Sequencing and characterization of leaf transcriptomes of six diploid Nicotiana species

	Sequencing and characterization of leaf transcriptomes of six diploid Nicotiana species
	Long N1 ; Ren XL 2; Xiang ZD 3; Wan WT 1; Dong Y*1,4; dongyang@dongyang-lab.org
	2016
发表期刊	JOURNAL OF BIOLOGICAL RESEARCH-THESSALONIKI
卷号	23 期号:X 页码:e6
合作性质	其它
摘要	Background: Nicotiana belongs to the Solanaceae family that includes important crops such as tomato, potato, eggplant, and pepper. Nicotiana species are of worldwide economic importance and are important model plants for scientific research. Here we present the comparative analysis of the transcriptomes of six wild diploid Nicotiana spe- cies. Wild relatives provide an excellent study system for the analysis of the genetic basis for various traits, especially disease resistance. Results: Whole transcriptome sequencing (RNA-seq) was performed for leaves of six diploid Nicotiana species, i.e. Nicotiana glauca, Nicotiana noctiflora, Nicotiana cordifolia, Nicotiana knightiana, Nicotiana setchellii and Nicotiana tomentosiformis. For each species, 9.0–22.3 Gb high-quality clean data were generated, and 67,073–182,046 tran- scripts were assembled with lengths greater than 100 bp. Over 90 % of the ORFs in each species had significant similarity with proteins in the NCBI non-redundant protein sequence (NR) database. A total of 2491 homologs were identified and used to construct a phylogenetic tree from the respective transcriptomes in Nicotiana. Bioinformatic analysis identified resistance gene analogs, major transcription factor families, and alkaloid transporter genes linked to plant defense. Conclusions: This is the first report on the leaf transcriptomes of six wild Nicotiana species by Illumina paired-end sequencing and de novo assembly without a reference genome. These sequence resources hopefully will provide an opportunity for identifying genes involved in plant defense and several important quality traits in wild Nicotiana and will accelerate functional genomic studies and genetic improvement efforts of Nicotiana or other important Solan- aceae crops in the future.
关键词	Nicotiana Transcriptome De Novo Assembly Phylogenetic Relationship Nicotiana Setchellii Nicotiana Cordifolia
收录类别	其他
语种	英语
文献类型	期刊论文
条目标识符	http://ir.kiz.ac.cn/handle/152453/10249
专题	遗传资源与进化国家重点实验室
通讯作者	dongyang@dongyang-lab.org
作者单位	1.Faculty of Life Science and Technology, Kunming University of Science and Technology, South Jingming Road No.727, Kunming 650500, Yunnan, China 2.Guizhou Tobacco Research Institute, North Yuntan Road, Jinyang District, Guiyang 550003, Guizhou, China 3.State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, 32 East Jiaochang Road, Kunming 650223, Yunnan, China 4.Biological Big Data College, Yunnan Agricultural University, Kunming 650201, Yunnan, China.
推荐引用方式 GB/T 7714	Long N,Ren XL,Xiang ZD,et al. Sequencing and characterization of leaf transcriptomes of six diploid Nicotiana species[J]. JOURNAL OF BIOLOGICAL RESEARCH-THESSALONIKI,2016,23(X):e6.
APA	Long N,Ren XL,Xiang ZD,Wan WT,Dong Y*,&dongyang@dongyang-lab.org.(2016).Sequencing and characterization of leaf transcriptomes of six diploid Nicotiana species.JOURNAL OF BIOLOGICAL RESEARCH-THESSALONIKI,23(X),e6.
MLA	Long N,et al."Sequencing and characterization of leaf transcriptomes of six diploid Nicotiana species".JOURNAL OF BIOLOGICAL RESEARCH-THESSALONIKI 23.X(2016):e6.

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2016070620.pdf（1681KB）	期刊论文	出版稿	开放获取	CC BY-NC-SA	请求全文