The chromosome-level reference genome assembly for Dendrobium officinale and its utility of functional genomics research and molecular breeding study

Acta Pharmaceutica Sinica B

Shuying Zhu¹  Fei Zhu¹  Mengting Wang¹  Chao Li¹  Qingyun Xue¹  Xiaoyu Ding¹  Benhou Zhang²  Wei Liu²  Yajuan Fan²  Zhenyu Hou²  Zhitao Niu²  Jiapeng Yang² 

[1] Jiangsu Provincial Engineering Research Center for Technical Industrialization for Dendrobiums, Nanjing 210023, China;;College of Life Sciences, Nanjing Normal University, China &

关键词: Dendrobium officinale;    Genome;    Active ingredients;    GWAS;    Plant production;   

DOI  :  

来源: DOAJ

【 摘 要 】

Dendrobium officinale, an important medicinal plant of the genus Dendrobium in Orchidaceae family, has been used as traditional Chinese medicine (TCM) for nearly thousands of years. Here, we report the first chromosome-level reference genome of D. officinale, based on PacBio long-reads, Illumina short-reads and Hi-C data. The high-quality assembled genome is 1.23 Gb long, with contig N50 of 1.44 Mb. A total of 93.53% genome sequences were assembled into 19 pseudochromosomes with a super scaffold N50 of 63.07 Mb. Through comparative genomic analysis, we explored the expanded gene families of D. officinale, and also their impact on environmental adaptation and biosynthesis of secondary metabolites. We further performed detailed transcriptional analysis of D. officinale, and identified the candidate genes involved in the biosynthesis of three main active ingredients, including polysaccharides, alkaloids and flavonoids. In addition, the MODIFYING WALL LIGNIN-1 (MWL1) gene, which inferred from Genome-Wide Association Studies (GWAS) based on the resequencing date from D. officinale and five related species and their morphologic features, may contribute to the plant production (yield of stems) of D. officinale. Therefore, the high-quality reference genome reported in this study could benefits functional genomics research and molecular breeding of D. officinale.

【 授权许可】

Unknown