Regular Higher Order Repeat Structures in Beetle Tribolium castaneum Genome

Vlahović, Ines and Glunčić, Matko and Rosandić, Marija and Ugarković, Đurđica and Paar, Vladimir (2017) Regular Higher Order Repeat Structures in Beetle Tribolium castaneum Genome. Genome Biology and Evolution, 9 (10). pp. 2668-2680. ISSN 1759-6653

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Abstract

Higher order repeats (HORs) containing tandems of primary and secondary repeat units (head-to-tail “tandem within tandem pattern”), referred to as regular HORs, are typical for primate alpha satellite DNAs and most pronounced in human genome. Regular HORs are known to be a result of recent evolutionary processes. In non-primate genomes mostly so called complex HORs have been found, without head to tail tandem of primary repeat units. In beetle Tribolium castaneum, considered as a model case for genome studies, large tandem repeats have been identified, but no HORs have been reported. Here, using our novel robust repeat finding algorithm Global Repeat Map, we discover two regular and six complex HORs in T. castaneum. In organizational pattern, the integrity and homogeneity of regular HORs in T. castaneum resemble human regular HORs (with T. castaneum monomers different from human alpha satellite monomers), involving a wider range of monomer lengths than in human HORs. Similar regular higher order repeat structures have previously not been found in insects. Some of these novel HORs in T. castaneum appear as most regular among known HORs in non-primate genomes, although with substantial riddling. This is intriguing, in particular from the point of view of role of non-coding repeats in modulation of gene expression

Item Type: Article
Date: 2017
Subjects: NATURAL SCIENCES > Physics
NATURAL SCIENCES > Physics > Biophysics and Medical Physics
Additional Information: © The Author(s) 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. Accepted: 21 July 2016.
Divisions: Faculty of Science > Department of Physics
Publisher: Oxford University Press
Depositing User: Gordana Stubičan Ladešić
Date Deposited: 10 Mar 2018 19:05
Last Modified: 10 Mar 2018 19:05
URI: http://digre.pmf.unizg.hr/id/eprint/5784

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