title: Identification of differentially expressed genes in cucumber (Cucumis sativus L.) root under waterlogging stress by digital gene expression profile.
abstract: High-throughput tag-sequencing (Tag-seq) analysis based on the Solexa Genome Analyzer platform was applied to analyze the gene expression profiling of cucumber plant at 5 time points over a 24h period of waterlogging treatment. Approximately 5.8 million total clean sequence tags per library were obtained with 143013 distinct clean tag sequences. Approximately 23.69%-29.61% of the distinct clean tags were mapped unambiguously to the unigene database, and 53.78%-60.66% of the distinct clean tags were mapped to the cucumber genome database. Analysis of the differentially expressed genes revealed that most of the genes were down-regulated in the waterlogging stages, and the differentially expressed genes mainly linked to carbon metabolism, photosynthesis, reactive oxygen species generation/scavenging, and hormone synthesis/signaling. Finally, quantitative real-time polymerase chain reaction using nine genes independently verified the tag-mapped results. This present study reveals the comprehensive mechanisms of waterlogging-responsive transcription in cucumber.
authors.affiliation: School of Horticulture and Plant Protection, Yangzhou University, Yangzhou, Jiangsu, China.
authors.forename: Xiao-Hua
authors.initials: XH
authors.lastname: Qi
authors.forename: Xue-Wen
authors.initials: XW
authors.lastname: Xu
authors.forename: Xiao-Jian
authors.initials: XJ
authors.lastname: Lin
authors.forename: Wen-Jie
authors.initials: WJ
authors.lastname: Zhang
authors.forename: Xue-Hao
authors.initials: XH
authors.lastname: Chen
mesh_terms: D002244:Carbon / Q000378:metabolism; D018553:Cucumis sativus / Q000235:genetics*; D018506:Gene Expression Regulation, Plant; D046228:Microarray Analysis; D010788:Photosynthesis / Q000235:genetics; D018517:Plant Roots / Q000235:genetics*; D017382:Reactive Oxygen Species / Q000378:metabolism; D013312:Stress, Physiological / Q000235:genetics*; D014867:Water / Q000009:adverse effects
chemical_list: D017382:Reactive Oxygen Species; D014867:Water; D002244:Carbon