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Type: Journal article
Title: Genome-wide analysis of alternative splicing events in Hordeum vulgare: highlighting retention of intron-based splicing and its possible function through network analysis
Author: Panahi, B.
Mohammadi, S.
Khaksefidi, R.
Fallah Mehrabadi, J.
Ebrahimie, E.
Citation: FEBS Letters, 2015; 589(23):3564-3575
Publisher: Wiley
Issue Date: 2015
ISSN: 0014-5793
Statement of
Bahman Panahi, Seyed Abolghasem Mohammadi, Reyhaneh Ebrahimi Khaksefidi, Jalil Fallah Mehrabadi, Esmaeil Ebrahimie
Abstract: In this study, using homology mapping of assembled expressed sequence tags against the genomic data, we identified alternative splicing events in barley. Results demonstrated that intron retention is frequently associated with specific abiotic stresses. Network analysis resulted in discovery of some specific sub-networks between miRNAs and transcription factors in genes with high number of alternative splicing, such as cross talk between SPL2, SPL10 and SPL11 regulated by miR156 and miR157 families. To confirm the alternative splicing events, elongation factor protein (MLOC_3412) was selected followed by experimental verification of the predicted splice variants by Semi quantitative Reverse Transcription PCR (qRT-PCR). Our novel integrative approach opens a new avenue for functional annotation of alternative splicing through regulatory-based network discovery.
Keywords: Alternative splicing; functional diversity; network discovery; semi quantitative Reverse Transcription PCR; Hordeum vulgare
Rights: © 2015 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.
RMID: 0030037145
DOI: 10.1016/j.febslet.2015.09.023
Appears in Collections:Medicine publications

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