Master of Science
Austin, Ryan S.
Hill, Kathleen A.
Understanding cell-type specific transcriptional responses to environmental conditions is limited by a lack of knowledge of transcriptional control due to epigenetic dynamics. Additionally, cell-type analyses are limited by difficulties in applying current technologies to single cell-types. A novel DNase-seq protocol and analysis procedure, deemed DNase-DTS, was developed to identify DHSs in the Arabidopsis epidermis and endodermis under control and cold acclimation conditions. Results identified thousands of DHSs within each cell-type and experimental condition. DHSs showed strong association to gene expression, DNA methylation, and histone modifications. A priori mapping of existing DNA binding motifs within accessible genes and the cold C-repeat/dehydration responsive element-binding factor pathway resulted in unique motif mapping patterns. In summary, a collection of endodermal and epidermal cold acclimation induced chromatin accessibility sites may be used to understand mechanisms of gene expression and to best design synthetic promoters.
Hoogstra, Shawn, "Chromatin accessibility dynamics in the Arabidopsis root epidermis and endodermis during cold acclimation" (2017). Electronic Thesis and Dissertation Repository. 5128.