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Comparative analysis shows high level of lineage sorting in genomic regions with low recombination in the extended Picea likiangensis species complex

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•Phylogenomic analysis uncovers widespread discordance in the extended Picea likiangensis complex.•Introgression (54.99%) and incomplete lineage sorting (ILS; 33.12%) are key drivers of this incongruity.•Recombination rates shape ILS and introgression, with... ...