LTR retrotransposons reveal recent extensive inter-subspecies nonreciprocal recombination in Asian cultivated rice

Table 1 Source of specific and shared LTR retrotransposons

Type of element	Relationship of distances	Events in the evolution
Specific	d_intra<D	Post-divergence insertion
	d_intra> D	Pre-divergence insertion, then intra-element reversible recombination
Shared	d_inter= D <d_intra	Pre-divergence insertion
	d_inter<D <d_intra	Pre-divergence insertion, then ISNR between two genomes
	d_inter<d_intra<D	Post-divergence insertion. Recombination between two genomes generates one counterpart
	Other patterns	Insertion of two elements at the same locus, etc.

ISSN: 1471-2164