Int. J. Mol. Sci. 2013, 14(2), 2637-2651; doi:10.3390/ijms14022637
Article

The Transcriptome of Brassica napus L. Roots under Waterlogging at the Seedling Stage

Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, China
* Author to whom correspondence should be addressed.
Received: 27 November 2012; in revised form: 11 January 2013 / Accepted: 14 January 2013 / Published: 28 January 2013
(This article belongs to the Special Issue Abiotic and Biotic Stress Tolerance Mechanisms in Plants)
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Abstract: Although rapeseed (Brassica napus L.) is known to be affected by waterlogging, the genetic basis of waterlogging tolerance by rapeseed is largely unknown. In this study, the transcriptome under 0 h and 12 h of waterlogging was assayed in the roots of ZS9, a tolerant variety, using digital gene expression (DGE). A total of 4432 differentially expressed genes were identified, indicating that the response to waterlogging in rapeseed is complicated. The assignments of the annotated genes based on GO (Gene Ontology) revealed there were more genes induced under waterlogging in “oxidation reduction”, “secondary metabolism”, “transcription regulation”, and “translation regulation”; suggesting these four pathways are enhanced under waterlogging. Analysis of the 200 most highly expressed genes illustrated that 144 under normal conditions were down-regulated by waterlogging, while up to 191 under waterlogging were those induced in response to stress. The expression of genes involved under waterlogging is mediated by multiple levels of transcriptional, post-transcriptional, translational and post-translational regulation, including phosphorylation and protein degradation; in particular, protein degradation might be involved in the negative regulation in response to this stress. Our results provide new insight into the response to waterlogging and will help to identify important candidate genes.
Keywords: rapeseed (Brassica napus L.); waterlogging; DGE (digital gene expression); roots; transcriptome

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MDPI and ACS Style

Zou, X.; Tan, X.; Hu, C.; Zeng, L.; Lu, G.; Fu, G.; Cheng, Y.; Zhang, X. The Transcriptome of Brassica napus L. Roots under Waterlogging at the Seedling Stage. Int. J. Mol. Sci. 2013, 14, 2637-2651.

AMA Style

Zou X, Tan X, Hu C, Zeng L, Lu G, Fu G, Cheng Y, Zhang X. The Transcriptome of Brassica napus L. Roots under Waterlogging at the Seedling Stage. International Journal of Molecular Sciences. 2013; 14(2):2637-2651.

Chicago/Turabian Style

Zou, Xiling; Tan, Xiaoyu; Hu, Chengwei; Zeng, Liu; Lu, Guangyuan; Fu, Guiping; Cheng, Yong; Zhang, Xuekun. 2013. "The Transcriptome of Brassica napus L. Roots under Waterlogging at the Seedling Stage." Int. J. Mol. Sci. 14, no. 2: 2637-2651.

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