The application of the high throughput sequencing technology in the transposable elements

Zhen Liu, Jianhong Xu

doi:10.16288/j.yczz.15-140

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Hereditas(Beijing) >

2015 , Vol. 37 >Issue 9: 885 - 898

DOI: https://doi.org/10.16288/j.yczz.15-140

Reviews

The application of the high throughput sequencing technology in the transposable elements

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Key Laboratory of Crop Germplasm of Zhejiang Province, Institute of Crop Science, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China

Received date: 2015-04-02

Revised date: 2015-05-14

Online published: 2015-09-20

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Abstract

High throughput sequencing technology has dramatically improved the efficiency of DNA sequencing, and decreased the costs to a great extent. Meanwhile, this technology usually has advantages of better specificity, higher sensitivity and accuracy. Therefore, it has been applied to the research on genetic variations, transcriptomics and epigenomics. Recently, this technology has been widely employed in the studies of transposable elements and has achieved fruitful results. In this review, we summarize the application of high throughput sequencing technology in the fields of transposable elements, including the estimation of transposon content, preference of target sites and distribution, insertion polymorphism and population frequency, identification of rare copies, transposon horizontal transfers as well as transposon tagging. We also briefly introduce the major common sequencing strategies and algorithms, their advantages and disadvantages, and the corresponding solutions. Finally, we envision the developing trends of high throughput sequencing technology, especially the third generation sequencing technology, and its application in transposon studies in the future, hopefully providing a comprehensive understanding and reference for related scientific researchers.

Key words： high throughput sequencing; transposable element; bias; polymorphism; horizontal transfer

Cite this article

Zhen Liu, Jianhong Xu . The application of the high throughput sequencing technology in the transposable elements[J]. Hereditas(Beijing), 2015 , 37(9) : 885 -898 . DOI: 10.16288/j.yczz.15-140

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