Chromosome-scale genome assembly of Flemingia macrophylla

Flemingia macrophylla, a perennial shrub of the family Fabaceae, possesses pharmacological properties such as anti-inflammatory and antibacterial activities. However, its whole genome has remained largely unexplored. In this study, we generated a chromosome-level genome assembly of F. macrophylla by integrating high-fidelity (HiFi) long-read sequencing generated by Pacific Biosciences (PacBio) and high-throughput chromosome conformation capture (Hi-C) scaffolding. The assembled genome spans 1.13 Gb, with 93.29% of sequences anchored to 11 pseudochromosomes (scaffold N50 = 105.36 Mb), closely matching the estimated genome size based on k-mer analysis (1.07 Gb). Repetitive sequences account for 59.58% of the genome, with long terminal repeat (LTR) retrotransposons representing 39.25% of these elements. A total of 28,548 protein-coding genes were predicted in the assembled genome, of which 27,936 (97.86%) were functionally annotated. This high-quality genome provides a valuable foundation for elucidating medicinal compound biosynthesis, stress resistance mechanisms, and the genetic improvement of F. macrophylla, while also enriching the genomic resources available for the Fabaceae family.