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题名: Comparative transcriptome analysis of aboveground and underground tissues of Rhodiola algida, an important ethno-medicinal herb endemic to the Qinghai-Tibetan Plateau
作者: Zhang, Faqi1, 2; Gao, Qingbo1; Khan, Gulzar1; Luo, Keming1, 2; null(陈世龙)1
刊名: GENE
出版日期: 2014-12-15
卷号: 553, 期号:2, 页码:90-97
关键词: RNA-seq ; Transcriptome ; Rhodiola algida ; Gene expression
通讯作者: Chen, SL (reprint author), Chinese Acad Sci, Northwest Inst Plateau Biol, Key Lab Adaptat & Evolut Plateau Biota, Xining 810001, Peoples R China.
文章类型: Article
英文摘要: Transcriptome sequencing is a powerful tool for the assessment of gene expression and the identification and characterization of molecular markers in non-model organisms. Rhodiola algida L. (Crassulaceae), endemic to the Qinghai-Tibetan Plateau, has long been used in traditional Chinese medicine to prevent altitude sickness and eliminate fatigue. Illumina-based high-throughput transcriptome sequencing of aboveground and underground tissues of R. algida respectively yielded 5.40 million and 5.18 million clean reads. A total of 82,664 unigenes averaging 577 bp in length were generated from the aboveground clean reads, with 86,237 unigenes of 502-bp mean length obtained from the underground tissues. Of 55,028 unigenes compared with sequences in UniProt databases, 20,413 unigenes had significant similarities with existing sequences in NR, NT, SwissProt, GO, KEGG, and COG databases. Single nucleotide polymorphism (SNP) analysis identified 237,294 SNPs from 154,636 contigs of aboveground tissues and 197,540 SNPs from 144,963 underground-derived contigs. The information uncovered in this study should serve as a valuable resource for the characterization of important traits related to secondary metabolite formation and for the identification of associated molecular mechanisms. (C) 2014 Elsevier B.V. All rights reserved.
WOS标题词: Science & Technology ; Life Sciences & Biomedicine
类目[WOS]: Genetics & Heredity
研究领域[WOS]: Genetics & Heredity
关键词[WOS]: RNA-SEQ ; REFERENCE GENOME ; SNP DISCOVERY ; GENE ; ANNOTATION ; ALIGNMENT ; SEQUENCE ; PEPPER ; ATLAS ; PLANT
收录类别: SCI
语种: 英语
WOS记录号: WOS:000345488400004
Citation statistics:
内容类型: 期刊论文
URI标识: http://210.75.249.4/handle/363003/6580
Appears in Collections:中国科学院西北高原生物研究所_期刊论文

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作者单位: 1.Chinese Acad Sci, Northwest Inst Plateau Biol, Key Lab Adaptat & Evolut Plateau Biota, Xining 810001, Peoples R China
2.Southwest Univ, Sch Life Sci, Chongqing 400715, Peoples R China

Recommended Citation:
Zhang, Faqi,Gao, Qingbo,Khan, Gulzar,et al. Comparative transcriptome analysis of aboveground and underground tissues of Rhodiola algida, an important ethno-medicinal herb endemic to the Qinghai-Tibetan Plateau[J]. GENE,2016,553(2):90.
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文件名: Comparative transcriptome analysis of aboveground and underground tissues of Rhodiola algida, an important ethno-medicinal herb endemic to the Qinghai-Tibetan Plateau.pdf
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