Journal
GIGASCIENCE
Volume 6, Issue 11, Pages -Publisher
OXFORD UNIV PRESS
DOI: 10.1093/gigascience/gix093
Keywords
Panax ginseng; ginsenosides; genome; mass spectrometry imaging
Categories
Funding
- National Natural Science Foundation of China [81 403 053, 81 503 469]
- China Academy of Chinese Medical Sciences [ZZ0808021]
- Guangdong Provincial Hospital of Chinese Medicine Special Fund [2015KT1817]
- China Academy of Chinese Medical Sciences Special Fund for Health Service Development of Chinese Medicine [ZZ0908067]
- National Cancer Institute, National Institutes of Health [CA154295]
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Ginseng, which contains ginsenosides as bioactive compounds, has been regarded as an important traditional medicine for several millennia. However, the genetic background of ginseng remains poorly understood, partly because of the plant's large and complex genome composition. We report the entire genome sequence of Panax ginseng using next-generation sequencing. The 3.5-Gb nucleotide sequence contains more than 60% repeats and encodes 42 006 predicted genes. Twenty-two transcriptome datasets and mass spectrometry images of ginseng roots were adopted to precisely quantify the functional genes. Thirty-one genes were identified to be involved in the mevalonic acid pathway. Eight of these genes were annotated as 3-hydroxy-3-methylglutaryl-CoA reductases, which displayed diverse structures and expression characteristics. A total of 225 UDP-glycosyltransferases (UGTs) were identified, and these UGTs accounted for one of the largest gene families of ginseng. Tandem repeats contributed to the duplication and divergence of UGTs. Molecular modeling of UGTs in the 71st, 74th, and 94th families revealed a regiospecific conserved motif located at the N-terminus. Molecular docking predicted that this motif captures ginsenoside precursors. The ginseng genome represents a valuable resource for understanding and improving the breeding, cultivation, and synthesis biology of this key herb.
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