363For example, BAC-end sequences obtained using 1RS-specifi c BAC library
were used to develop Insertion Site-Based Polymorphism markers (ISBP) specifi c
for 1RS and to identify loci carrying microsatellites suitable for the development
of 1RS-specifi c SSR markers (Bartoš et al. 2008 ). Next-generation sequencing
fl ow- sorted chromosomes of rye enabled establishing linear gene order model com-
Fig. 13.4 Next-generation sequencing of fl ow-sorted rye chromosomes allowed characterization
of synteny between rye, barley , and rice genomes. Collinearity of the rye and barley genomes is
depicted by the inner circle of the diagram. Rye (1R–7R) and barley (1H–7H) chromosomes were
scaled according to the rye genetic and barley physical map, respectively. Lines (colored according
to barley chromosomes) within the inner circle connect putatively orthologous rye and barley
genes. The outer partial circles of heat map colored bars illustrate the density of rice genes hit by
chromosome sequencing reads of the corresponding rye chromosomes. Conserved syntenic blocks
are highlighted by yellow-red-colored regions of the heat maps. Putatively orthologous genes
between rye and rice are connected with lines (colored according to rye chromosomes) and centro-
mere positions are highlighted by grey rectangles. Martis et al., Plant Cell 25: 3685–3698, 2013.
http://www.plantcell.org Copyright American Society of Plant Biologists. Reproduced with permission
13 Genomics of Wild Relatives and Alien Introgressions