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De Novo Assembly and Characterization of the Transcriptome of the Chinese Medicinal Herb, Gentiana rigescens

College of Resources and Environment, Yuxi Normal University, Yuxi 653100, China
Plant and Food Research, Mt Albert Research Centre, Private Bag, Auckland 92169, New Zealand
Institute of Medicinal Plants, Yunnan Academy of Agricultural Sciences, Kunming 650223, China
University of Chinese Academy of Sciences, Beijing 100039, China
Author to whom correspondence should be addressed.
Academic Editor: Marcello Iriti
Int. J. Mol. Sci. 2015, 16(5), 11550-11573;
Received: 31 March 2015 / Revised: 11 May 2015 / Accepted: 14 May 2015 / Published: 20 May 2015
(This article belongs to the Special Issue Molecular Research in Plant Secondary Metabolism 2015)
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Gentiana rigescens is an important medicinal herb in China. The main validated medicinal component gentiopicroside is synthesized in shoots, but is mainly found in the plant’s roots. The gentiopicroside biosynthetic pathway and its regulatory control remain to be elucidated. Genome resources of gentian are limited. Next-generation sequencing (NGS) technologies can aid in supplying global gene expression profiles. In this study we present sequence and transcript abundance data for the root and leaf transcriptome of G. rigescens, obtained using the Illumina Hiseq2000. Over fifty million clean reads were obtained from leaf and root libraries. This yields 76,717 unigenes with an average length of 753 bp. Among these, 33,855 unigenes were identified as putative homologs of annotated sequences in public protein and nucleotide databases. Digital abundance analysis identified 3306 unigenes differentially enriched between leaf and root. Unigenes found in both tissues were categorized according to their putative functional categories. Of the differentially expressed genes, over 130 were annotated as related to terpenoid biosynthesis. This work is the first study of global transcriptome analyses in gentian. These sequences and putative functional data comprise a resource for future investigation of terpenoid biosynthesis in Gentianaceae species and annotation of the gentiopicroside biosynthetic pathway and its regulatory mechanisms. View Full-Text
Keywords: Gentiana rigescens; gentiopicroside; regulation; transcriptome Gentiana rigescens; gentiopicroside; regulation; transcriptome

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Zhang, X.; Allan, A.C.; Li, C.; Wang, Y.; Yao, Q. De Novo Assembly and Characterization of the Transcriptome of the Chinese Medicinal Herb, Gentiana rigescens. Int. J. Mol. Sci. 2015, 16, 11550-11573.

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