Regular higher order repeat structures in beetleTribolium castaneumgenome

Vlahović, Ines; Glunčić, Matko; Rosandić, Marija; Ugarković, Đurđica; Paar, Vladimir (2016) Regular higher order repeat structures in beetleTribolium castaneumgenome. Genome Biology and Evolution, 9 (10). pp. 2668-2680. ISSN 1759-6653

PDF - Published Version - article Available under License Creative Commons Attribution Non-commercial. Download (744kB)

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 (GRM), we discover two regular and six complex HORs in Tribolium castaneum. In organizational pattern, the integrity and homogeneity of regular HORs in Tribolium castaneum resemble human regular HORs (with Tribolium 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 Tribolium 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 noncoding repeats in modulation of gene expression.

Item Type:	Article
Uncontrolled Keywords:	Insect genome ; Tribolium castaneum ; Higher Order Repeats ; Global Repeat Map ; Regulatory elements
Subjects:	NATURAL SCIENCES > Biology
Divisions:	Division of Molecular Biology
Depositing User:	Lorena Palameta
Date Deposited:	15 Apr 2025 11:42
URI:	http://fulir.irb.hr/id/eprint/9696
DOI:	10.1093/gbe/evw174

Actions (login required)

View Item