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Identification of pathways directly regulated by SHORT VEGETATIVE PHASE during vegetative and reproductive development in Arabidopsis
- † Equal contributors
1 Department of Bioscience, Università degli Studi di Milano, Via Celoria 26, 20133 Milan, Italy
2 Max Planck Institute for Plant Breeding Research, D-50829 Cologne, Germany
3 Department of Biosciences, University of Oslo, N-0316 Oslo, Norway
4 Consiglio Nazionale delle Ricerche Istituto di Biofisica, 20133 Milan, Italy
Genome Biology 2013, 14:R56 doi:10.1186/gb-2013-14-6-r56
Published: 11 June 2013Additional files
Additional data file 1:
contains: Figure S1: Analysis of chromatin sample used for ChIP-seq experiments. Figure S2: qRT-PCR validation of differentially expressed genes between Col-0 and svp-41 plants at the vegetative phase. Figure S3: GO enrichment analysis of differentially expressed genes between Col-0 and svp-41 plants at the vegetative stage. Figure S4: Venn diagram containing the overlapping set of putative targets between SVP and FLC and SVP, AP1, and SEP3. Figure S5: Biologically active SVP-GR fusion. Figure S6: Flower organs of in wdr55-2 -/- mutants show reduced size and asymmetric positioning. Figure S7: In-situ hybridization of wild-type and wdr55-2 inflorescence using AP3 and PI probes. Figure S8: Flower morphology of wdr55-2 ag-1 mutant. Table S1: Summary of sequencing and mapping. Table S3: List of putative targets of SVP related to flowering time. Table S6: List of genes differentially expressed in svp-41 compare to Col-0 and related to auxin, cytokinin, or jasmonate homeostasis. Table S9: List of WDxR motif containing proteins found in SVP DNA binding screen. Table S10: Flower organ count from wdr55-2 -/- mutants. Table S12: Primer pairs used for ChIP-qPCR assays. Table S13: Primer pairs used for the qRT-PCR expression analysis. Methods S1: ChIP protocol. Methods S2: qRT-PCR. Methods S3: In-situ hybridization. Methods S4: Scanning electron microscopy.
Format: DOCX Size: 8.8MB Download file
Additional data file 2:
contains Table S2: High confidence targets of SVP in vegetative and reproductive tissues; list of the targets of SVP bound in both vegetative and reproductive tissues; lists of binding regions of SVP in vegetative and reproductive tissues.
Format: XLS Size: 9.4MB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional data file 3:
contains Table S4: Lists of putative SVP targets with annotated functions in: meristem development in vegetative and reproductive tissues; response to hormonal stimuli such as auxin, cytokinin, ethylene, abscisic acid, jasmonate, and gibberellins in vegetative tissue.
Format: XLS Size: 6.3MB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional data file 4:
contains Table S5: Tiling array expression data obtained using RNA extracted from: wild-type Col-0 and svp-41 plants at the vegetative stage, inflorescences of wild-type Col-0 and svp-41 agl24 ap1-12 and overlap between tiling array and ChIP-seq data.
Format: XLS Size: 1.2MB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional data file 5:
contains Table S7: Lists of differentially expressed genes in svp-41 mutant and the available expression-profiling data of seedlings treated with the CK benzyladenine (BA).
Format: XLS Size: 270KB Download file
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Additional data file 6:
contains Table S8: putative targets for both SVP and AP1 and putative targets for both SVP and SEP3.
Format: XLS Size: 471KB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional data file 7:
contains Table S8: Comparison of the SVP target list of Tao et al. [37] and the list of high confidence targets of SVP in vegetative tissue presented in this study.
Format: XLSX Size: 692KB Download file
