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Next Generation Sequencing of Sorted pWER::GFP Marker Line Enables Quantitative Analysis of Arabidopsis Epidermal Root Transcriptomes in Iron Deficient Conditions

ABSTRACT: Purpose: Identify novel genes and relationships of a temporal transcriptional landscape in Arabidopsis epidermal root cells under iron deficiency stress Results: We identified 1,709 novel iron responsive genes which would have been missed had we identified DEGs with respect to the 0hr time point using the whole root or epidermis data. Conclusion: Gene set comparisons allowed us to identify organ-level response versus cell-specific and to parse out developmental from iron deficiency-induced response. We identified several new iron deficiency-induced and repressed TFs and implemented a novel sampling method to generate an epidermis specific GRN that incorporates gene-level expression while maintaining computational efficiency. Using cis-elements in the promoters of DEGs, we were also able to find plausible regulators that would not have been found by exclusively looking at differentially expressed genes. The new transcriptional data provides clarity to our current understanding of root responses to -Fe triggered by the first layer of “defense,” the root epidermis.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE228011 | GEO | 2023/10/31

REPOSITORIES: GEO

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