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CELL TYPE-SPECIFIC ALTERNATIVE POLYADENYLATION IN ARABIDOPSIS DURING DEVELOPMENT AND STRESS RESPONSE

Cao, Jingyi
http://rave.ohiolink.edu/etdc/view?acc_num=miami1492702815819455

Abstract Details

2017, Doctor of Philosophy, Miami University, Cell, Molecular and Structural Biology (CMSB).
This dissertation was initiated to investigate the potential function of alternative polyadenylation (poly(A)) in root development and stress response in an enhanced resolution of single cell types. Chapter 1 is an overview of the entire dissertation. In this Chapter, I provide the background information of current understanding of plant stress response, alternative polyadenylation, recent advances in transcriptome profiling from single cell types, and methodologies in next generation library construction. Chapter 2 presents a methodology in poly(A) tag sequencing (PAT-seq) library construction using T7 in vitro transcription with low RNA input. This pipeline was established typically for precious samples achieved from fluorescence-activated cell sorting. Typically, 10 ng of total RNA was reverse transcribed to double stranded cDNA with an anchored oligo dT(18) primer containing a maximal T7 promoter sequence. Then, RNA was amplified via an isothermal enzymatic incubation with T7 RNA polymerase. Chapter 3 presents the first map of poly(A) sites from four major Arabidopsis root cell types. To obtain this, we optimized a PAT-seq library protocol using SMART technology in order to fit the need of low amount of RNA input. We discovered a group of cell type-specific poly(A) site usage, which partially contributed to altered gene expression. We found distinct groups of genes regulated through differential poly(A) site usage and poly(A) site switching. Chapter 4 presents a poly(A)site usage profile from Arabidopsis root hairs and non-hair epidermal cells under cadmium stress. We detected a unique pattern of root hair-specific gene expression. We found that the genes with differential poly(A) site usage were enriched in pentose and glucuronate interconversion pathways as well as phenylpropanoid biosynthesis pathways. We identified numerous genes with poly(A) site switching that function in cell wall modification, root epidermal differentiation and root hair tip growth. Chapter 5 concludes the findings in these studies and gives some future perspectives in alternative polyadenylation in plant development and stress response.
Carole Dabney-Smith (Advisor)
Quinn Li (Advisor)
Chun Liang (Committee Member)
Paul James (Committee Member)
Christopher Makaroff (Committee Member)
110 p.
Biology; Molecular Biology; Plant Biology

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Citations

  • Cao, J. (2017). CELL TYPE-SPECIFIC ALTERNATIVE POLYADENYLATION IN ARABIDOPSIS DURING DEVELOPMENT AND STRESS RESPONSE [Doctoral dissertation, Miami University]. OhioLINK Electronic Theses and Dissertations Center. http://rave.ohiolink.edu/etdc/view?acc_num=miami1492702815819455

    APA Style (7th edition)

  • Cao, Jingyi. CELL TYPE-SPECIFIC ALTERNATIVE POLYADENYLATION IN ARABIDOPSIS DURING DEVELOPMENT AND STRESS RESPONSE. 2017. Miami University, Doctoral dissertation. OhioLINK Electronic Theses and Dissertations Center, http://rave.ohiolink.edu/etdc/view?acc_num=miami1492702815819455.

    MLA Style (8th edition)

  • Cao, Jingyi. "CELL TYPE-SPECIFIC ALTERNATIVE POLYADENYLATION IN ARABIDOPSIS DURING DEVELOPMENT AND STRESS RESPONSE." Doctoral dissertation, Miami University, 2017. http://rave.ohiolink.edu/etdc/view?acc_num=miami1492702815819455

    Chicago Manual of Style (17th edition)

miami1492702815819455
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© 2017, some rights reserved.Creative Commons License CELL TYPE-SPECIFIC ALTERNATIVE POLYADENYLATION IN ARABIDOPSIS DURING DEVELOPMENT AND STRESS RESPONSE by Jingyi Cao is licensed under a Creative Commons Attribution-NonCommercial-NoDerivs 3.0 Unported License. Based on a work at etd.ohiolink.edu.
This open access ETD is published by Miami University and OhioLINK.