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Publication Details

Expression and regulation of transposable elements in the dioecious plant Silene latifolia

VOGEL Ivan. Expression and regulation of transposable elements in the dioecious plant Silene latifolia. Genome Biology and Evolution, vol. 2014, no. 1, pp. 1-13. ISSN 1759-6653.
Czech title
Exprese a regulace transpozonů v dvoudomé rastlině Silene latifolia
Type
journal article
Language
english
Authors
Vogel Ivan, Ing. (DIFS FIT BUT)
Keywords
transposable elements, Silene latifolia, expression  
Abstract
Gypsy and Copia LTR retrotransposons dominate genome of the dioecious plantSilene latifolia. In this study, we measured in-silico the transcription of various transposable element (TE) families in different organs using NGS data. We found that the most expressed TE families were Athila and Tekay/Del (both are Gypsy elements) and Angela (Copia element).  The study furthermore deals with small noncoding RNAs in transposable elements and potencial correlation between transposon activity and small RNA abundance.
Annotation
Gypsy and Copia LTR retrotransposons dominate genome of the dioecious plant Silene latifolia. In this study, we measured the transcription of various transposable element (TE) families in different organs using NGS data. We found that the most expressed TE families were Athila and Tekay/Del (both are Gypsy elements) and Angela (Copia element) LTR retrotransposons together with LINE nonLTR retrotransposons. Transcription of transposable elements differed between organs: highest transcript level was found in pollen and lowest in unfertilized pistils. TE transcription in male and female leaves was similar. Transposable elements were also represented in smRNA, mostly in molecules that were 24 nt long. We found mainly negative correlation between transcript level and abundance of smRNA homologous to individual TE families. Small RNAs were derived from various parts of TEs - they were homologous to LTRs in Tat, Ogre, Tekay and Angela families while they mapped to 5UTR and 3UTR regions in Athila and Maximus elements. We discuss possible causes of TE transcription differences in various organs as well as the importance of smRNA in regulating TE activity.
Published
2014
Pages
1-13
Journal
Genome Biology and Evolution, vol. 2014, no. 1, ISSN 1759-6653
Publisher
Oxford University Press
BibTeX
@ARTICLE{FITPUB10653,
   author = "Ivan Vogel",
   title = "Expression and regulation of transposable elements in the dioecious plant Silene latifolia",
   pages = "1--13",
   journal = "Genome Biology and Evolution",
   volume = 2014,
   number = 1,
   year = 2014,
   ISSN = "1759-6653",
   language = "english",
   url = "https://www.fit.vut.cz/research/publication/10653"
}
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