Open Access Research article

Genome-wide expression profiling of maize in response to individual and combined water and nitrogen stresses

Sabrina Humbert14, Sanjeena Subedi2, Jonathan Cohn3, Bin Zeng1, Yong-Mei Bi1, Xi Chen3, Tong Zhu3, Paul D McNicholas2 and Steven J Rothstein1*

Author Affiliations

1 Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario, N1G 1K4, Canada

2 Department of Mathematics and Statistics, University of Guelph, Guelph, Ontario, N1G 1K4, Canada

3 Syngenta Biotechnology Inc, 3054 Cornwallis Rd, Research Triangle Park, NC, 27709, USA

4 Current Address: Pioneer Hi-Bred, 7000 62nd Ave, Johnston, Iowa, 50131, USA

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BMC Genomics 2013, 14:3  doi:10.1186/1471-2164-14-3

Published: 16 January 2013

Additional files

Additional file 1:

Phenotype of plants treated with different combinations of water and nitrogen stresses at time of tissue sampling. One representative plant is shown in all cases. A. Side-by-side comparison of five week old plants grown under optimal and low nitrogen combined with optimal water treatment or mild or severe water stress, B. Close-up view of first fully expanded leaves, C. Five week old plants treated with all the stress combinations used in this study as indicated on pictures, D. Side-by-side comparison of five week old plants grown under optimal or low nitrogen (well-watered).

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Additional file 2:

Whisker plot of normalized intensity values of all chips. The bottom and top of the boxes respectively show the lower and upper quartiles, while the middle line represents the median of the data. The whiskers indicate respectively 1.5 inter-quartile below and above the lower and upper quartiles

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Additional file 3:

Metabolism overview under mild water stress (optimal nitrogen). Genes differentially regulated under mild water stress in leaf, root, and stem as visualized in Mapman (Thimm et al., 2004). In leaf, root and stem respectively, 5151, 2370, and 1539 entities were found to be differentially regulated under mild water stress (FC≥2, p-value≤0.05) and corresponded to 4627, 2188 and 1411 unique transcript identifiers imported in Mapman. Transcripts up- and down-regulated are represented with blue and red squares respectively. Values are log2-transformed fold changes.

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