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Comparative analyses indicated high wheat-specific inter- and intrachromosomal gene duplication activities that are potential sources of variability for adaption.
Because segmental duplications colocalize with evolutionary breakpoints in primate genomes [ 84, 85], duplication activities during primate evolution could illustrate the unstable nature of a complex genomic region.
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This locus has other hallmarks of recent gene duplication activity, such as a 5 kb large inverted repeat, which duplicated the last two exons of grl-27 to give rise to grl-32p (Fig. 2).
By contrast, the slighter increase of DUXY paralogs towards the human coincides with the major burst of pericentromeric duplication activity that took place at the divergence time of the African great ape and human species (5 to 7 MYA [29]).
The characterization of many newly-discovered chaperonin pseudogenes uncovered the intense duplication activity of eukaryotic chaperonin genes.
To conclude: phylogenetic relationships between CTLD paralogues and estimated duplication time distribution indicate that there was a burst in duplication activity in the Fugu genome 300 400 Myr ago.
These conclusions are supported by evidence that large scale gene duplication activity increased substantially after the divergence of amphioxus (a cephalochordate) from the vertebrate lineage [ 65].
This suggests that the most recent duplication activity occurred in the interior, providing new genetic material that has pushed apart the older paralogs on the flanks.
To understand the duplication activity leading to the complicated SD structure of this region, we have applied the A-Bruijn gralgorithmitom to decompose the 22q11.2 SDs to 523 fundamental duplication sequences, termed subunits.
These patterns again point to the static nature of these genomes, with diminished retention and/or minimal levels of recent intra-chromosomal or tandem duplication activity to shape their genome architecture.
However, for genomes at equilibrium with regard to duplication activity this simple compound index should provide a good approximation for long-term duplicability trends, particularly across larger groups of genes, which is what we are dealing with.
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