The plant signaling molecule auxin controls various growth and developmental processes in land plants which is mainly mediated by changes in gene expression via the nuclear auxin pathway (Weijers and Wagner, 2016), which encompasses three dedicated protein families: Transport Inhibitor Response 1/Auxin signaling F-Box (TIR1/AFB), Auxin/Indole-3-Acetic Acid (Aux/IAA) and Auxin Response Factors (ARF). I am interested in understanding the origin and evolution of these gene families using large scale genomic/transcriptomic datasets (www.phytozome.org; www.onekp.com) by constructing phylognetic trees with thousands of taxa. I am also interested in understanding the transcriptional regulation of various downstream target genes of this pathway using comparative transcriptomics (RNA-seq) across various species, and decipher its link with chromatin remodeling (Wu et al., 2015) by studying the epigenetic marks such as histone (de-)methylation and (de-)acetylation using ChIP-seq technique. All the data from these experiments will be integrated along with (eu)chromatin accessibility data obtained from ATAC-seq experiment. The overarching goal of the project is to get an insight into the various levels of gene expression regulation through nuclear auxin pathway.
Weijers D and Wagner D, Annu. Rev. Plant Biol. (2016), 67:539-74
Wu et al., eLife (2015), 4: e09269