De Novo Assembly of Expressed Transcripts and Global Transcriptomic Analysis from Seedlings of the Paper Mulberry (Broussonetia kazinoki x Broussonetia papyifera)
文献类型：期刊论文
| 作者 | Peng Xianjun; Teng Linhong1; Wang Xiaoman1; Wang Yucheng1; Shen Shihua
|
| 刊名 | PLOS ONE
 |
| 出版日期 | 2014 |
| 卷号 | 9期号:5 |
| ISSN号 | 1932-6203 |
| DOI | 10.1371/journal.pone.0097487 |
| 文献子类 | Article |
| 英文摘要 | The paper mulberry is one of the multifunctional tree species in agroforestry systems and is also commonly utilized in traditional medicine in China and other Asian countries. However, little is known about its molecular genetics, which hinders research on and exploitation of this valuable resource. To discern the correlation between gene expression and the essential properties of the paper mulberry, we performed a transcriptomics analysis, assembling a total of 37,725 unigenes from 54,638,676 reads generated by RNA-seq. Among these, 22,692 unigenes showed greater than 60% similarity with genes from other species. The lengths of 13,566 annotated unigenes were longer than 1,000 bp. Functional clustering analysis with COG (Cluster of Orthologous Groups) revealed that 17,184 unigenes are primarily involved in transcription, translation, signal transduction, carbohydrate metabolism, secondary metabolism, and energy metabolism. GO (Gene Ontology) annotation suggests enrichment of genes encoding antioxidant activity, transporter activity, biosynthesis, metabolism and stress response, with a total of 30,659 unigenes falling in these categories. KEGG (Kyoto Encyclopedia of Genes and Genomes) metabolic pathway analysis showed that 7,199 unigenes are associated with 119 metabolic pathways. In addition to the basic metabolism, these genes are enriched for plant pathogen interaction, flavonoid metabolism and other secondary metabolic processes. Furthermore, differences in the transcriptomes of leaf, stem and root tissues were analyzed and 7,233 specifically expressed unigenes were identified. This global expression analysis provided novel insights about the molecular mechanisms of the biosynthesis of flavonoid, lignin and cellulose, as well as on the response to biotic and abiotic stresses including the remediation of contaminated soil by the paper mulberry. |
| 学科主题 | Multidisciplinary Sciences |
| 出版地 | SAN FRANCISCO |
| WOS关键词 | LIGNIN BIOSYNTHESIS ; PAPYRIFERA ; ANTIOXIDANT ; RESPONSES ; GROWTH |
| WOS研究方向 | Science & Technology - Other Topics |
| 语种 | 英语 |
| WOS记录号 | WOS:000336730600031 |
| 出版者 | PUBLIC LIBRARY SCIENCE |
| 资助机构 | foundation of the knowledge innovation project in the Chinese academy [KZCX2-YW-359-2] ; National Natural Science Foundation of China [31270653] |
| 源URL | [http://ir.ibcas.ac.cn/handle/2S10CLM1/27367]  |
| 专题 | 中科院北方资源植物重点实验室 |
| 作者单位 | 1.Chinese Acad Sci, Key Lab Plant Resources, Inst Bot, Beijing, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China |
| 推荐引用方式 GB/T 7714 | Peng Xianjun,Teng Linhong,Wang Xiaoman,et al. De Novo Assembly of Expressed Transcripts and Global Transcriptomic Analysis from Seedlings of the Paper Mulberry (Broussonetia kazinoki x Broussonetia papyifera)[J]. PLOS ONE,2014,9(5). |
| APA | Peng Xianjun,Teng Linhong,Wang Xiaoman,Wang Yucheng,&Shen Shihua.(2014).De Novo Assembly of Expressed Transcripts and Global Transcriptomic Analysis from Seedlings of the Paper Mulberry (Broussonetia kazinoki x Broussonetia papyifera).PLOS ONE,9(5). |
| MLA | Peng Xianjun,et al."De Novo Assembly of Expressed Transcripts and Global Transcriptomic Analysis from Seedlings of the Paper Mulberry (Broussonetia kazinoki x Broussonetia papyifera)".PLOS ONE 9.5(2014). |
入库方式： OAI收割
来源：植物研究所
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