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Sensitive Detection of Pre-integration Intermediates of Long Terminal Repeat Retrotransposons in Crop Plants by Jungnam Cho; Matthias Benoit; Marco Catoni; Hajk-Georg Drost; Anna Brestovitsky; Matthijs Oosterbeek; Jerzy Paszkowski is a Agricultural and Biological Sciences article available to read on EtoBox.
What is Sensitive Detection of Pre-integration Intermediates of Long Terminal Repeat Retrotransposons in Crop Plants about?
Retrotransposons have played an important role in the evolution of host genomes. Their impact is mainly deduced from the composition of DNA sequences that have been fixed over evolutionary time. Such studies provide important 'snapshots' reflecting the historical activities of transposons but do not predict current transposition potential. We previously reported sequence-independent retrotransposon trapping (SIRT) as a method that, by identification of extrachromosomal linear DNA (eclDNA), revealed the presence of active long terminal repeat (LTR) retrotransposons in Arabidopsis. However, SIRT cannot be applied to large and transposon-rich genomes, as found in crop plants. We have developed an alternative approach named ALE-seq (amplification of LTR of eclDNAs followed by sequencing) for such situations. ALE-seq reveals sequences of 5' LTRs of eclDNAs after two-step amplification: in vitro transcription and subsequent reverse transcription. Using ALE-seq in rice, we detected eclDNAs for a novel Copia family LTR retrotransposon, Go-on, which is activated by heat stress. Sequencing of rice accessions revealed that Go-on has preferentially accumulated in Oryza sativa ssp. indica rice
Who reads Sensitive Detection of Pre-integration Intermediates of Long Terminal Repeat Retrotransposons in Crop Plants?
It is typically read by researchers, students, and practitioners in Agricultural and Biological Sciences.
- Author
- Jungnam Cho; Matthias Benoit; Marco Catoni; Hajk-Georg Drost; Anna Brestovitsky; Matthijs Oosterbeek; Jerzy Paszkowski
- Publisher
- Springer Science and Business Media LLC
- Published
- 2018
- Language
- EN
- Field
- Agricultural and Biological Sciences (Life Sciences)