Supporting data for "High-quality assembly of the T2T genome for Isodon rubescens f. lushanensis reveals genomic structure variations between two typical forms of Isodon rubescens"

Rabdosiae rubescentis herba (<i>Isodon rubescens</i>) is widely used as a folk medicine to treat esophageal cancer and sore throat in China. Its germplasm resources are abundant in China, with <i>I. rubescens</i> (Hemsl.) Hara and <i>I. rubescens</i> f. <i>lushanensis</i> as two typical forms. <i>I. rubescens</i> (Hemsl.) Hara is featured by biosynthesis of the diterpenoid oridonin with strong anti-cancer activity, while <i>I. rubescens</i> f. <i>lushanensis</i> produces another diterpenoid with anti-cancer activity, lushanrubescensin. However, the biosynthetic pathways of both still need to be fully understood. In particular, little is known about the genetic background of <i>I. rubescens</i> f. <i>lushanensis.</i> <br>We used Pacific Biosciences (PacBio) single-molecule real-time and Nanopore Ultra-long sequencing platforms respectively, and finally obtained 139.07 Gb of high-quality data, with a sequencing depth of about 328X, We finally obtained a high-quality reference genome for <i>I. rubescens</i> f. <i>lushanensis</i>, with a genome size of 349 Mb and a contig N50 of 28.8 Mb. The heterozygosity of the genome is 1.7% and the repeatability is 83.43%. 34,865 protein-coding genes were predicted. Moreover, We found that most of the variant or unique genes in the diterpenoid synthesis pathways of <i>I. rubescens</i> f. <i>lushanensis</i> and <i>I. rubescens</i> (Hemsl.) Hara were enriched in diterpene synthases. <br>We provide the first genome sequence and gene annotation for the <i>I. rubescens</i> f. <i>lushanensis</i>, which provides molecular evidence for understanding the chemotypic differences of <i>I. rubescens</i>.