Transcriptome analysis of leaf tissue of Raphanus sativus by RNA sequencing.
Transcriptome analysis of leaf tissue of Raphanus sativus by RNA sequencing.
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DOI：
10.1371/journal.pone.0080350
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发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Wu J
中科院分区：
文献类型：
--
作者：
Zhang L;Jia H;Yin Y;Wu G;Xia H;Wang X;Fu C;Li M;Wu J
萝卜是一种常见的食用蔬菜，也是重要的药用化合物来源。然而，关于R. sativus的存在极大地阻碍了对R.大蒜本研究利用转录组测序技术对红毛菊叶片组织进行了分析。第一次进行了sativus。生成了大约2200万个干净的读段并用于转录组组装。随后针对基因本体（GO）数据库对生成的unigenes进行注释。KEGG分析进一步揭示了辣椒抽薹过程中剪接体组装和生物碱合成两条重要途径。此外，在单基因文库中还发现了6,295个具有不同基序的简单重复序列（SSR）。大蒜最后，对R.将这些基因与其他植物的同源基因进行比对，并构建了每个基因的系统发育树。本研究为进一步发现和研究红曲霉的功能基因提供了平台。大蒜
Raphanus sativus is not only a popular edible vegetable but also an important source of medicinal compounds. However, the paucity of knowledge about the transcriptome of R. sativus greatly impedes better understanding of the functional genomics and medicinal potential of R. sativus. In this study, the transcriptome sequencing of leaf tissues in R. sativus was performed for the first time. Approximately 22 million clean reads were generated and used for transcriptome assembly. The generated unigenes were subsequently annotated against gene ontology (GO) database. KEGG analysis further revealed two important pathways in the bolting stage of R.sativus including spliceosome assembly and alkaloid synthesis. In addition, a total of 6,295 simple sequence repeats (SSRs) with various motifs were identified in the unigene library of R. sativus. Finally, four unigenes of R. sativus were selected for alignment with their homologs from other plants, and phylogenetic trees for each of the genes were constructed. Taken together, this study will provide a platform to facilitate gene discovery and advance functional genomic research of R. sativus.
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影响因子：
3.7
作者：
Van Belleghem SM;Roelofs D;Van Houdt J;Hendrickx F
通讯作者：
Hendrickx F
影响因子：
2.4
作者：
Ohsako, Takanori;Hirai, Masashi;Yamabuki, Makoto
通讯作者：
Yamabuki, Makoto
影响因子：
4.4
作者：
Tang Q;Ma X;Mo C;Wilson IW;Song C;Zhao H;Yang Y;Fu W;Qiu D
通讯作者：
Qiu D
DOI：
10.1093/bioinformatics/bts094
发表时间：
2012-04-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Schulz MH;Zerbino DR;Vingron M;Birney E
通讯作者：
Birney E
影响因子：
4.4
作者：
Feng C;Chen M;Xu CJ;Bai L;Yin XR;Li X;Allan AC;Ferguson IB;Chen KS
通讯作者：
Chen KS