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Identification of differentially expressed genes in cucumber (Cucumis sativus L.) root under waterlogging stress by digital gene expression profile
- Source :
-
Genomics . Mar2012, Vol. 99 Issue 3, p160-168. 9p. - Publication Year :
- 2012
-
Abstract
- 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 5.8million 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. [Copyright &y& Elsevier]
Details
- Language :
- English
- ISSN :
- 08887543
- Volume :
- 99
- Issue :
- 3
- Database :
- Academic Search Index
- Journal :
- Genomics
- Publication Type :
- Academic Journal
- Accession number :
- 73177141
- Full Text :
- https://doi.org/10.1016/j.ygeno.2011.12.008