Genome-Wide Analysis of the Fusarium oxysporum
mimp Family of MITEs and Mobilization of Both Native and De Novo Created mimps |
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Authors: | Mara Bergemann Olivier Lespinet Sarrah Ben M’Barek Marie-Josée Daboussi Marie Dufresne |
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Institution: | (1) Institut de Génétique et Microbiologie, Université Paris-Sud 11, CNRS, UMR8621, 91405 Orsay, France;(2) Plant Research International B.V., P.O. Box 16, 6500 AA Wageningen, The Netherlands |
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Abstract: | We have performed a genome-wide analysis of the mimp family of miniature inverted-repeat transposable elements, taking advantage of the recent release of the F. oxysporum genome sequence. Using different approaches, we detected 103 mimp elements, corresponding to 75 nonredundant copies, half of which are located on a single small chromosome. Phylogenetic analysis
identified at least six subfamilies, all remarkably homogeneous in size and sequence. Based on high sequence identity in the
terminal inverted repeats (TIRs), mimp elements were connected to different impala members. To gain insights into the mechanisms at the origin and amplification of mimps, we studied the potential of impala to cross-mobilize different mimps, native but also created de novo by inserting a short DNA segment between two TIRs. Our results show that TIR sequences are
the main requirement for mobilization but that additional parameters in the internal region are likely to influence transposition
efficiency. Finally, we show that integration site preference of native versus newly transposed mimps greatly varies in the host genomes used in this study.
Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users.
Nucleotide sequences of novel mimp3 and mimp4 elements are available under GenBank accession numbers EU833100 and EU833101, respectively. Coordinates of mimp5, mimp6 and of non-classified mimp copies are indicated in Supplementary Table 1. |
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Keywords: | Miniature inverted-repeat transposable element (MITE) Mobilization De novo origin Fusarium |
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