Discovery of PTE-1, Tourist-like miniature inverted repeat transposable element (MITE), and its activation in transgenic Brassica rapa ssp. pekinensis plants

  • Sol-ah Kim
  • YoungJi Jeon
  • Jee-Soo Park
  • Young-Doo ParkEmail author
Research Report


Miniature inverted-repeat transposable elements (MITEs) are class II, non-autonomous DNA transposons that occupy a large portion of the genome, most in an inactive state. Because transposition of MITEs can have a broad impact on the structure and function of the genome, it is important to identify activated MITEs and analyze their propensity for transposition. However, to date the activity of only a few MITEs has been analyzed. In this study, MITE activation during the transformation processes in Chinese cabbage was analyzed by using next-generation sequencing. Using genome wide analysis, we found PTE-1 was activated during the transformation process. The active transposition of PTE-1 was analyzed by PCR amplification. We determined the sequence of PTE-1 by cloning the PCR products. Based on its target site duplications sequence and terminal inverted repeats structure, we inferred that the element belongs to the Tourist family. The characteristics of PTE-1, including structure and copy number, were identified by bioinformatics approaches. The results suggest that PTE-1 activation could be induced by the transformation process and reveal the first detection of activated MITE in tissue culture derived from Brassica rapa plants.


Activation Chinese cabbage Miniature inverted repeat transposable elements Next-generation sequencing Tourist family 



This work was carried out with the support of “Cooperative Research Program for Agriculture Science and Technology Development (Project No. PJ01365201)” Rural Development Administration, Republic of Korea.

Author’s contribution

SA Kim performed the majority of the experiments and data analysis. YJ Jeon contributed to the activation experiment and data analysis. JS Park contributed to the development of the transgenic lines. YD Park designed the experiments and analyzed the data. SA Kim and YD Park wrote the manuscript. All authors contributed to and corrected the manuscript.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Supplementary material

13580_2019_181_MOESM1_ESM.docx (68 kb)
Supplementary material 1 (DOCX 60 kb)


  1. Benjak A, Boué S, Forneck A, Casacuberta JM (2009) Recent amplification and impact of MITEs on the genome of grapevine (Vitis vinifera L.). Genome Biol Evol 1:75–84CrossRefGoogle Scholar
  2. Bureau TE, Wessler SR (1992) Tourist: a large family of small inverted repeat elements frequently associated with maize genes. Plant Cell 4:1283–1294PubMedPubMedCentralGoogle Scholar
  3. Chen J, Hu Q, Zhang Y, Lu C, Kuang H (2013) P-MITE: a database for plant miniature inverted-repeat transposable elements. Nucleic Acids Res 42:D1176–D1181CrossRefGoogle Scholar
  4. Dai S, Hou J, Long Y, Wang J, Li C, Xiao Q, Jiang X, Zou X, Zou J, Meng J (2015) Widespread and evolutionary analysis of a MITE family Monkey King in Brassicaceae. BMC Plant Biol 15:149CrossRefGoogle Scholar
  5. Doyle JJ, Doyle JL (1987) A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochem Bull 19:11–15Google Scholar
  6. Feschotte C, Swamy L, Wessler SR (2003) Genome-wide analysis of mariner-like transposable elements in rice reveals complex relationships with Stowaway miniature inverted repeat transposable elements (MITEs). Genetics 163:747–758PubMedPubMedCentralGoogle Scholar
  7. González J, Petrov D (2009) MITEs—the ultimate parasites. Science 325:1352–1353CrossRefGoogle Scholar
  8. Grandbastien MA, Spielmann A, Caboche M (1989) Tnt1, a mobile retroviral-like transposable element of tobacco isolated by plant cell genetics. Nature 337:376–380CrossRefGoogle Scholar
  9. Hirochika H (1997) Retrotransposons of rice: their regulation and use for genome analysis. Plant Mol Biol 35:231–240CrossRefGoogle Scholar
  10. Hirochika H, Sugimoto K, Otsuki Y, Kanda M (1996) Retrotransposons of rice involved in mutations induced by tissue culture. Proc Natl Acad Sci USA 93:7783–7787CrossRefGoogle Scholar
  11. Jiang N, Bao Z, Zhang X, Hirochika H, Eddy SR, McCouch SR, Wessler SR (2003) An active DNA transposon family in rice. Nature 421:163–167CrossRefGoogle Scholar
  12. Jiang N, Feschotte C, Zhang X, Wessler SR (2004) Using rice to understand the origin and amplification of miniature inverted repeat transposable elements (MITEs). Curr Opin Plant Biol 7:115–119CrossRefGoogle Scholar
  13. Kaeppler SM, Kaeppler HF, Rhee Y (2000) Epigenetic aspects of somaclonal variation in plants. Plant Mol Biol 43:179–188CrossRefGoogle Scholar
  14. Kikuchi K, Terauchi K, Wada M, Hirano H (2003) The plant MITE mPing is mobilized in anther culture. Nature 421:167–170CrossRefGoogle Scholar
  15. Lee M, Phillips RL (1988) The chromosomal basis of somaclonal variation. Annu Rev Plant Physiol Plant Mo Biol 39:413–437CrossRefGoogle Scholar
  16. Lisch D (2009) Epigenetic regulation of transposable elements in plants. Annu Rev Plant Biol 60:43–66CrossRefGoogle Scholar
  17. Makarevitch I, Waters AJ, West PT, Stitzer M, Hirsch CN, Ross-Ibarra J, Springer NM (2015) Transposable elements contribute to activation of maize genes in response to abiotic stress. PLoS Genet 11:e1004915CrossRefGoogle Scholar
  18. Márton L, Hrouda M, Pécsváradi A, Czako M (1994) T-DNA-insert-independent mutations induced in transformed plant cells during Agrobacterium co-cultivation. Transgenic Res 3:317–325CrossRefGoogle Scholar
  19. McClintock B (1984) The significance of responses of the genome to challenge. Science 226:792–801CrossRefGoogle Scholar
  20. Park JH, Kim HS, Lee GH, Yu JG, Park YD (2016) Stable inheritance of an integrated transgene and its expression in phenylethylisothiocyanate-enriched transgenic Chinese cabbage. Korean J Hort Sci Technol 34:112–121Google Scholar
  21. Peschke VM, Phillips RL (1991) Activation of the maize transposable element Suppressor-mutator (Spm) in tissue culture. Theor Appl Genet 81:90–97CrossRefGoogle Scholar
  22. Peschke VM, Phillips RL, Gengenbach BG (1987) Discovery of transposable element activity among progeny of tissue culture-derived maize plants. Science 238:804–807CrossRefGoogle Scholar
  23. Phillips RL, Kaeppler SM, Olhoft P (1994) Genetic instability of plant tissue cultures: breakdown of normal controls. Proc Natl Acad Sci 91:5222–5226CrossRefGoogle Scholar
  24. Sampath P, Murukarthick J, Izzah NK, Lee J, Choi H, Shirasawa K, Choi B, Liu S, Nou I, Yang TJ (2014) Genome-wide comparative analysis of 20 miniature inverted-repeat transposable element families in Brassica rapa and B. oleracea. PLoS ONE 9:e94499CrossRefGoogle Scholar
  25. Van Die IM, Bergmans HE, Hoekstra WP (1983) Transformation in Escherichia coli: studies on the role of the heat shock in induction of competence. Microbiology 129:663–670CrossRefGoogle Scholar
  26. Wang X, Wang H, Wang J, Sun R, Wu J, Liu S, Bai Y, Mun J, Bancroft I, Cheng F, Huang S, Li X, Hua W, Wang J, Wang X, Freeling M, Pires JC, Paterson AH, Chalhoub B, Wang B (2011) The genome of the mesopolyploid crop species Brassica rapa. Nat Genet 43:1035–1039CrossRefGoogle Scholar
  27. Wicker T, Sabot F, Hua-Van A, Bennetzen JL, Capy P, Chalhoub B, Flavell A, Leroy P, Morgante M, Panaud O, Paux E, SanMiguel P, Schulman AH (2007) A unified classification system for eukaryotic transposable elements. Nat Rev Genet 8:973–982CrossRefGoogle Scholar
  28. Yang G, Lee Y, Jiang Y, Shi X, Kertbundit S, Hall TC (2005) A two-edged role for the transposable element Kiddo in the rice ubiquitin2 promoter. Plant Cell 17:1559–1568CrossRefGoogle Scholar
  29. Yang G, Nagel DH, Feschotte C, Hancock CN, Wessler SR (2009) Tuned for transposition: molecular determinants underlying the hyperactivity of a Stowaway MITE. Science 325:1391–1394CrossRefGoogle Scholar
  30. Yu JG, Lee GH, Park YD (2016) Characterization of a drought-tolerance gene, BrDSR, in Chinese Cabbage. Korean J Hort Sci Technol 34:102–111Google Scholar

Copyright information

© Korean Society for Horticultural Science 2019

Authors and Affiliations

  • Sol-ah Kim
    • 1
  • YoungJi Jeon
    • 1
  • Jee-Soo Park
    • 1
  • Young-Doo Park
    • 1
    Email author
  1. 1.Department of Horticultural BiotechnologyKyung Hee UniversityYonginRepublic of Korea

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