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This is quite logical since massive transposition would be lethal in individuals with strong susceptibility, who would thus be eliminated.
Families that were more successful in massive transposition are represented by higher numbers of copies in genomes than their slow-transposing relatives.
In other words, the absence of massive transposition is probably because a moderate strength of the reaction norm had previously been selected for.
That massive transposition that causes drastic deleterious effects is demonstrated by the well-known phenomenon of hybrid dysgenesis in Drosophila (Bingham et al. 1982; Bucheton 1990).
In particular, deep-sequencing of ovarian small RNAs allowed detection of piRNAs derived from I and P elements whose maternal transmission is correlated with repression of hybrid dysgenesis induced by massive transposition of these TEs (Brennecke et al. 2008).
Since RIP induces irreversible changes in TEs, thus disabling their transposition mechanisms, it is therefore confusing how massive transposition activity could have taken place recently in Lmb genome for LTR retrotransposon families potentially present in the Pleosporales lineage since 100 millions years.
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The unique presence and distribution of Maverick elements in Z. pseudotritici could result from a recent invasion of the genome followed by massive waves of transposition of these elements.
In addition to autosome-to-Y transpositions, a massive X-to-Y sequence transposition has also been observed in humans, which occurred after the human and chimpanzee divergence (~3-4 Myandand resulted in an X-transposed sequence block on the Y that contains two single-copy genes, TGIF2LY and PCDH11Y [ 4].
By considering not only duplicated genes retained in their ancestral positions (colored circles [top] in fig. 1 B) but also those that have been shuffled (colored circles [bottom] in fig. 1 B), we observed that duplicated gene redundancy at the structural level is eroded by massive gene deletions and/or rearrangements (i.e., transposition or SSD).
For instance, a recent study that analysed genome sequences from 180 lines of A. thaliana from Sweden found many signatures of selective sweeps, including a massive sweep on chromosome 1 involving a 700-kb transposition [ 51].
In this scenario, subgenome dominance is driven either by 1) massive loss of genes from the S compartment, 2) transposition of genes from the S compartment, or 3) SSD, via gene deletion in the D compartment and duplication of the sister copy from the S compartments (supplementary fig. 2 A, Supplementary Material online).
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