ArticleGigaScience2024
High-quality assembly of the T2T genome for Isodon rubescens f. lushanensis reveals genomic structure variations between 2 typical forms of Isodon rubescens.
Article in GigaScience, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- A Near-Telomere-to-Telomere Genome Assembly of the Spotted Seal (International journal of molecular sciences · 2026Article
- Improved Visualization Method of DNA Sequences and its Application in Phylogenetic Analysis.Combinatorial chemistry & high throughput screening · 2026Article
- Genome-wide analysis of TPS family reveals kaurene synthase-like genes inFrontiers in plant science · 2026Article
- Characterization and differential expression of DNA methyltransferase and demethylase genes in response to abiotic stress in Isodon rubescens.BMC plant biology · 2025Article
- Telomere-to-telomere gap-free genome assembly of Euchiloglanis kishinouyei.Scientific data · 2025Article
- Telomere-to-telomere gap-free genome assembly provides genetic insight into the triterpenoid saponins biosynthesis inHorticulture research · 2025Article
- Integrated miRNAome, transcriptome, and degradome analyses reveal the role of miRNA-mRNA modules in the biosynthesis of oridonin inFrontiers in plant science · 2025Article
- High-quality assembly of the T2T genome for Isodon rubescens f. lushanensis reveals genomic structure variations between 2 typical forms of Isodon rubescens.GigaScience · 2024Article
- Unraveling the specialized metabolic pathways in medicinal plant genomes: a review.Frontiers in plant science · 2024Review
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Authors and funding
17 authors.
Funding
Abstract
backgroundRabdosiae rubescentis herba (Isodon rubescens) 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. rubescens (Hemsl.) Hara and I. rubescens f. lushanensis as 2 typical forms. I. rubescens (Hemsl.) Hara is featured by biosynthesis of the diterpenoid oridonin with strong anticancer activity, while I. rubescens f. lushanensis produces another diterpenoid with anticancer 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. rubescens f. lushanensis.
findingsWe used Pacific Biosciences (PacBio) single-molecule real-time and Nanopore Ultra-long sequencing platforms, respectively, and obtained 139.07 Gb of high-quality data, with a sequencing depth of about 328×. We also obtained a high-quality reference genome for I. rubescens f. lushanensis, 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%. In total, 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. rubescens f. lushanensis and I. rubescens (Hemsl.) Hara were enriched in diterpene synthases.
conclusionsWe provide the first genome sequence and gene annotation for the I. rubescens f. lushanensis, which provides molecular evidence for understanding the chemotypic differences of I. rubescens.
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