Draft genome assembly and annotation of Glycyrrhiza uralensis, a medicinal legume
Draft genome assembly and annotation of Glycyrrhiza uralensis, a medicinal legume
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DOI：
10.1111/tpj.13385
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发表时间：
2017-01-01
期刊：
影响因子：
7.2
通讯作者：
Saito, Kazuki
中科院分区：
文献类型：
--
作者：
Mochida, Keiichi;Sakurai, Tetsuya;Saito, Kazuki
甘草是一种豆科植物，其根和根茎被广泛用作草药和天然甜味剂。全基因组测序是基因发现研究和分子育种的基础。在此，我们报告了一个约379-Mb的G. uralensis;该组件包含34445个预测的蛋白质编码基因。比较分析表明，高度保守的基因组成分和基因位点的共线性（同线性）之间的基因组和其他豆科植物，如苜蓿和鹰嘴豆。我们观察到3个参与拟南芥生物合成的基因，即2-羟基异黄烷酮合成酶（CYP 93 C）、2，7，4 '-三羟基异黄烷酮4'-O-甲基转移酶/甲基转移酶（HI 4 OMT）和7-羟基-7-O-甲基转移酶（7-IOMT）在拟南芥基因组的骨架上形成一个簇，并与苜蓿和鹰嘴豆显示出保守的微共线性。基于P450基因组注释，我们预测了P450和UDP依赖性糖基转移酶（UGT）超家族中的基因，其中一些参与三萜皂苷生物合成，并利用参考基因组序列表征了它们的基因表达。基因组测序及其注释为通过分子育种进行生物学改良和通过合成生物学方法发现用于工程化生物活性组分的有用基因提供了重要资源。
Chinese liquorice/licorice (Glycyrrhiza uralensis) is a leguminous plant species whose roots and rhizomes have been widely used as a herbal medicine and natural sweetener. Whole-genome sequencing is essential for gene discovery studies and molecular breeding in liquorice. Here, we report a draft assembly of the approximately 379-Mb whole-genome sequence of strain 308-19 of G. uralensis; this assembly contains 34 445 predicted protein-coding genes. Comparative analyses suggested well-conserved genomic components and collinearity of gene loci (synteny) between the genome of liquorice and those of other legumes such as Medicago and chickpea. We observed that three genes involved in isoflavonoid biosynthesis, namely, 2-hydroxyisoflavanone synthase (CYP93C), 2,7,4'-trihydroxyisoflavanone 4'-O-methyltransferase/isoflavone 4'-O-methyltransferase (HI4OMT) and isoflavone-7-O-methyltransferase (7-IOMT) formed a cluster on the scaffold of the liquorice genome and showed conserved microsynteny with Medicago and chickpea. Based on the liquorice genome annotation, we predicted genes in the P450 and UDP-dependent glycosyltransferase (UGT) superfamilies, some of which are involved in triterpenoid saponin biosynthesis, and characterised their gene expression with the reference genome sequence. The genome sequencing and its annotations provide an essential resource for liquorice improvement through molecular breeding and the discovery of useful genes for engineering bioactive components through synthetic biology approaches.