Supplementary Materials

Supplementary Materials for:

Combinatorial interaction network of transcriptomic and phenotypic responses to nitrogen and hormones in the Arabidopsis thaliana root

Daniela Ristova, Clément Carré, Marjorie Pervent, Anna Medici, Grace Jaeyoon Kim, Domenica Scalia, Sandrine Ruffel, Kenneth D. Birnbaum, Benoît Lacombe, Wolfgang Busch, Gloria M. Coruzzi, Gabriel Krouk*

*Corresponding author. Email: gkrouk{at}gmail.com

This PDF file includes:

  • Fig. S1. Hormones and nitrogen interact to shape root system architecture (absolute quantification).
  • Fig. S2. Revealing genome-wide features of nitrogen-hormone interactions, the top 100 models.
  • Fig. S3. Study of the NO3*CK-only responsive genes.
  • Fig. S4. qRT-PCR validation of sentinel genes.
  • Fig. S5. Sungear figures (generalized Venn diagram) measuring the convergence of nutritional and hormonal signaling pathways.
  • Fig. S6. Identification of marker genes of simple signals.
  • Fig. S7. Multivariate model with signal-to-trait connections.
  • Fig. S8. Clustering analysis of genes correlated with root traits.
  • Fig. S9. Clustering of all the genes controlled by NO3 .
  • Fig. S10. Clustering of all the genes controlled by NH4 +.
  • Fig. S11. Clustering of all the genes controlled by IAA.
  • Fig. S12. Clustering of all the genes controlled by CK.
  • Fig. S13. Clustering of all the genes controlled by ABA.
  • Fig. S14. Characterization of mutants at the transcriptional level.
  • Fig. S15. Mutation in a K+ channel affects root development and ABA responsiveness on nitrate-containing media.
  • Fig. S16. Venn diagram illustrating the influence of signal combinations on the whole root transcriptome.
  • Table S1. Matrix of treatments applied in this study.
  • Legends for tables S2 and S3
  • Table S4. Best marker genes for the simple signals.

[Download PDF]

Technical Details

Format: Adobe Acrobat PDF

Size: 3.80 MB

Other Supplementary Material for this manuscript includes the following:

  • Table S2 (Microsoft Excel format). Genome-wide ANOVA results.
  • Table S3 (Microsoft Excel format). GeneCloud analysis of the 10 dominant modes of regulation and gene clusters.
  • Data File S1. Nitrogen+Hormones.cys Cytoscape file for Fig. 3B.

Citation: D. Ristova, C. Carré, M. Pervent, A. Medici, G. J. Kim, D. Scalia, S. Ruffel, K. D. Birnbaum, B. Lacombe, W. Busch, G. M. Coruzzi, G. Krouk, Combinatorial interaction network of transcriptomic and phenotypic responses to nitrogen and hormones in the Arabidopsis thaliana root. Sci. Signal. 9, rs13 (2016).

© 2016 American Association for the Advancement of Science