RAD sequencing holds great promise for detecting patterns of divergence and gene flow in highly divergent hybridizing species. Our results help explain the origin of the 'genomic mosaic' seen in these taxa with 'porous' genomes and suggest rampant introgression or extensive among-species conservation of an incipient plant sex chromosome. Divergence estimates were significantly autocorrelated (P 400). (TM), belongs to Zygophyllaceae family, a rare and endangered plant with narrow distribution. the proportion of fixed SNPs) between species, and these results are unlikely to be strongly biased by genomic features of the Populus trichocarpa reference genome used for SNP calling. Background Studying population genetic structure and gene flow of plant populations and their influencing factors is of particular significance in the field of conservation biology, especially important for species such as rare and endangered plants. Windowed analyses indicate great variation in genetic divergence (e.g. We have scanned the 'porous' genomes of Populus alba and Populus tremula, two ecologically divergent hybridizing forest trees, using >38,000 SNPs assayed by restriction site associated DNA (RAD) sequencing. This issue can now be overcome by the use of 'next generation' or short-read DNA-sequencing approaches capable of assaying many thousands of single nucleotide polymorphisms (SNPs) in divergent species. Divergent sorting of a balanced ancestral polymorphism underlies the establishment of gene-flow barriers in Capsella In the Bateson-Dobzhansky-Muller model of genetic incompatibilities post-zygotic gene-flow barriers arise by fixation of novel alleles at interacting loci in separated populations. One important obstable of previous studies of this topic was the low genomic coverage achieved. Recent advances in population genomics have triggered great interest in the genomic landscape of divergence in taxa with 'porous' species boundaries.
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