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Original Research ARTICLE Provisionally accepted The full-text will be published soon. Notify me

Front. Plant Sci. | doi: 10.3389/fpls.2019.01533

The landscape of Copia and Gypsy retrotransposon during maize domestication and improvement

  • 1Biological breeding laboratory, Guangzhou Sugarcane Industry Research Institute, China
  • 2Guangzhou Sugarcane Industry Research Institute, China

The release of genomic sequences in the maize hapmap3 population provides the opportunity to study the genetic diversity of maize. In this study, retrotransposon insertion polymorphisms (RIPs) were mapped against the maize genome sequence. In total, 27 retrotransposon families were identified, and more than 170,000 RIPs were discovered in teosinte, landrace, and improved groups. Interestingly, the copy number of transposable elements (TEs) were more abundant in landrace groups than in teosinte or improved groups, suggesting that TEs experienced amplification during domestication and contraction during improvement. Landrace accessions exhibited higher TE insertion frequency compared to the other groups. Furthermore, the positions of TE insertions were closer to genes and more abundant in the centromeres of landrace groups compared to the other groups. The three groups could be clearly distinguished by RIPs. These results demonstrate that TEs were amplified and contracted during maize domestication and improvement, respectively.

Keywords: Maize, Retrotransposon elements, domestication and improvement, TE amplified, TE contracted

Received: 06 Jun 2019; Accepted: 01 Nov 2019.

Copyright: © 2019 Zhang and Qi. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence: Mx. Yongwen Qi, Guangzhou Sugarcane Industry Research Institute, Guangzhou, China, yongwen2001@126.com