title: Transcriptome and comparative gene expression analysis of Phyllostachys edulis in response to high light.
abstract: BACKGROUND
  Photosynthesis plays a vital role as an energy source for plant metabolism, and its efficiency may be drastically reduced owing to abiotic stresses. Moso bamboo (Phyllostachys edulis), is a renewable and versatile resource with significant ecological and economic value, which encounters high light stress with large amplitude in natural environment. However, the gene expression profiles in response to high light were elusive in bamboo.
  
  
  RESULTS
  We firstly performed physiological experiments on moso bamboo leaves treated with high light (1200 μmol · m(-2) · s(-1)). Based on the physiological results, three samples of leaves treated with high light for 0 h (CK), 0.5 h (0.5H), and 8 h (8H) were selected to perform further high-throughput RNA sequencing (RNA-Seq), respectively. Then, the transcriptomic result demonstrated that the most genes were expressed at a statistically significant value (FPKM ≥ 1) and the RNA-Seq data were validated via quantitative real time PCR. Moreover, some significant gene expression changes were detected. For instance, 154 differentially expressed genes were detected in 0.5H vs. CK, those in 8H vs. CK were 710, and 429 differentially expressed genes were also identified in 0.5H vs.8 H. Besides, 47 gene annotations closely related to photosynthesis were refined, including 35 genes annotated as light-harvesting chlorophyll a/b-binding (LHC) proteins, 9 LHC-like proteins and 3 PsbSs. Furthermore, the pathway of reactive oxygen species (ROS) in photosynthesis was further analyzed. A total of 171 genes associated with ROS-scavenging were identified. Some up-regulated transcript factors, such as NAC, WRKY, AR2/ERF, and bHLH, mainly concentrated in short-term response, while C2H2, HSF, bZIP, and MYB were largely involved in short and middle terms response to high light.
  
  
  CONCLUSIONS
  Based on the gene expression analysis of moso bamboo in response to high light, we thus identified the global gene expression patterns, refined the annotations of LHC protein, LHC-like protein and PsbS, detected the pathway of ROS as well as identified ROS-scavenging genes and transcription factors in the regulation of photosynthetic and related metabolisms. These findings maybe provide a starting point to interpret the molecular mechanism of photosynthesis in moso bamboo under high light stress.
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, Beijing, 100102, China. zhaohansheng@icbr.ac.cn.|Institute of Gene Science for Bamboo and Rattan Resources, International Center for Bamboo and Rattan, Beijing, 100102, China. zhaohansheng@icbr.ac.cn.
authors.forename: Hansheng
authors.initials: H
authors.lastname: Zhao
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, Beijing, 100102, China. 330403612@qq.com.|Institute of Gene Science for Bamboo and Rattan Resources, International Center for Bamboo and Rattan, Beijing, 100102, China. 330403612@qq.com.
authors.forename: Yongfeng
authors.initials: Y
authors.lastname: Lou
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, Beijing, 100102, China. huayusun@126.com.|Institute of Gene Science for Bamboo and Rattan Resources, International Center for Bamboo and Rattan, Beijing, 100102, China. huayusun@126.com.
authors.forename: Huayu
authors.initials: H
authors.lastname: Sun
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, Beijing, 100102, China. lilichao1991@126.com.|Institute of Gene Science for Bamboo and Rattan Resources, International Center for Bamboo and Rattan, Beijing, 100102, China. lilichao1991@126.com.
authors.forename: Lichao
authors.initials: L
authors.lastname: Li
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, Beijing, 100102, China. wangllawj@163.com.|Institute of Gene Science for Bamboo and Rattan Resources, International Center for Bamboo and Rattan, Beijing, 100102, China. wangllawj@163.com.
authors.forename: Lili
authors.initials: L
authors.lastname: Wang
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, Beijing, 100102, China. lxhs0108@163.com.|Institute of Gene Science for Bamboo and Rattan Resources, International Center for Bamboo and Rattan, Beijing, 100102, China. lxhs0108@163.com.
authors.forename: Lili
authors.initials: L
authors.lastname: Dong
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, Beijing, 100102, China. gaozhimin@icbr.ac.cn.|Institute of Gene Science for Bamboo and Rattan Resources, International Center for Bamboo and Rattan, Beijing, 100102, China. gaozhimin@icbr.ac.cn.
authors.forename: Zhimin
authors.initials: Z
authors.lastname: Gao
mesh_terms: D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant / Q000528:radiation effects; D059014:High-Throughput Nucleotide Sequencing; D008027:Light; D010788:Photosynthesis / Q000235:genetics; D006109:Poaceae / Q000235:genetics* / Q000528:radiation effects*; D018749:RNA, Plant; D060888:Real-Time Polymerase Chain Reaction; D059467:Transcriptome
chemical_list: D018749:RNA, Plant
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