Panax ginseng genome examination for ginsenoside biosynthesis.
Panax ginseng genome examination for ginsenoside biosynthesis.
复制标题
人参基因组检测人参皂苷生物合成
DOI：
10.1093/gigascience/gix093
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发表时间：
2017-11-01
期刊：
影响因子：
9.2
通讯作者：
Chen S
中科院分区：
文献类型：
--
作者：
Xu J;Chu Y;Liao B;Xiao S;Yin Q;Bai R;Su H;Dong L;Li X;Qian J;Zhang J;Zhang Y;Zhang X;Wu M;Zhang J;Li G;Zhang L;Chang Z;Zhang Y;Jia Z;Liu Z;Afreh D;Nahurira R;Zhang L;Cheng R;Zhu Y;Zhu G;Rao W;Zhou C;Qiao L;Huang Z;Cheng YC;Chen S
摘要人参中含有人参皂苷等生物活性成分，几千年来一直被视为重要的传统药材。然而，人参的遗传背景仍然知之甚少，部分原因是这种植物的大而复杂的基因组组成。我们使用下一代测序技术报道了人参的全基因组序列。3.5 GB的核苷酸序列包含60%以上的重复，编码42006个预测基因。采用22个人参根转录组数据集和质谱图对功能基因进行精确定量。已鉴定出31个基因参与甲氧丙酮酸途径。其中8个基因被注释为3-羟基-3-甲基戊二酰辅酶A还原酶，它们表现出不同的结构和表达特征。共鉴定出225个UDP糖基转移酶(UGT)，这些UGT是人参最大的基因家族之一。串联重复导致了UGT的重复和分化。对第71、74和94个家族的UGT的分子模拟显示，N端有一个区域特异的保守基序。分子对接预测该基序捕获人参皂苷前体。人参基因组是了解和改进人参的育种、栽培和合成生物学的宝贵资源。
Abstract 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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影响因子：
2.6
作者：
HEMMERLY, TE
通讯作者：
HEMMERLY, TE
影响因子：
5.8
作者：
Edgar, RC;Myers, EW
通讯作者：
Myers, EW
影响因子：
7.2
作者：
Achnine, L;Huhman, DV;Dixon, RA
通讯作者：
Dixon, RA
影响因子：
9.2
作者：
Guan R;Zhao Y;Zhang H;Fan G;Liu X;Zhou W;Shi C;Wang J;Liu W;Liang X;Fu Y;Ma K;Zhao L;Zhang F;Lu Z;Lee SM;Xu X;Wang J;Yang H;Fu C;Ge S;Chen W
通讯作者：
Chen W
影响因子：
14.9
作者：
The UniProt Consortium
通讯作者：
The UniProt Consortium