believe that upstream linear exons (the circular ones) play a key role in signaling circular exons. These patterns seem to represent a universal genomic design for the human CircExon recognition and probably justifies the phenomenon of back splicing, instead of other forms of alternative splicing.

Language

English

Subject

Back splicing

Bioinformatics

Circular RNA

GC content

Homo sapiens

Nucleosomes

Real time detection

Ανάποδο μάτισμα

Βιοπληροφορική