Using large datasets to understand patterns of chromosome divergence
We are using large NGS data sets to study patterns of repeat divergence in plant chromosomes. Of particular importance in that study is RepeatExplorer and genome skimming approaches. We have used the approaches to show that repeat copy numbers can diverge rapidly with polyploidy, and that patterns of repeat abundance can be used to develop phylogenetic hypotheses of species relationships (Dodsworth et al 2014).
We are also exploiting transcriptome datasets to dissect epigenetic pathways associated with genome size divergence and polyploidy.