Genome and transcriptome of Papaver somniferum Chinese landrace CHM indicates that massive genome expansion contributes to high benzylisoquinoline alkaloid biosynthesis.
Genome and transcriptome of Papaver somniferum Chinese landrace CHM indicates that massive genome expansion contributes to high benzylisoquinoline alkaloid biosynthesis.
复制标题
中国地方品种罂粟CHM的基因组和转录组表明，基因组的大规模扩展有助于高苄基异喹啉生物碱的生物合成。
DOI：
10.1038/s41438-020-00435-5
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发表时间：
2021-01-01
影响因子：
8.7
通讯作者：
Cong B
中科院分区：
文献类型：
--
作者：
Pei L;Wang B;Ye J;Hu X;Fu L;Li K;Ni Z;Wang Z;Wei Y;Shi L;Zhang Y;Bai X;Jiang M;Wang S;Ma C;Li S;Liu K;Li W;Cong B
罂粟（Papaver somniferum）是吗啡、可待因和半合成衍生物的来源，包括羟考酮和纳洛酮。本文报道了催眠草传统地方品种“中草药”的从头组装和基因组分析。还探索了2.62 Gb CHM基因组与先前测序的高诺斯卡品1（HN 1）品种之间的变异。在79，668个蛋白质编码基因中，我们对88.9%进行了功能注释，而HN1基因组中的功能注释率为68.8%。基因家族和4DTv与其他三种罂粟科植物的比较分析表明，罂粟经历了两个全基因组重复（WGD）事件。其中第一个，在祖先毛茛目，扩大基因家族的特征次生代谢产物的生产和抗病性。最近由转座因子介导的物种特异性WGD导致了大规模的基因组扩增。通过我们对多个器官和发育阶段的转录组学比较鉴定出的CHM和HN 1之间携带与农艺学不同表型相关的结构变异和大效应变体的基因可以开发新品种。这些基因组和转录组分析将提供宝贵的资源，为今后的罂粟基础研究和农业研究提供信息。
Opium poppy (Papaver somniferum) is a source of morphine, codeine, and semisynthetic derivatives, including oxycodone and naltrexone. Here, we report the de novo assembly and genomic analysis of P. somniferum traditional landrace ‘Chinese Herbal Medicine’. Variations between the 2.62 Gb CHM genome and that of the previously sequenced high noscapine 1 (HN1) variety were also explored. Among 79,668 protein-coding genes, we functionally annotated 88.9%, compared to 68.8% reported in the HN1 genome. Gene family and 4DTv comparative analyses with three other Papaveraceae species revealed that opium poppy underwent two whole-genome duplication (WGD) events. The first of these, in ancestral Ranunculales, expanded gene families related to characteristic secondary metabolite production and disease resistance. The more recent species-specific WGD mediated by transposable elements resulted in massive genome expansion. Genes carrying structural variations and large-effect variants associated with agronomically different phenotypes between CHM and HN1 that were identified through our transcriptomic comparison of multiple organs and developmental stages can enable the development of new varieties. These genomic and transcriptomic analyses will provide a valuable resource that informs future basic and agricultural studies of the opium poppy.
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影响因子：
4.9
作者：
Hori K;Yamada Y;Purwanto R;Minakuchi Y;Toyoda A;Hirakawa H;Sato F
通讯作者：
Sato F
影响因子：
64.8
作者：
Jaillon, Olivier;Aury, Jean-Marc;Wincker, Patrick
通讯作者：
Wincker, Patrick
影响因子：
2.9
作者：
Chaturvedi, Nidarshana;Singh, Mridula;Khanuja, Suman P. S.
通讯作者：
Khanuja, Suman P. S.
影响因子：
56.9
作者：
Denoeud, France;Carretero-Paulet, Lorenzo;Lashermes, Philippe
通讯作者：
Lashermes, Philippe
影响因子：
12.3
作者：
Haas, Brian J.;Salzberg, Steven L.;Zhu, Wei;Pertea, Mihaela;Allen, Jonathan E.;Orvis, Joshua;White, Owen;Buell, C. Robin;Wortman, Jennifer R.
通讯作者：
Wortman, Jennifer R.