Genome-wide discovery of G-quadruplexes in barley

Abstract G-quadruplexes (G4s) are four-stranded nucleic acid structures with closely spaced guanine bases forming square planar G-quartets. Aberrant formation of G4 structures has been associated with genomic instability. However, most plant species are lacking comprehensive studies of G4 motifs. In...

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Autores principales:	H. Busra Cagirici, Hikmet Budak, Taner Z. Sen
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/2a87a3fa375e48a0890a195f9353dd58
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spelling	oai:doaj.org-article:2a87a3fa375e48a0890a195f9353dd582021-12-02T14:30:52ZGenome-wide discovery of G-quadruplexes in barley10.1038/s41598-021-86838-32045-2322https://doaj.org/article/2a87a3fa375e48a0890a195f9353dd582021-04-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-86838-3https://doaj.org/toc/2045-2322Abstract G-quadruplexes (G4s) are four-stranded nucleic acid structures with closely spaced guanine bases forming square planar G-quartets. Aberrant formation of G4 structures has been associated with genomic instability. However, most plant species are lacking comprehensive studies of G4 motifs. In this study, genome-wide identification of G4 motifs in barley was performed, followed by a comparison of genomic distribution and molecular functions to other monocot species, such as wheat, maize, and rice. Similar to the reports on human and some plants like wheat, G4 motifs peaked around the 5′ untranslated region (5′ UTR), the first coding domain sequence, and the first intron start sites on antisense strands. Our comparative analyses in human, Arabidopsis, maize, rice, and sorghum demonstrated that the peak points could be erroneously merged into a single peak when large window sizes are used. We also showed that the G4 distributions around genic regions are relatively similar in the species studied, except in the case of Arabidopsis. G4 containing genes in monocots showed conserved molecular functions for transcription initiation and hydrolase activity. Additionally, we provided examples of imperfect G4 motifs.H. Busra CagiriciHikmet BudakTaner Z. SenNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-15 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q H. Busra Cagirici Hikmet Budak Taner Z. Sen Genome-wide discovery of G-quadruplexes in barley
description	Abstract G-quadruplexes (G4s) are four-stranded nucleic acid structures with closely spaced guanine bases forming square planar G-quartets. Aberrant formation of G4 structures has been associated with genomic instability. However, most plant species are lacking comprehensive studies of G4 motifs. In this study, genome-wide identification of G4 motifs in barley was performed, followed by a comparison of genomic distribution and molecular functions to other monocot species, such as wheat, maize, and rice. Similar to the reports on human and some plants like wheat, G4 motifs peaked around the 5′ untranslated region (5′ UTR), the first coding domain sequence, and the first intron start sites on antisense strands. Our comparative analyses in human, Arabidopsis, maize, rice, and sorghum demonstrated that the peak points could be erroneously merged into a single peak when large window sizes are used. We also showed that the G4 distributions around genic regions are relatively similar in the species studied, except in the case of Arabidopsis. G4 containing genes in monocots showed conserved molecular functions for transcription initiation and hydrolase activity. Additionally, we provided examples of imperfect G4 motifs.
format	article
author	H. Busra Cagirici Hikmet Budak Taner Z. Sen
author_facet	H. Busra Cagirici Hikmet Budak Taner Z. Sen
author_sort	H. Busra Cagirici
title	Genome-wide discovery of G-quadruplexes in barley
title_short	Genome-wide discovery of G-quadruplexes in barley
title_full	Genome-wide discovery of G-quadruplexes in barley
title_fullStr	Genome-wide discovery of G-quadruplexes in barley
title_full_unstemmed	Genome-wide discovery of G-quadruplexes in barley
title_sort	genome-wide discovery of g-quadruplexes in barley
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/2a87a3fa375e48a0890a195f9353dd58
work_keys_str_mv	AT hbusracagirici genomewidediscoveryofgquadruplexesinbarley AT hikmetbudak genomewidediscoveryofgquadruplexesinbarley AT tanerzsen genomewidediscoveryofgquadruplexesinbarley
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Genome-wide discovery of G-quadruplexes in barley

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