Open Access Research article

Transcriptomic, proteomic and metabolomic analysis of UV-B signaling in maize

Paula Casati1, Mabel Campi1, Darren J Morrow2, John F Fernandes2 and Virginia Walbot2*

Author Affiliations

1 Centro de Estudios Fotosintéticos y Bioquímicos (CEFOBI), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, 2000 Rosario, Argentina

2 Department of Biology, 385 Serra Mall, Stanford University, Stanford, CA 94305-5020, USA

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BMC Genomics 2011, 12:321  doi:10.1186/1471-2164-12-321

Published: 16 June 2011

Additional files

Additional file 1:

Figure S1. Classification of UV-B-regulated genes identified by microarrays based on their putative function in fully UV-B-irradiated plants (WPI). (a and b) transcripts that are up (a) and down (b) regulated in fully UV-B-irradiated plants; (c and d) transcripts that are up (c) and down (d) regulated only in fully UV-B-irradiated plants and not when plants are only irradiated in 1, 2 or 3 leaves per plant. Classification was done for the UV-B-regulated transcripts that are changed at least 2-fold (p < 0.05).

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Additional file 2:

Supplemental Tables.

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Additional file 3:

Figure S2. (a) Venn diagrams comparing transcriptome changes in shielded leaves that were irradiated in the absence of UV-B. Up-regulated genes are in red, down-regulated genes are in green.

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Figure S3. Venn diagrams comparing transcriptome changes in leaves that were covered with a plastic sheath that absorbs UV-B. Only two adult leaves per plant were irradiated over a time course of 1, 2, 4, and 6 h. Up-regulated genes are in red, down-regulated genes are in green. (a) Intersection of genes differentially expressed in irradiated leaves; (b) Intersection of genes differentially expressed in shielded leaves; (c) Intersection of genes differentially expressed in immature ears. Each sample was compared to plants under control conditions in the absence of UV-B (NI). Transcripts showing changes higher than 2-fold (p < 0.05) were included in the classification.

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Figure S4. GO classification of transcripts into categories: those that were turned on (OnOff), or off (OffOn), or that were up- or down-regulated over the 6 h time course experiment were used. Transcripts that belonged to fifteen major cellular processes were used for the classification.

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Additional file 6:

Figure S5. Metabolic profiling of irradiated and shielded leaves from fully UV-B-irradiated leaves for 4 h (WPI), and control untreated leaves (NI) are included. All metabolites that are changed by UV-B are in red, while down-regulated transcripts by 2-fold are in green.

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Figure S6. Metabolic profiling of irradiated and 6 h in 2 leaves with control untreated plants during 1 and 6 h. As a control, samples from fully irradiated leaves for 4 h (UV-B), and control untreated leaves (NI) are included. CA/PE: comparison of metabolite levels in leaves covered with a plastic that allows UV-B transmittance (CA) vs. levels in leaves covered with a plastic sheath that absorbs UV-B (PE, see Material and methods); PE UV-B/C: comparison of metabolites from PE-covered leaves in plants exposed to UV-B to those from PE-covered leaves in non-irradiated plants; UV-B/CA: metabolite level comparison in leaves that are directly UV-B-irradiated vs. levels in leaves covered with a plastic that allows UV-B transmittance (CA). Statistical analysis was done using one way ANOVA; statistically significant differences are labeled with * (α = 0.05).

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Additional file 8:

Figure S7. Metabolic profiling of irradiated and shielded leaves with varying canopy exposure to UV-B radiation. As a control, samples from fully UV-B-irradiated leaves for 4 h (UV-B), and control untreated leaves (C) are included. Statistical analysis was done using one way ANOVA; statistically significant differences are labeled with letters a and b (α = 0.05).

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