de novo foliar transcriptome of chenopodium amaranticolor and analysis of its gene expression during virus-induced hypersensitive response新创叶面藜amaranticolor的转录组分析的基因表达在占据高度敏感的反应.pdf

De Novo Foliar Transcriptome of Chenopodium amaranticolor and Analysis of Its Gene Expression During Virus-Induced Hypersensitive Response 1 1 1 2 1 1 1 Yongqiang Zhang , Xinwu Pei , Chao Zhang , Zifeng Lu , Zhixing Wang , Shirong Jia , Weimin Li * 1 Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, People’s Republic of China, 2 State Key Laboratory of Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, People’s Republic of China Abstract Background: The hypersensitive response (HR) system of Chenopodium spp. confers broad-spectrum virus resistance. However, little knowledge exists at the genomic level for Chenopodium, thus impeding the advanced molecular research of this attractive feature. Hence, we took advantage of RNA-seq to survey the foliar transcriptome of C. amaranticolor, a Chenopodium species widely used as laboratory indicator for pathogenic viruses, in order to facilitate the characterization of the HR-type of virus resistance. Methodology and Principal Findings: Using Illumina HiSeqTM 2000 platform, we obtained 39,868,984 reads with 3,588,208,560 bp, which were assembled into 112,452 unigenes (3,847 clusters and 108,605 singletons). BlastX search against the NCBI NR database identified 61,698 sequences with a cut-off E-value above 1025. Assembled sequences were annotated with gene descriptions, GO, COG and KEGG terms, respectively. A total number of 738 resistance gene analogs (RGAs) and homology sequences of 6 key signaling proteins within the R proteins-directed signaling pathway were identified. Based on