Haploid breeding technology based on centromere-mediated uniparental genome elimination represents the future of plant breeding. However, segregation errors during haploid induction often lead to genome instability and aneuploidy. Using Illumina sequencing and bioinformatics analysis, biological insight can be gained by studying the genomes of aneuploid plants that result from faulty haploid induction. In some cases, extreme chromosomal shattering that resembles chromothripsis is observed. De novo assembly and reconstruction of the massive chromosome rearrangements reveal the underlying mechanisms behind complex genome rearrangements and hints at the crucial role of centromeres in genome evolution.
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