Regular higher order repeat structures in beetle Tribolium castaneum genome

Znanstveni rad - Izvorni znanstveni rad

• Autor: Ines Vlahović; MBZ: 310164
• Autor: Matko Glunčić; MBZ: 256133
• Autor: Marija Rosandić
• Autor: Đurđica Ugarković; MBZ: 3874
• Autor: Vladimir Paar; MBZ: 34485
• Autorova ustanova: Sveučilište u Zagrebu; Prirodoslovno-matematički fakultet; (Fizički odsjek)
• Znanstveno / umjetničko područje, polje i grana: PRIRODNE ZNANOSTI; Biologija
• Znanstveno / umjetničko područje, polje i grana: TEHNIČKE ZNANOSTI; Računarstvo

Sažetak (engleski)

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.

• Ključne riječi (engleski): Insect genome; Tribolium castaneum; Higher Order Repeats; Global Repeat Map; Regulatory elements
• Jezik: engleski
• Vrsta publikacije: Znanstveni rad - Izvorni znanstveni rad
• Status objave: Objavljen
• Vrsta recenzije: Recenziran - međunarodna recenzija
• Verzija publikacije: Objavljena verzija rada (izdavačev PDF)
• Naslov časopisa: Genome Biology and Evolution
• Brojčani podaci: vol. 9, br. 10, str. 2668-2680
• p-ISSN: 1759-6653
• DOI: https://doi.org/10.1093/gbe/evw174
• URN:NBN: urn:nbn:hr:217:107914
• Datum objave publikacije: 2016
• URL dokumenta: https://academic.oup.com/gbe/article/9/10/2668/2669848
• Vrsta resursa: Tekst
• Prava pristupa: Otvoreni pristup
• Javna napomena: © 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.
• Datum i vrijeme pohrane: 2020-02-28 10:34:44