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Subgenomic analysis of microRNAs in polyploid wheat
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SYSNO ASEP 0381390 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title Subgenomic analysis of microRNAs in polyploid wheat Author(s) Kantar, M. (TR)
Akpinar, B. A. (TR)
Valárik, Miroslav (UEB-Q) RID, ORCID
Lucas, S. J. (TR)
Doležel, Jaroslav (UEB-Q) RID, ORCID
Hernandez, P. (ES)
Budak, H. (TR)Source Title Functional & Integrative Genomics - ISSN 1438-793X
Roč. 12, č. 3 (2012), s. 465-479Number of pages 15 s. Language eng - English Country DE - Germany Keywords Triticum aestivum ; microRNA ; miRNA prediction Subject RIV EB - Genetics ; Molecular Biology CEZ AV0Z50380511 - UEB-Q (2005-2011) UT WOS 000308238900005 DOI 10.1007/s10142-012-0285-0 Annotation In this study, a survey of miRNAs using the next-generation sequencing data was performed at subgenomic level. After analyzing shotgun sequences from chromosome 4A of bread wheat (Triticum aestivum L.), a total of 68 different miRNAs were predicted in silico, of which 37 were identified in wheat for the first time. The long arm of the chromosome was found to harbor a higher variety (51) and representation (3,928) of miRNAs compared with the short arm (49; 2,226). Out of the 68 miRNAs, 32 were detected to be common to both arms, revealing the presence of separate miRNA clusters in the two chromosome arms. The differences in degree of representation of the different miRNAs were found to be highly variable, ranging 592-fold, which may have an effect on target regulation. Targets were retrieved for 62 (out of 68) of wheat-specific, newly identified miRNAs indicated that fundamental aspects of plant morphology such as height and flowering were predicted to be affected. In silico expression blast analysis indicated 24 (out of 68) were found to give hits to expressed sequences. This is the first report of species- and chromosome-specific miRNAs. Workplace Institute of Experimental Botany Contact David Klier, knihovna@ueb.cas.cz, Tel.: 220 390 469 Year of Publishing 2013
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