Long read reference genome-free reconstruction of a full-length transcriptome from Astragalus membranaceus reveals transcript variants involved in bioactive compound biosynthesis.

Autor:	Li J; Department of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia.; Zhendong Center for the Molecular Basis of Traditional Chinese Medicine, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia., Harata-Lee Y; Department of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia.; Zhendong Center for the Molecular Basis of Traditional Chinese Medicine, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia., Denton MD; School of Agriculture, Food and Wine, The University of Adelaide, Adelaide, SA, Australia., Feng Q; Shanxi Modern Chinese Medicine Engineering Laboratory, Shanxi University of Traditional Chinese Medicine, Shanxi, China., Rathjen JR; School of Agriculture, Food and Wine, The University of Adelaide, Adelaide, SA, Australia., Qu Z; Department of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia.; Zhendong Center for the Molecular Basis of Traditional Chinese Medicine, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia., Adelson DL; Department of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia.; Zhendong Center for the Molecular Basis of Traditional Chinese Medicine, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia.
Jazyk:	angličtina
Zdroj:	Cell discovery [Cell Discov] 2017 Aug 29; Vol. 3, pp. 17031. Date of Electronic Publication: 2017 Aug 29 (Print Publication: 2017).
DOI:	10.1038/celldisc.2017.31
Abstrakt:	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 . Competing Interests: The authors declare no conflict of interest.
Databáze:	MEDLINE
Externí odkaz:	Zobrazit plný text záznamu