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Frontiers of Agricultural Science and Engineering >> 2017, Volume 4, Issue 4 doi: 10.15302/J-FASE-2017160

Repeats in the transcribed regions: comprehensive characterization and comparison of

. Key Laboratory of Horticultural Plant Biology, Ministry of Education/Huazhong Agricultural University, Wuhan 430070, China.. Center of Molecular Biodiversity, Forschungsmuseum Alexander Koenig, Adenauerallee, Bonn 53113, Germany

Accepted: 2017-05-26 Available online: 2017-12-10

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Abstract

A large number of expressed sequences tags are available for spp., which provides an opportunity to understand genomic organization of the transcribed regions. Here, we report a detailed analysis of repetitive elements including tandem repeats (TRs) and transposable elements (TEs) in the transcribed region of the spp. On average, 22% of the expressed sequence tags (ESTs) contain TRs. The relative density of TR classes is highly taxon-specific. For instance, has a high relative density of mononucleotide repeats, whereas dinucleotide repeats are rare. The proportions of 2–6, 7–30 and 31–50 bp repeats were almost identical in all studied species except for and . We found that<1% of the citrus ESTs have a similarity with transposable elements. Transcriptional activity of transposable element families varied even within the same class of elements. A high proportion of transcriptional activity was observed for -like TEs compare to other TE classes. While TEs are relatively rare, TRs are abundant elements in ESTs of citrus. The high proportion of TRs that have a unit size longer than 6 bp raises the question about a possible functional or evolutionary role of these elements.

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