Analysis of functional redundancies within the Arabidopsis TCP transcription factor family

Danisman S, van Dijk ADJ, Bimbo A, van der Wal F, Hennig L, de Folter S, Angenent GC, Immink RGH (2013)
Journal of Experimental Botany 64(18): 5673-5685.

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Analyses of the functions of TEOSINTE-LIKE1, CYCLOIDEA, and PROLIFERATING CELL FACTOR1 (TCP) transcription factors have been hampered by functional redundancy between its individual members. In general, putative functionally redundant genes are predicted based on sequence similarity and confirmed by genetic analysis. In the TCP family, however, identification is impeded by relatively low overall sequence similarity. In a search for functionally redundant TCP pairs that control Arabidopsis leaf development, this work performed an integrative bioinformatics analysis, combining protein sequence similarities, gene expression data, and results of pair-wise protein-protein interaction studies for the 24 members of the Arabidopsis TCP transcription factor family. For this, the work completed any lacking gene expression and protein-protein interaction data experimentally and then performed a comprehensive prediction of potential functional redundant TCP pairs. Subsequently, redundant functions could be confirmed for selected predicted TCP pairs by genetic and molecular analyses. It is demonstrated that the previously uncharacterized class I TCP19 gene plays a role in the control of leaf senescence in a redundant fashion with TCP20. Altogether, this work shows the power of combining classical genetic and molecular approaches with bioinformatics predictions to unravel functional redundancies in the TCP transcription factor family.
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Danisman S, van Dijk ADJ, Bimbo A, et al. Analysis of functional redundancies within the Arabidopsis TCP transcription factor family. Journal of Experimental Botany. 2013;64(18):5673-5685.
Danisman, S., van Dijk, A. D. J., Bimbo, A., van der Wal, F., Hennig, L., de Folter, S., Angenent, G. C., et al. (2013). Analysis of functional redundancies within the Arabidopsis TCP transcription factor family. Journal of Experimental Botany, 64(18), 5673-5685. doi:10.1093/jxb/ert337
Danisman, S., van Dijk, A. D. J., Bimbo, A., van der Wal, F., Hennig, L., de Folter, S., Angenent, G. C., and Immink, R. G. H. (2013). Analysis of functional redundancies within the Arabidopsis TCP transcription factor family. Journal of Experimental Botany 64, 5673-5685.
Danisman, S., et al., 2013. Analysis of functional redundancies within the Arabidopsis TCP transcription factor family. Journal of Experimental Botany, 64(18), p 5673-5685.
S. Danisman, et al., “Analysis of functional redundancies within the Arabidopsis TCP transcription factor family”, Journal of Experimental Botany, vol. 64, 2013, pp. 5673-5685.
Danisman, S., van Dijk, A.D.J., Bimbo, A., van der Wal, F., Hennig, L., de Folter, S., Angenent, G.C., Immink, R.G.H.: Analysis of functional redundancies within the Arabidopsis TCP transcription factor family. Journal of Experimental Botany. 64, 5673-5685 (2013).
Danisman, Selahattin, van Dijk, Aalt D.J., Bimbo, Andrea, van der Wal, Froukje, Hennig, Lars, de Folter, Stefan, Angenent, Gerco C., and Immink, Richard G.H. “Analysis of functional redundancies within the Arabidopsis TCP transcription factor family”. Journal of Experimental Botany 64.18 (2013): 5673-5685.
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