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Genome-wide view of natural antisense transcripts in Arabidopsis thaliana

Yuan, C and Wang, J and Harrison, AP and Meng, X and Chen, D and Chen, M (2014) 'Genome-wide view of natural antisense transcripts in Arabidopsis thaliana.' DNA Research, 22 (3). 233 - 243. ISSN 1340-2838

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Abstract

© 2015 The Author 2015. Published by Oxford University Press on behalf of Kazusa DNA Research Institute. Natural antisense transcripts (NATs) are endogenous transcripts that can form double-stranded RNA structures. Many protein-coding genes (PCs) and non-protein-coding genes (NPCs) tend to form cis-NATs and trans-NATs, respectively. In this work, we identified 4,080 cis-NATs and 2,491 trans-NATs genome-widely in Arabidopsis. Of these, 5,385 NAT-siRNAs were detected from the small RNA sequencing data. NAT-siRNAs are typically 21nt, and are processed by Dicer-like 1 (DCL1)/DCL2 and RDR6 and function in epigenetically activated situations, or 24nt, suggesting these are processed by DCL3 and RDR2 and function in environment stress. NAT-siRNAs are significantly derived from PC/PC pairs of trans-NATs and NPC/NPC pairs of cis-NATs. Furthermore, NAT pair genes typically have similar pattern of epigenetic status. Cis-NATs tend to be marked by euchromatic modifications, whereas trans-NATs tend to be marked by heterochromatic modifications.

Item Type: Article
Subjects: Q Science > QH Natural history > QH301 Biology
Divisions: Faculty of Science and Health > Mathematical Sciences, Department of
Depositing User: Jim Jamieson
Date Deposited: 10 Jul 2015 09:36
Last Modified: 05 Feb 2019 19:15
URI: http://repository.essex.ac.uk/id/eprint/14289

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