Chromosome-scale reference genome assembly and annotation of Prunus scopulorum

Prunus scopulorum is a valuable Chinese wild cherry germplasm resource. It can survive under relatively cold climate conditions and is highly adaptable to the environment. Here, we successfully constructed a high-quality whole-genome map of P. scopulorum at the chromosome level. The genome size is 248.6 Mb, with a scaffold N50 of 27.83 Mb. A total of ~111.76 Mb of repetitive sequences were identified, accounting for 44.96% of the total genome, of which 1.34% were long interspersed nuclear elements (LINEs), 18.29% were long terminal repeats (LTRs), and 0.22% were short interspersed nuclear elements (SINEs). The benchmarking universal single-copy orthologues (BUSCOs) value reached 97.0%, and the LTR assembly index (LAI) reached the reference genome level (17.04). Further analysis led us to predict the presence of 32,542 protein-coding genes, 99.41% of which are functionally annotated. This high-quality genome assembly provides valuable resources for understanding species evolution in the genus Prunus and promoting the study of important traits in P. scopulorum.