Patching gaps in plant genomes results in gene movement and erosion of colinearity

Example of the identification of a non-colinear gene in Brachypodium and its putative donor region. Homologs from the three species are connected by dashed lines. A non-colinear gene (acceptor site) has its closest homologs in rice and sorghum in a different genomic region than its neighbors. The locus where the non-colinear gene originated contains colinear neighbors in rice and sorghum. (A) A homolog of the moved gene is found in the donor region. The gene was copied to its acceptor site. (B) The donor region does not contain a homolog. Apparently, the gene was moved or the homolog in the donor region was deleted later on.