1. Comprehensive Transcriptome Analysis of Auxin Responses in Arabidopsis
Paponov Ivan A. , Paponov Martina , Teale William , Menges Margit , Chakrabortee Sohini , Murray James A.H. , Palme Klaus  
Molecular Plant 
Volume 1, Issue 2, Pages (March 2008)
DOI: /mp/ssm021
Copyright © 2008 The Authors. All rights reserved. Terms and Conditions

2. Figure 1 Auxin-Related Microarray (Affymetrix ATH1) Experiments.
(A) Treatments covering different time exposures (short: 0.5 h, middle: 1–2 h and long: 3 h and longer) and IAA concentration (very low: 0.1 μM, low: 1 μM, middle: 5 μM, high: 10 μM) for whole seedlings.
(B) Additionally, we estimate tissue specificity of auxin response (roots, flowers and cell suspension culture) and the effect of auxin transport inhibitors on gene expression.
Molecular Plant 2008 1, DOI: ( /mp/ssm021)
Copyright © 2008 The Authors. All rights reserved. Terms and Conditions

3. Figure 2
Meta-Signature of Auxin Response for ARF, Aux/IAA and LBD Families.
Gene expression up- or down-regulated (with at least a two-fold difference) by auxin or auxin transport inhibitors are presented in red and green, respectively. Only genes which are regulated under at least one set of conditions are presented.
Molecular Plant 2008 1, DOI: ( /mp/ssm021)
Copyright © 2008 The Authors. All rights reserved. Terms and Conditions

4. Figure 3
Neighbor-Joining Phylogenetic Tree Showing the Predicted Relationship between Members of the SAUR Family.
The alignment on which the tree is based was prepared using ClustalX The phylograms were drawn using Tree-View ( Auxin-up-regulated genes under one or more conditions are marked in yellow and red, respectively. Down-regulated genes are marked in blue. If an auxin response was observed only in the roots, the gene was marked with a capital ‘R’.
Molecular Plant 2008 1, DOI: ( /mp/ssm021)
Copyright © 2008 The Authors. All rights reserved. Terms and Conditions

5. Figure 4
Meta-Signature of Auxin Response for SAUR, GH3 PIN LAX Gene Families, and Genes Participating in Auxin Biosynthesis.
Molecular Plant 2008 1, DOI: ( /mp/ssm021)
Copyright © 2008 The Authors. All rights reserved. Terms and Conditions

6. Figure 5
Meta-Signature of Auxin Response for Cytokinin, Brassinosteroid, Gibberellin, Ethylene, ABA, Salicylic Acid, and Jasmonate-Related Genes. Genes were classified according to the MapMan ontology and marked respectively: blue-synthesis, degradation; black-signal transduction; red-induced.
Molecular Plant 2008 1, DOI: ( /mp/ssm021)
Copyright © 2008 The Authors. All rights reserved. Terms and Conditions

7. Figure 6
Auxin-Specific Markers in Whole Seedlings that Are Up-Regulated in at Least Four Selected Auxin Treatments.
Molecular Plant 2008 1, DOI: ( /mp/ssm021)
Copyright © 2008 The Authors. All rights reserved. Terms and Conditions