Long read reference genome-free reconstruction of a full-length transcriptome from Astragalus membranaceus reveals transcript variants involved in bioactive compound biosynthesis.
Long read reference genome-free reconstruction of a full-length transcriptome from Astragalus membranaceus reveals transcript variants involved in bioactive compound biosynthesis.
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长期读取的参考基因组无基因组的重建，从阿astagalusmembranaceus揭示了参与生物活性复合生物合成的转录物变体。
DOI：
10.1038/celldisc.2017.31
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发表时间：
2017
期刊：
影响因子：
33.5
通讯作者：
Adelson DL
中科院分区：
文献类型：
--
作者：
Li J;Harata-Lee Y;Denton MD;Feng Q;Rathjen JR;Qu Z;Adelson DL
黄芪，中国又称黄芪，是中医药中应用最广泛的中草药之一。黄芪的中药制剂已被用于治疗多种疾病，如心血管疾病、2型糖尿病、肾炎和癌症。药理研究表明，黄芪提取物具有免疫调节、降血糖、抗炎、抗氧化和抗病毒等活性。因此，研究黄芪中生物活性物质的生物合成，如黄芪皂苷、毛蕊异黄酮苷和毛蕊异黄酮苷-7-O-β-d-葡萄糖苷，对进一步研究黄芪的遗传学具有重要意义。在这项研究中，我们利用PacBio Iso-Seq Long Reads从叶和根组织中重建了黄芪的全长转录本。我们在每个组织中分别鉴定了27 975和22 343个全长独特的转录本模型。与以前使用短读测序的研究相比，我们重建的转录本更长，更有可能是全长的，包括大量转录本变体。此外，我们还重新鉴定和鉴定了黄芪甲苷、毛蕊异黄酮苷和毛蕊异黄酮苷-7-O-β-d-葡萄糖苷生物合成相关基因的潜在转录变体。总之，我们的研究为描述没有参考基因组的物种的全长转录组提供了一个实用的管道，并为探索黄芪活性物质的生物合成提供了一个有用的基因组资源。
Astragalus membranaceus, also known as Huangqi in China, is one of the most widely used medicinal herbs in Traditional Chinese Medicine. Traditional Chinese Medicine formulations from Astragalus membranaceus have been used to treat a wide range of illnesses, such as cardiovascular disease, type 2 diabetes, nephritis and cancers. Pharmacological studies have shown that immunomodulating, anti-hyperglycemic, anti-inflammatory, antioxidant and antiviral activities exist in the extract of Astragalus membranaceus. Therefore, characterising the biosynthesis of bioactive compounds in Astragalus membranaceus, such as Astragalosides, Calycosin and Calycosin-7-O-β-d-glucoside, is of particular importance for further genetic studies of Astragalus membranaceus. In this study, we reconstructed the Astragalus membranaceus full-length transcriptomes from leaf and root tissues using PacBio Iso-Seq long reads. We identified 27 975 and 22 343 full-length unique transcript models in each tissue respectively. Compared with previous studies that used short read sequencing, our reconstructed transcripts are longer, and are more likely to be full-length and include numerous transcript variants. Moreover, we also re-characterised and identified potential transcript variants of genes involved in Astragalosides, Calycosin and Calycosin-7-O-β-d-glucoside biosynthesis. In conclusion, our study provides a practical pipeline to characterise the full-length transcriptome for species without a reference genome and a useful genomic resource for exploring the biosynthesis of active compounds in Astragalus membranaceus.
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毛蕊花苷-7-O-β-D-葡萄糖苷通过整合素连接激酶信号通路促进血管内皮细胞氧化应激诱导的细胞骨架重组
影响因子：
--
作者：
Jiang YH;Sun W;Li W;Hu HZ;Zhou L;Jiang HH;Xu JX
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Xu JX
影响因子：
16.6
作者：
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影响因子：
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作者：
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DOI：
10.1155/2013/654643
发表时间：
2013
期刊：
Evidence-based complementary and alternative medicine : eCAM
影响因子：
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作者：
Agyemang K;Han L;Liu E;Zhang Y;Wang T;Gao X
通讯作者：
Gao X
影响因子：
9.5
作者：
Nagaraj, Shivashankar H.;Gasser, Robin B.;Ranganathan, Shoba
通讯作者：
Ranganathan, Shoba