The chromosome-level reference genome assembly for Panax notoginseng and insights into ginsenoside biosynthesis.
The chromosome-level reference genome assembly for Panax notoginseng and insights into ginsenoside biosynthesis.
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DOI：
10.1016/j.xplc.2020.100113
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发表时间：
2021-01-11
影响因子：
10.5
通讯作者：
Gao W
中科院分区：
文献类型：
--
作者：
Jiang Z;Tu L;Yang W;Zhang Y;Hu T;Ma B;Lu Y;Cui X;Gao J;Wu X;Tong Y;Zhou J;Song Y;Liu Y;Liu N;Huang L;Gao W
三七是五加科人参属多年生草本植物，因其广泛的药理作用，千百年来在我国临床治疗中发挥着重要作用。在这里，我们报告了一个高质量的参考基因组，基因组大小高达2.66 Gb，重叠群N50为1.12 Mb，采用第三代PacBio测序技术产生。这是人参属第一次染色体水平的基因组组装。通过基因组进化分析，我们探讨了系统发育和全基因组重复事件，并研究了它们对皂苷生物合成的影响。我们对三七进行了详细的转录分析，并探索了调控特征性结节形成的基因水平机制。接下来，我们在时间和空间水平上研究了皂苷的生物合成和调控。我们结合多组学数据来鉴定编码三七萜类化合物生物合成途径中关键酶的基因。最后，我们确定了五个糖基转移酶基因，其产物催化三七中不同皂苷的形成。本研究获得的遗传信息为三七的生长特性、栽培、育种及皂苷生物合成等方面的研究提供了参考。本研究利用PacBio测序和Hi-C辅助组装技术构建了著名药用植物三七的高质量、染色体水平的参考基因组。此外，本研究还对三七皂苷的生物合成进行了研究，并对其中关键的UGT酶进行了表征。
Panax notoginseng, a perennial herb of the genus Panax in the family Araliaceae, has played an important role in clinical treatment in China for thousands of years because of its extensive pharmacological effects. Here, we report a high-quality reference genome of P. notoginseng, with a genome size up to 2.66 Gb and a contig N50 of 1.12 Mb, produced with third-generation PacBio sequencing technology. This is the first chromosome-level genome assembly for the genus Panax. Through genome evolution analysis, we explored phylogenetic and whole-genome duplication events and examined their impact on saponin biosynthesis. We performed a detailed transcriptional analysis of P. notoginseng and explored gene-level mechanisms that regulate the formation of characteristic tubercles. Next, we studied the biosynthesis and regulation of saponins at temporal and spatial levels. We combined multi-omics data to identify genes that encode key enzymes in the P. notoginseng terpenoid biosynthetic pathway. Finally, we identified five glycosyltransferase genes whose products catalyzed the formation of different ginsenosides in P. notoginseng. The genetic information obtained in this study provides a resource for further exploration of the growth characteristics, cultivation, breeding, and saponin biosynthesis of P. notoginseng. This study uses PacBio sequencing and Hi-C-assisted assembly technology to construct a high-quality, chromosome-level reference genome for the famous medicinal plant Panax notoginseng. Furthermore, this study investigates the biosynthesis of saponins in P. notoginseng and characterizes key UGT enzymes.
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