Malus niedzwetzkyana (MN) is the mother of Rosybloom hybrids, ornamental crabapples with redpurple flowers. We present a high-quality chromosome-scale genome for MN with a size of 672.64 Mb, anchored to 17 chromosomeswith a high BUSCO completeness score of 98.6%, reaching the gold standard level. Moreover, our assembly has captured 28 telomeres. A total of 43,813 protein-coding genes was annotated in the MN genome. The assembled high quality provides a valuable opportunity to enhance our understanding of thegenetic basis of flower colourother ornamental traits in crabapples, thereby advancing the field of geneticsbreeding.