Transposon variation by order during allopolyploidisation between Brassica oleracea and Brassica rapa

An, Z., Tang, Z., Ma, B., Mason, A. S., Guo, Y., Yin, J., Gao, C., Wei, L., Li, J. and Fu, D. (2014) Transposon variation by order during allopolyploidisation between Brassica oleracea and Brassica rapa. Plant Biology, 16 4: 825-835. doi:10.1111/plb.12121


Author An, Z.
Tang, Z.
Ma, B.
Mason, A. S.
Guo, Y.
Yin, J.
Gao, C.
Wei, L.
Li, J.
Fu, D.
Title Transposon variation by order during allopolyploidisation between Brassica oleracea and Brassica rapa
Formatted title
Transposon variation by order during allopolyploidisation between Brassica oleracea and Brassica rapa
Journal name Plant Biology   Check publisher's open access policy
ISSN 1438-8677
1435-8603
Publication date 2014-07
Year available 2014
Sub-type Article (original research)
DOI 10.1111/plb.12121
Open Access Status
Volume 16
Issue 4
Start page 825
End page 835
Total pages 11
Place of publication Chichester, West Sussex, England
Publisher Wiley-Blackwell Publishing
Collection year 2015
Language eng
Formatted abstract
Although many studies have shown that transposable element (TE) activation is induced by hybridisation and polyploidisation in plants, much less is known on how different types of TE respond to hybridisation, and the impact of TE-associated sequences on gene function. We investigated the frequency and regularity of putative transposon activation for different types of TE, and determined the impact of TE-associated sequence variation on the genome during allopolyploidisation. We designed different types of TE primers and adopted the Inter-Retrotransposon Amplified Polymorphism (IRAP) method to detect variation in TE-associated sequences during the process of allopolyploidisation between Brassica rapa (AA) and Brassica oleracea (CC), and in successive generations of self-pollinated progeny. In addition, fragments with TE insertions were used to perform Blast2GO analysis to characterise the putative functions of the fragments with TE insertions. Ninety-two primers amplifying 548 loci were used to detect variation in sequences associated with four different orders of TE sequences. TEs could be classed in ascending frequency into LTR-REs, TIRs, LINEs, SINEs and unknown TEs. The frequency of novel variation (putative activation) detected for the four orders of TEs was highest from the F1 to F2 generations, and lowest from the F2 to F3 generations. Functional annotation of sequences with TE insertions showed that genes with TE insertions were mainly involved in metabolic processes and binding, and preferentially functioned in organelles. TE variation in our study severely disturbed the genetic compositions of the different generations, resulting in inconsistencies in genetic clustering. Different types of TE showed different patterns of variation during the process of allopolyploidisation.
Keyword Allopolyploidisation
Brassica
Interspecific hybridisation
Transposable element
Transposon activation
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: School of Agriculture and Food Sciences
Official 2015 Collection
 
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