A conserved unusual posttranscriptional processing mediated by short, direct repeated (SDR) sequences in plants

Xiangli Niu; Di Luo; Shaopei Gao; Guangjun Ren; Lijuan Chang; Yuke Zhou; Xiaoli Luo; Yuxiang Li; Pei Hou; Wei Tang; Bao-Rong Lu; Yongsheng Liu

doi:10.1016/S1673-8527(09)60028-X

Volume 37 Issue 1

Jan. 2010

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Article Navigation > Journal of Genetics and Genomics > 2010 > 37(1): 85-99

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A conserved unusual posttranscriptional processing mediated by short, direct repeated (SDR) sequences in plants

doi: 10.1016/S1673-8527(09)60028-X

a
College of Agricultural and Life Sciences, Chongqing University, Chongqing 400030, China
b
Ministry of Education Key Laboratory for Bio-resource and Eco-environment, College of Life Science and State Key Laboratory of Biotherapy, Sichuan University, Chengdu 610064, China
c
Institute of Crop Research, Sichuan Academy of Agricultural Sciences, Chengdu 610066, China
d
Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science, Fudan University, Shanghai 200433, China

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Corresponding author: E-mail address: liuyongsheng1122@yahoo.com.cn (Yongsheng Liu)
Received Date: 2009-09-07
Accepted Date: 2009-12-02
Rev Recd Date: 2009-11-06

Available Online: 2010-02-18

Publish Date: 2010-01-20

Abstract

Abstract

In several stress responsive gene loci of monocot cereal crops, we have previously identified an unusual posttranscriptional processing mediated by paired presence of short direct repeated (SDR) sequences at 5′ and 3′ splicing junctions that are distinct from conventional (U2/U12-type) splicing boundaries. By using the known SDR-containing sequences as probes, 24 plant candidate genes involved in diverse functional pathways from both monocots and dicots that potentially possess SDR-mediated posttranscriptional processing were predicted in the GenBank database. The SDRs-mediated posttranscriptional processing events including cis- and trans-actions were experimentally detected in majority of the predicted candidates. Extensive sequence analysis demonstrates several types of SDR-associated splicing peculiarities including partial exon deletion, exon fragment repetition, exon fragment scrambling and trans-splicing that result in either loss of partial exon or unusual exonic sequence rearrangements within or between RNA molecules. In addition, we show that the paired presence of SDR is necessary but not sufficient in SDR-mediated splicing in transient expression and stable transformation systems. We also show prokaryote is incapable of SDR-mediated premRNA splicing.
- posttranscriptional processing,
- short direct repeat (SDR),
- premRNA splicing,
- plant

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References(41)

References

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