A chromosome-scale genome assembly of Artemisia argyi reveals unbiased subgenome evolution and key contributions of gene duplication to volatile terpenoid diversity.
A chromosome-scale genome assembly of Artemisia argyi reveals unbiased subgenome evolution and key contributions of gene duplication to volatile terpenoid diversity.
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DOI：
10.1016/j.xplc.2023.100516
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发表时间：
2023-05-08
影响因子：
10.5
通讯作者：
Luo, Hongmei
中科院分区：
文献类型：
--
作者：
Chen, Hongyu;Guo, Miaoxian;Dong, Shuting;Wu, Xinling;Zhang, Guobin;He, Liu;Jiao, Yuannian;Chen, Shilin;Li, Li;Luo, Hongmei
关键词：
艾蒿等Vant。，一种多年生蒿属草本植物，具有强烈的香味，在中国和许多其他亚洲国家被广泛用于传统医学。在这里，我们提出了一个染色体规模的基因组组装的艾蒿包含3.89 Gb组装成17个假染色体。系统发育分析和比较基因组分析表明，艾蒿在与黄花蒿分化后，经历了一个最近的谱系特异性全基因组重复（WGD）事件，导致两个亚基因组。我们破译了艾蒿的二倍体祖先基因组，并观察到无偏的亚基因组进化。最近的WGD导致了艾蒿基因组中大量的重复基因。萜烯合成酶（TPS）基因家族通过各种类型的基因复制而扩展，这可能对艾叶挥发性萜类化合物的多样性做出了很大贡献。特别是，我们确定了一个典型的germacrene D合酶基因簇内的扩展TPS基因家族。阐明了大根香叶烯、（+）-樟脑和（+）-樟脑在艾蒿中的完整生物合成途径。此外，紫穗槐-4，11-二烯合酶（ADS）基因的部分缺失和ADS同源物功能的丧失可能导致艾蒿中青蒿素产量的缺乏。我们的研究为了解蒿属植物的基因组进化提供了新的见解，并为进一步提高这一重要药用植物的质量奠定了基础。本研究报道了艾蒿染色体水平的基因组，表明无偏亚基因组进化和基因复制是艾蒿挥发性萜类化合物多样性的重要原因，并阐明了大根香叶烯、（+）-香叶烯和（+）-樟脑在艾蒿中的生物合成途径。艾。紫穗槐-4，11-二烯合酶（ADS）在A.艾蒿基因组可能是其缺乏青蒿素产量的主要原因。
Artemisia argyi Lévl. et Vant., a perennial Artemisia herb with an intense fragrance, is widely used in traditional medicine in China and many other Asian countries. Here, we present a chromosome-scale genome assembly of A. argyi comprising 3.89 Gb assembled into 17 pseudochromosomes. Phylogenetic and comparative genomic analyses revealed that A. argyi underwent a recent lineage-specific whole-genome duplication (WGD) event after divergence from Artemisia annua, resulting in two subgenomes. We deciphered the diploid ancestral genome of A. argyi, and unbiased subgenome evolution was observed. The recent WGD led to a large number of duplicated genes in the A. argyi genome. Expansion of the terpene synthase (TPS) gene family through various types of gene duplication may have greatly contributed to the diversity of volatile terpenoids in A. argyi. In particular, we identified a typical germacrene D synthase gene cluster within the expanded TPS gene family. The entire biosynthetic pathways of germacrenes, (+)-borneol, and (+)-camphor were elucidated in A. argyi. In addition, partial deletion of the amorpha-4,11-diene synthase (ADS) gene and loss of function of ADS homologs may have resulted in the lack of artemisinin production in A. argyi. Our study provides new insights into the genome evolution of Artemisia and lays a foundation for further improvement of the quality of this important medicinal plant. This study reported a chromosome-scale genome of Artemisia argyi, indicating that unbiased subgenome evolution and gene replication contributed to the diversity of volatile terpenes, and clarified the biosynthetic pathways of germacrenes, (+)-borneol, and (+)-camphor in A. argyi. The absence of amorpha-4,11-diene synthase (ADS) in the A. argyi genome may be the major reason for its lack of artemisinin production.
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影响因子：
1.7
作者：
Jurka, J;Kapitonov, VV;Walichiewicz, J
通讯作者：
Walichiewicz, J
影响因子：
12.3
作者：
Kim, Joonyup;Shiu, Shin-Han;Patterson, Sara E.
通讯作者：
Patterson, Sara E.
影响因子：
3.1
作者：
Aubourg, S;Lecharny, A;Bohlmann, J
通讯作者：
Bohlmann, J
DOI：
10.1093/bioinformatics/btp348
发表时间：
2009-08-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Capella-Gutiérrez S;Silla-Martínez JM;Gabaldón T
通讯作者：
Gabaldón T
DOI：
10.3390/molecules26103061
发表时间：
2021-05-20
期刊：
Molecules (Basel, Switzerland)
影响因子：
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作者：
Ivănescu B;Burlec AF;Crivoi F;Roșu C;Corciovă A
通讯作者：
Corciovă A