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Experiment: Identification of genes regulated by NMD in Arabidopsis
Experiment Description
NASCArrays Experiment Reference Number: NASCARRAYS-379
The nonsense-mediated mRNA decay pathway (NMD) is a quality control mechanism that detects and degrades mRNAs that contain premature translation termination codons (PTCs), thus preventing the production of potentially harmful truncated proteins. NMD has been studied in a number of organisms including humans, yeast, Drosophila, C. elegans and recently Arabidopsis. Recently the NMD process has been shown to have a wider significance in regulating the levels of mRNA expression for a wide range of genes in yeast and Drosophila. Several genes have been found to be required for NMD in a variety of organisms, including UPF1 and UPF3. We have identified and characterised a number of alleles of UPF1 and UPF3 in Arabidopsis that are defective in NMD. By doing a transcriptomic analysis of two NMD mutants, upf1-1 and upf3-1, and wild type plants we aim to identify the subset of genes that are co-regulated by UPF1 and UPF3 and, therefore, by NMD in Arabidopsis. RNA will be extracted from 17 day-old mutant and wild type seedlings grown at 22-24 C under constant light.
About the ExperimenterName: | Dr Luis Arciga-Reyes |
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Head of Lab Name: | Dr Brendan Davies |
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Lab:
| Davies Lab |
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Institute:
| Institute of Integrative and Comparative Biology |
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Address: | Centre for Plant Sciences L.C. Miall Building Clarendon Way University of Leeds
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Postcode:
| LS2 9JT |
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Country:
| UK |
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| Telephone Number:
| 01133433123 |
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Fax Number:
| 01133433144 |
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All of the data available in this website/database is free, and you
are free to do whatever you please with it. If you intend to publish
work based on any of this data, please acknowledge us, contact the
experimenter above, and either acknowledge them or use them as
co-authors in the work.
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| About this ExperimentExperiment Type:
| genetic_modification_design; |
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Number of Slides: | 7 |
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| Experimental Parameters:
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parameter | gene_knock_out |
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Quality Control Measures Taken:
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References:
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Slides in this Experiment
Hybridisation Set: Arciga-Reyes: Identification of genes regulated by NMD in Arabidopsis_genome
Slide: Arciga-Reyes_1-1_wildtype_Rep1_ATH1 | | |
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Tissue:
| whole plant |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Arciga-Reyes_1-2_wildtype_Rep2_ATH1 | | |
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Tissue:
| whole plant |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Arciga-Reyes_1-3_wildtype_Rep3_ATH1 | | |
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Tissue:
| whole plant |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Arciga-Reyes_1-4_upf1_Rep1_ATH1 | | |
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Tissue:
| whole plant |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Arciga-Reyes_1-5_upf1_Rep2_ATH1 | | |
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Tissue:
| whole plant |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Arciga-Reyes_1-6_upf3_Rep1_ATH1 | | |
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Tissue:
| whole plant |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Arciga-Reyes_1-7_upf3_Rep2_ATH1 | | |
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Tissue:
| whole plant |
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Other Information:
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Protocols for BioSource 1 |
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