title: Transcriptome Analysis of mRNA and miRNA in Somatic Embryos of Larix leptolepis Subjected to Hydrogen Treatment.
abstract: Hydrogen is a therapeutic antioxidant that has been used extensively in clinical trials. It also acts as a bioactive molecule that can alleviate abiotic stress in plants. However, the biological effects of hydrogen in somatic embryos and the underlying molecular basis remain largely unknown. In this study, the morphological and physiological influence of exogenous H₂ treatment during somatic embryogenesis was characterized inLarix leptolepisGordon. The results showed that exposure to hydrogen increased the proportions of active pro-embryogenic cells and normal somatic embryos. We sequenced mRNA and microRNA (miRNA) libraries to identify global transcriptome changes at different time points during H₂ treatment of larch pro-embryogenic masses (PEMs). A total of 45,393 mRNAs and 315 miRNAs were obtained. Among them, 4253 genes and 96 miRNAs were differentially expressed in the hydrogen-treated libraries compared with the control. Further, a large number of the differentially expressed mRNAs and miRNAs were related to reactive oxygen species (ROS) homeostasis and cell cycle regulation. We also identified 4399 potential target genes for 285 of the miRNAs. The differential expression data and the mRNA-miRNA interaction network described here provide new insights into the molecular mechanisms that determine the performance of PEMs exposed to H₂ during somatic embryogenesis.
authors.affiliation: State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. liuyali2008goto@163.com.
authors.forename: Yali
authors.initials: Y
authors.lastname: Liu
authors.affiliation: Key Laboratory of Research Institute of Forest Ecology and Protection, Chinese Academy of Forestry, Beijing 100091, China. syhan@caf.ac.cn.
authors.forename: Suying
authors.initials: S
authors.lastname: Han
authors.affiliation: Department of Pathology and Laboratory Medicine, University of California at Los Angeles, 1000 Veteran Ave., Los Angeles, CA 90095, USA. XDing@mednet.ucla.edu.
authors.forename: Xiangming
authors.initials: X
authors.lastname: Ding
authors.affiliation: State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. XinminLi@mednet.ucla.edu.|Department of Pathology and Laboratory Medicine, University of California at Los Angeles, 1000 Veteran Ave., Los Angeles, CA 90095, USA. XinminLi@mednet.ucla.edu.
authors.forename: Xinmin
authors.initials: X
authors.lastname: Li
authors.affiliation: State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. zhanglifeng1029@163.com.
authors.forename: Lifeng
authors.initials: L
authors.lastname: Zhang
authors.affiliation: State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. liwf@caf.ac.cn.
authors.forename: Wanfeng
authors.initials: W
authors.lastname: Li
authors.affiliation: State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. xuhy_lily@163.com.
authors.forename: Haiyan
authors.initials: H
authors.lastname: Xu
authors.affiliation: State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. lizhexin_8903@163.com.
authors.forename: Zhexin
authors.initials: Z
authors.lastname: Li
authors.affiliation: State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. lwqi@caf.ac.cn.
authors.forename: Liwang
authors.initials: L
authors.lastname: Qi
mesh_terms: D002453:Cell Cycle / Q000187:drug effects; D018797:Cell Cycle Proteins / Q000235:genetics / Q000378:metabolism; D030541:Databases, Genetic; D020869:Gene Expression Profiling; D018507:Gene Expression Regulation, Developmental; D018506:Gene Expression Regulation, Plant; D015723:Gene Library; D053263:Gene Regulatory Networks / Q000187:drug effects; D006859:Hydrogen / Q000494:pharmacology*; D028221:Larix / Q000187:drug effects* / Q000235:genetics / Q000254:growth & development / Q000378:metabolism; D035683:MicroRNAs / Q000235:genetics* / Q000378:metabolism; D010940:Plant Proteins / Q000235:genetics / Q000378:metabolism; D058439:Plant Somatic Embryogenesis Techniques; D012333:RNA, Messenger / Q000235:genetics* / Q000378:metabolism; D017382:Reactive Oxygen Species / Q000378:metabolism; D012639:Seeds / Q000187:drug effects* / Q000235:genetics / Q000254:growth & development / Q000378:metabolism; D059467:Transcriptome
chemical_list: D018797:Cell Cycle Proteins; D035683:MicroRNAs; D010940:Plant Proteins; D012333:RNA, Messenger; D017382:Reactive Oxygen Species; D006859:Hydrogen
keywords: cell cycle; hydrogen; miRNA; pro-embryogenic mass; reactive oxygen species (ROS) homeostasis; somatic embryogenesis