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Transcriptome profiling and digital gene expression by deep sequencing in early somatic embryogenesis of endangered medicinal Eleutherococcus senticosus Maxim.

文献类型： 外文期刊

作者： Tao, Lei 1 ; Zhao, Yue 1 ; Wu, Ying 1 ; Wang, Qiuyu 1 ; Yuan, Hongmei 2 ; Zhao, Lijuan 3 ; Guo, Wendong 4 ; You, Xianglin 1 ;

作者机构： 1.Northeast Forestry Univ, Coll Life Sci, 26 Hexing Rd, Harbin 150040, Peoples R China

2.Heilongjiang Acad Agr Sci, Inst Ind Crops, Harbin 150086, Peoples R China

3.Heilongjiang Acad Agr Sci, Crop Breeding Inst, Harbin 150086, Peoples R China

4.Heilongjiang Acad Sci, Inst Nat Resources & Ecol, Harbin 150040, Peoples R China

关键词： Eleutherococcus senticosus Maxim.;Somatic embryogenesis;Gene Ontology;Transcriptome;Digital gene expression

期刊名称：GENE （ 影响因子：3.688； 五年影响因子：3.329 ）

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收录情况： SCI

摘要： Somatic embryogenesis (SE) has been studied as a model system to understand molecular events in physiology, biochemistry, and cytology during plant embryo development. In particular, it is exceedingly difficult to access the morphological and early regulatory events in zygotic embryos. To understand the molecular mechanisms regulating early SE in Eleutherococcus senticosus Maxim., we used high-throughput RNA-Seq technology to investigate its transcriptome. We obtained 58,327,688 reads, which were assembled into 75,803 unique unigenes. To better understand their functions, the unigenes were annotated using the Clusters of Orthologous Groups, Gene Ontology, and Kyoto Encyclopedia of Genes and Genomes databases. Digital gene expression libraries revealed differences in gene expression profiles at different developmental stages (embryogenic callus, yellow embryo genic callus, global embryo). We obtained a sequencing depth of >5.6 million tags per sample and identified many differentially expressed genes at various stages of SE. The initiation of SE affected gene expression in many KEGG pathways, but predominantly that in metabolic pathways, biosynthesis of secondary metabolites, and plant hormone signal transduction. This information on the changes in the multiple pathways related to SE induction in E. senticosus Maxim. embryogenic tissue will contribute to a more comprehensive understanding of the mechanisms involved in early SE. Additionally, the differentially expressed genes may act as molecular markers and could play very important roles in the early stage of SE. The results are a comprehensive molecular biology resource for investigating SE of E. senticosus Maxim. (C) 2015 Elsevier B.V. All rights reserved.

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