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The Scientific World Journal
Volume 2014, Article ID 917292, 7 pages
Research Article

Genome-Wide Characterisation of Gene Expression in Rice Leaf Blades at 25°C and 30°C

1China National Rice Research Institute, No. 359, Tiyuchang Road, Hangzhou 310006, China
2iBioinfo Group, Lexington, MA 02421, USA
3School of Life Science, Gwangju Institute of Science and Technology, Gwangju 500-712, Republic of Korea
4Nantong University, Nantong 226001, China

Received 5 August 2013; Accepted 30 September 2013; Published 29 January 2014

Academic Editors: B. Shen, J. Wang, and J. Wang

Copyright © 2014 Zhi-guo E et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.


Rice growth is greatly affected by temperature. To examine how temperature influences gene expression in rice on a genome-wide basis, we utilised recently compiled next-generation sequencing datasets and characterised a number of RNA-sequence transcriptome samples in rice seedling leaf blades at 25°C and 30°C. Our analysis indicated that 50.4% of all genes in the rice genome (28,296/56,143) were expressed in rice samples grown at 25°C, whereas slightly fewer genes (50.2%; 28,189/56,143) were expressed in rice leaf blades grown at 30°C. Among the genes that were expressed, approximately 3% were highly expressed, whereas approximately 65% had low levels of expression. Further examination demonstrated that 821 genes had a twofold or higher increase in expression and that 553 genes had a twofold or greater decrease in expression at 25°C. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses suggested that the ribosome pathway and multiple metabolic pathways were upregulated at 25°C. Based on these results, we deduced that gene expression at both transcriptional and translational levels was stimulated at 25°C, perhaps in response to a suboptimal temperature condition. Finally, we observed that temperature markedly regulates several super-families of transcription factors, including bZIP, MYB, and WRKY.