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GENETIC NETWORKS of PLANT DEVELOPMENT and NUTRIENT-TREATED ROOT HAIRS

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dc.contributor.advisor Raizada, Manish N.
dc.contributor.author Liseron-Monfils, Christophe Victor
dc.date.accessioned 2012-02-06T16:01:14Z
dc.date.available 2013-01-27T06:00:18Z
dc.date.copyright 2012-01
dc.date.created 2012-01-27
dc.date.issued 2012-02-06
dc.identifier.uri http://hdl.handle.net/10214/3312
dc.description.abstract Nitrogen and water limit global crop production. Root hairs comprise the major surface area of plant roots for nitrogen and water absorption. Despite this, no studies have reported how added nutrients or water alter global gene expression in root hairs in any plant species. I demonstrate that within 3 h of added nitrate, >876 genes in maize root hairs switch up or down. These genes overlapped with relevant maize QTLs. I also demonstrate that within 3 h of adding water to drought-stressed roots, 1831 genes show altered expression in root hairs. These results demonstrate that root hairs are rapid sensors of the soil environment. Following root uptake of nitrate, it is assimilated into amino acids for transport to the shoot; a process that involves families of genes. Understanding where and when these genes switch on/off may facilitate improved use of nitrogen. Here, the expression of 65 nitrogen uptake and assimilation probes was analyzed in 50 maize tissues, from germination to seed development. The results demonstrate that subsets of nitrogen-related genes are selectively expressed in specific organs at specific stages of development. This result identifies a higher network level of control over nitrogen-related gene expression in maize. An important clue to identify the master regulators responsible for such coordinated changes in gene expression can come from identifying their promoter targets. No software program has been adapted to serve this purpose in maize. I have created an online software tool for the maize community, called Promzea that is able to retrieve DNA motifs over-represented in the promoters of co-expressed genes, will be described. Using Promzea, over-represented motifs were identified associated with co-expressed genes in root hairs, diverse maize organs and different developmental phases. These results should aid in the design of synthetic promoters for targeted maize gene expression. As such genetic transformation will involve improving in vitro regeneration in maize, in my last study, I describe the transcriptome effects of two QTLs that improve in vitro plant regeneration, using a model system. en_US
dc.description.sponsorship NSERC-CRD ORF en_US
dc.language.iso en en_US
dc.rights.uri http://creativecommons.org/licenses/by/2.5/ca/ *
dc.subject transcriptomic en_US
dc.subject gene expression en_US
dc.subject maize en_US
dc.subject corn en_US
dc.subject seedling en_US
dc.subject genomics en_US
dc.subject promoter en_US
dc.subject motif promoter en_US
dc.subject genetic network en_US
dc.subject nitrogen en_US
dc.subject development en_US
dc.subject arabidopsis en_US
dc.subject drought en_US
dc.subject shoot regeneration en_US
dc.subject root hair en_US
dc.subject nitrate en_US
dc.title GENETIC NETWORKS of PLANT DEVELOPMENT and NUTRIENT-TREATED ROOT HAIRS en_US
dc.type Thesis en_US
dc.degree.programme Plant Agriculture en_US
dc.degree.name Doctor of Philosophy en_US
dc.degree.department Department of Plant Agriculture en_US
dc.rights.license All items in the Atrium are protected by copyright with all rights reserved unless otherwise indicated.


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Appendix_Figure_1.pdf 1.030Mb PDF View/Open Appendix figure 1
Appendix_Figure_2.pdf 52.99Kb PDF View/Open Appendix figure 2
Appendix_Table_1_and_2.pdf 3.125Mb PDF View/Open Appendix table 1-2
Appendix_Table_3.csv 287.8Kb Unknown View/Open
Appendix_Table_4-Cluster1.csv 75.48Kb Unknown View/Open
Appendix_Table_4-Cluster2.csv 56.01Kb Unknown View/Open
Appendix_Table_4-Cluster3.csv 44.71Kb Unknown View/Open
Appendix_Table_4-Cluster4.csv 32.62Kb Unknown View/Open
Appendix_Table_4-Cluster5.csv 23.83Kb Unknown View/Open
Appendix_Table_4-Cluster6.csv 25.29Kb Unknown View/Open
Appendix_Table_5-part_1.csv 72.68Kb Unknown View/Open
Appendix_Table_5-part_2.csv 793bytes Unknown View/Open
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Appendix_Table_8.csv 3.345Mb Unknown View/Open
Appendix_Table_9.csv 375.8Kb Unknown View/Open
Appendix_Table_10.csv 29.40Kb Unknown View/Open
GENETIC_NETWORK ... T-TREATED_ROOT_HAIRS-1.pdf 9.733Mb PDF View/Open

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