title: Transcriptome Analysis of Stem and Globally Comparison with Other Tissues inBrassica napus.
abstract: Brassica napusis one of the most important oilseed crops in the world. However, there is currently no enough stem transcriptome information and comparative transcriptome analysis of different tissues, which impedes further functional genomics research onB. napus. In this study, the stem transcriptome ofB. napuswas characterized by RNA-seq technology. Approximately 13.4 Gb high-quality clean reads with an average length of 100 bp were generated and used for comparative transcriptome analysis with the existing transcriptome sequencing data of roots, leaves, flower buds, and immature embryos ofB. napus. All the transcripts were annotated against GO and KEGG databases. The common genes in five tissues, differentially expressed genes (DEGs) of the common genes between stems and other tissues, and tissue-specific genes were detected, and the main biochemical activities and pathways implying the common genes, DEGs and tissue-specific genes were investigated. Accordingly, the common transcription factors (TFs) in the five tissues and tissue-specific TFs were identified, and a TFs-based regulation network between TFs and the target genes involved in 'Phenylpropanoid biosynthesis' pathway were constructed to show several important TFs and key nodes in the regulation process. Collectively, this study not only provided an available stem transcriptome resource inB. napus, but also revealed valuable comparative transcriptome information of five tissues ofB. napusfor future investigation on specific processes, functions and pathways.
authors.affiliation: School of Life Science and Technology, Huazhong University of Science and TechnologyWuhan, China; Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Huanggang Normal UniversityHuanggang, China.
authors.forename: Liyun
authors.initials: L
authors.lastname: Miao
authors.affiliation: School of Life Science and Technology, Huazhong University of Science and Technology Wuhan, China.
authors.forename: Libin
authors.initials: L
authors.lastname: Zhang
authors.affiliation: School of Life Science and Technology, Huazhong University of Science and Technology Wuhan, China.
authors.forename: Nadia
authors.initials: N
authors.lastname: Raboanatahiry
authors.affiliation: Oil Crops Research Institute, Chinese Academy of Agricultural Sciences Wuhan, China.
authors.forename: Guangyuan
authors.initials: G
authors.lastname: Lu
authors.affiliation: Oil Crops Research Institute, Chinese Academy of Agricultural Sciences Wuhan, China.
authors.forename: Xuekun
authors.initials: X
authors.lastname: Zhang
authors.affiliation: Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Huanggang Normal University Huanggang, China.
authors.forename: Jun
authors.initials: J
authors.lastname: Xiang
authors.affiliation: Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Huanggang Normal University Huanggang, China.
authors.forename: Jianping
authors.initials: J
authors.lastname: Gan
authors.affiliation: School of Life Science and Technology, Huazhong University of Science and Technology Wuhan, China.
authors.forename: Chunhua
authors.initials: C
authors.lastname: Fu
authors.affiliation: School of Life Science and Technology, Huazhong University of Science and TechnologyWuhan, China; Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Huanggang Normal UniversityHuanggang, China.
authors.forename: Maoteng
authors.initials: M
authors.lastname: Li
keywords: Brassica napus; RNA-sequencing; tissue-specific genes; transcription factors; transcriptome