De novo Transcriptome Analysis of Miscanthus lutarioriparius Identifies Candidate Genes in Rhizome Development

CORC > 青岛生物能源与过程研究所 > 中国科学院青岛生物能源与过程研究所 > 植物代谢工程团队

	De novo Transcriptome Analysis of Miscanthus lutarioriparius Identifies Candidate Genes in Rhizome Development
	Hu, Ruibo 1; Yu, Changjiang 1; Wang, Xiaoyu 1; Jia, Chunlin 2; Pei, Shengqiang 1; He, Kang 1; He, Guo 1; Kong, Yingzhen 3; Zhou, Gongke 1
刊名	FRONTIERS IN PLANT SCIENCE
	2017-04-12
卷号	8
关键词	Miscanthus lutarioriparius rhizome formation RNA-Seq lateral meristem transcription factor
英文摘要	Miscanthus lutarioriparius is a promising lignocellulosic feedstock for second-generation bioethanol production. However, the genomic resource for this species is relatively limited thus hampers our understanding of the molecular mechanisms underlying many important biological processes. In this study, we performed the first de novo transcriptome analysis of five tissues (leaf, stem, root, lateral bud and rhizome bud) of M. lutarioriparius with an emphasis to identify putative genes involved in rhizome development. Approximately 66 gigabase (GB) paired-end clean reads were obtained and assembled into 169,064 unigenes with an average length of 759 bp. Among these unigenes, 103,899 (61.5%) were annotated in seven public protein databases. Differential gene expression profiling analysis revealed that 4,609, 3,188, 1,679, 1,218, and 1,077 genes were predominantly expressed in root, leaf, stem, lateral bud, and rhizome bud, respectively. Their expression patterns were further classified into 12 distinct clusters. Pathway enrichment analysis revealed that genes predominantly expressed in rhizome bud were mainly involved in primary metabolism and hormone signaling and transduction pathways. Noteworthy, 19 transcription factors (TFs) and 16 hormone signaling pathway-related genes were identified to be predominantly expressed in rhizome bud compared with the other tissues, suggesting putative roles in rhizome formation and development. In addition, a predictive regulatory network was constructed between four TFs and six auxin and abscisic acid (ABA) -related genes. Furthermore, the expression of 24 rhizome-specific genes was further validated by quantitative real-time RT-PCR (qRT-PCR) analysis. Taken together, this study provide a global portrait of gene expression across five different tissues and reveal preliminary insights into rhizome growth and development. The data presented will contribute to our understanding of the molecular mechanisms underlying rhizome development in M. lutarioriparius and remarkably enrich the genomic resources of Miscanthus.
WOS标题词	Science & Technology ; Life Sciences & Biomedicine
类目[WOS]	Plant Sciences
研究领域[WOS]	Plant Sciences
关键词[WOS]	DIFFERENTIAL EXPRESSION ANALYSIS ; ORYZA-LONGISTAMINATA ; ENERGY CROPS ; MOLECULAR ANALYSIS ; REVEALS ; GROWTH ; RICE ; DOMESTICATION ; SPECIFICITY ; MORPHOLOGY
收录类别	SCI
语种	英语
WOS记录号	WOS:000398993000001
内容类型	期刊论文
源URL	[http://ir.qibebt.ac.cn/handle/337004/9286]
专题	青岛生物能源与过程研究所_植物代谢工程团队
作者单位	1.Chinese Acad Sci, Qingdao Inst Bioenergy & Bioproc Technol, Qingdao Engn Res Ctr Biomass Resources & Environm, Key Lab Biofuels, Qingdao, Peoples R China 2.Shandong Inst Agr Sustainable Dev, Jinan, Peoples R China 3.Chinese Acad Agr Sci, Tobacco Res Inst, Key Lab Tobacco Genet Improvement & Biotechnol, Qingdao, Peoples R China
推荐引用方式 GB/T 7714	Hu, Ruibo,Yu, Changjiang,Wang, Xiaoyu,et al. De novo Transcriptome Analysis of Miscanthus lutarioriparius Identifies Candidate Genes in Rhizome Development[J]. FRONTIERS IN PLANT SCIENCE,2017,8.
APA	Hu, Ruibo.,Yu, Changjiang.,Wang, Xiaoyu.,Jia, Chunlin.,Pei, Shengqiang.,...&Zhou, Gongke.(2017).De novo Transcriptome Analysis of Miscanthus lutarioriparius Identifies Candidate Genes in Rhizome Development.FRONTIERS IN PLANT SCIENCE,8.
MLA	Hu, Ruibo,et al."De novo Transcriptome Analysis of Miscanthus lutarioriparius Identifies Candidate Genes in Rhizome Development".FRONTIERS IN PLANT SCIENCE 8(2017).