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Gene cloning of a neutral ceramidase from the sphingolipid metabolic pathway based on transcriptome analysis of Amorphophallus muelleri
PLOS ONE ( IF 3.7 ) Pub Date : 2018-03-28 , DOI: 10.1371/journal.pone.0194863
Lin Zhong , Erxi Liu , Chaozhu Yang , Ying Diao , Nunung Harijati , Jiangdong Liu , Zhongli Hu , Surong Jin

Amorphophallus is a perennial herbaceous plant species mainly distributed in the tropics or subtropics of Asia and Africa. It has been used as a traditional medicine for a long time and now is utilized for the pharmaceutical, chemical and agriculture industries as a valued economic crop. Recently, Amorphophallus has attracted tremendous interest because of its high ceramide content. However, the breeding and genome studies are severely limited by the arduous whole genome sequencing of Amorphophallus. In this study, the transcriptome data of A. muelleri was obtained by utilizing the high-throughput Illumina sequencing platform. Based on this information, the majority of the significant genes involved in the proposed sphingolipid metabolic pathway were identified. Then, the full-length neutral ceramidase cDNA was obtained with the help of its candidate transcripts, which were acquired from the transcriptome data. Furthermore, we demonstrated that this neutral ceramidase was a real ceramidase by eukaryotic expression in the yeast double knockout mutant Δypc1 Δydc1, which lacks the ceramidases—dihydroCDase (YDC1p), phytoCDase (YPC1p). In addition, the biochemical characterization of purified A. muelleri ceramidase (AmCDase) exhibited classical Michaelis-Menten kinetics with an optimal activity ranging from pH 6.5 to 8.0. Based on our knowledge, this study is the first to report the related information of the neutral ceramidase in Amorphophallus. All datasets can provide significant information for related studies, such as gene expression, genetic improvement and application on breeding in Amorphophallus.



中文翻译:

基于鞘脂魔芋转录组分析的鞘脂代谢途径中性神经酰胺酶基因的克隆

魔芋是多年生草本植物,主要​​分布在亚洲和非洲的热带或亚热带。它作为一种传统药物已经使用了很长时间,现在已作为重要的经济作物用于制药,化学和农业行业。近来,魔芋由于其高的神经酰胺含量而引起了极大的兴趣。然而,繁琐的魔芋全基因组测序严重限制了育种和基因组研究。在这项研究中,A的转录组数据。穆勒里通过使用高通量Illumina测序平台获得了DNA。根据此信息,可以确定参与拟议的鞘脂代谢途径的大多数重要基因。然后,借助其候选转录本获得全长中性神经酰胺酶cDNA,该候选转录本是从转录组数据中获得的。此外,我们通过酵母双敲除突变体Δypc1Δydc1中的真核表达证明了这种中性的神经酰胺酶是真正的神经酰胺酶,该突变体缺少陶瓷蛋白酶-dihydroCDase(YDC1p),phytoCDase(YPC1p)。另外,纯化的A的生化特性。穆勒里神经酰胺酶(AmCDase)具有经典的Michaelis-Menten动力学,其最佳活性在pH 6.5至8.0范围内。根据我们的知识,这项研究是第一个报告魔芋中性神经酰胺酶相关信息的研究。所有数据集都可以为相关研究提供重要信息,例如基因表达,遗传改良以及在魔芋育种中的应用。

更新日期:2018-03-29
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