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Genome dominance is a phenomenon in wide hybrids when one of the parental genomes becomes “dominant,” while the other genome turns to be “submissive.” This dominance may express itself in several ways including homoeologous gene expression bias and modified epigenetic regulation. Moreover, some wide hybrids display unequal retention of parental chromosomes in successive generations. This may hamper employment of wide hybridization in practical breeding due to the potential elimination of introgressed segments from progeny. In onion breeding,  Allium roylei  ( A. roylei ) Stearn has been frequently used as a source of resistance to downy mildew for cultivars of bulb onion,  Allium cepa  ( A. cepa ) L. This study demonstrates that in  A. cepa  ×  A. roylei  hybrids, chromosomes of  A. cepa  are frequently substituted by those of  A. roylei  and in just one generation, the genomic constitution shifts from 8  A. cepa  + 8  A. roylei  chromosomes in the F1 generation to the average of 6.7  A. cepa  + 9.3  A. roylei  chromosomes in the F2 generation. Screening of the backcross generation  A. cepa  × ( A. cepa  ×  A. roylei ) revealed that this shift does not appear during male meiosis, which is perfectly regular and results with balanced segregation of parental chromosomes, which are equally transmitted to the next generation. This indicates that female meiotic drive is the key factor underlying  A. roylei  genome dominance. Single nucleotide polymorphism (SNP) genotyping further suggested that the drive has different strength across the genome, with some chromosome segments displaying Mendelian segregation, while others exhibiting statistically significant deviation from it.

Genome Dominance in Allium Hybrids (A. cepa × A. roylei)