The Cardamine enshiensis genome reveals whole genome duplication and insight into selenium hyperaccumulation and tolerance.
The Cardamine enshiensis genome reveals whole genome duplication and insight into selenium hyperaccumulation and tolerance.
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恩施碎米荠基因组揭示了全基因组复制并深入了解硒超积累和耐受性
DOI：
10.1038/s41421-021-00286-x
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发表时间：
2021-08-10
期刊：
影响因子：
33.5
通讯作者：
Wang L
中科院分区：
文献类型：
--
作者：
Huang C;Ying H;Yang X;Gao Y;Li T;Wu B;Ren M;Zhang Z;Ding J;Gao J;Wen D;Ye X;Liu L;Wang H;Sun G;Zou Y;Chen N;Wang L
恩施碎米荠是一种硒超积累植物。硒是一种与许多健康益处相关的必需微量元素。尽管其至关重要，该物种的基因组信息是有限的。在这里，我们报告了一个染色体水平的基因组组装的C。enshiensis，全长443.4Mb，有16条染色体，骨架N50为24 Mb。阐明红球藻耐硒和超积累硒的机制。enshiensis，我们生成并分析了一个数据集，包括基因组，转录组和代谢组。结果表明，类黄酮、谷胱甘肽和木质素生物合成途径可能在保护C。enshiensis对硒胁迫的响应。染色质相互作用模式的Hi-C分析表明，C. enshiensis分为A和B区室，每个染色体的两个端粒之间的强相互作用与组蛋白修饰、表观遗传标记、DNA甲基化和RNA丰度相关。补硒可影响C. enshiensis在分室水平上的分布。硒处理后的基因室的变化参与硒化合物的代谢，与拓扑结构相关的域绝缘区域的基因参与硒，硒结合，和类黄酮的生物合成的细胞反应。这项多组学研究为深入了解C.恩施亚种。
Cardamine enshiensis is a well-known selenium (Se)-hyperaccumulating plant. Se is an essential trace element associated with many health benefits. Despite its critical importance, genomic information of this species is limited. Here, we report a chromosome-level genome assembly of C. enshiensis, which consists of 443.4 Mb in 16 chromosomes with a scaffold N50 of 24 Mb. To elucidate the mechanism of Se tolerance and hyperaccumulation in C. enshiensis, we generated and analyzed a dataset encompassing genomes, transcriptomes, and metabolomes. The results reveal that flavonoid, glutathione, and lignin biosynthetic pathways may play important roles in protecting C. enshiensis from stress induced by Se. Hi-C analysis of chromatin interaction patterns showed that the chromatin of C. enshiensis is partitioned into A and B compartments, and strong interactions between the two telomeres of each chromosome were correlated with histone modifications, epigenetic markers, DNA methylation, and RNA abundance. Se supplementation could affect the 3D chromatin architecture of C. enshiensis at the compartment level. Genes with compartment changes after Se treatment were involved in selenocompound metabolism, and genes in regions with topologically associated domain insulation participated in cellular responses to Se, Se binding, and flavonoid biosynthesis. This multiomics research provides molecular insight into the mechanism underlying Se tolerance and hyperaccumulation in C. enshiensis.
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