Gossypium hirsutum (AD1) 'HPF17' genome ZJU_v1

HPF17 is one Hainan Island cotton (HIC) belonging to a wild Gossypium hirsutum (Heterotypic Synonym: Gossypium purpurascens Poir.) and was collected from Yacheng, Sanya, Hainan Province, China. Hainan Island Native Cotton (HIC) has long been grown extensively on Hainan Island, China.  We assembled a high-quality genome of one HIC plant, HPF17. The genome size of HPF17 was estimated to be ~2,055 Mb based on K-mer analysis. We produced 130.65 Gb (~57 x genome equivalent) of high-quality PacBio circular consensus sequencing (CCS) reads and assembled the genome using hifiasm. The initial assembly generated 3,394 contigs with an N50 value of 13.20 Mb. Subsequently, we categorized and ordered the contigs to produce chromosome-scale scaffolds using approximately 50-fold coverage of valid unique interacting paired-end data generated through high-throughput chromosome conformation capture (Hi-C) (Table S12). The final assembly included 2,558,691,823 bases and 3,343 scaffolds, resulting in a scaffold N50 value of 88.21 Mb. A total of 2,267,310,418 (88.61 %) bases from the contigs were anchored and oriented onto pseudochromosomes.

Table S12

Publication: Cheng et al., Gossypium purpurascens genome provides insight into the origin and domestication of upland cotton.