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Regulatory hotspots are associated with plant gene expression under varying soil phosphorus supply in brassica rapa
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Hammond, John P., Mayes, S., Bowen, Helen C., Graham, Neil S., Hayden, Rory M., Love, C. G., Spracklen, William P., Wang, Jun, Welham, S. J., White, Philip J., King, Graham J. and Broadley, Martin R. (2011) Regulatory hotspots are associated with plant gene expression under varying soil phosphorus supply in brassica rapa. Plant Physiology, Vol.156 (No.3). pp. 1230-1241. doi:10.1104/pp.111.175612
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Official URL: http://dx.doi.org/10.1104/pp.111.175612
Abstract
Gene expression is a quantitative trait that can be mapped genetically in structured populations to identify expression quantitative trait loci (eQTL). Genes and regulatory networks underlying complex traits can subsequently be inferred. Using a recently released genome sequence, we have defined cis- and trans-eQTL and their environmental response to low phosphorus (P) availability within a complex plant genome and found hotspots of trans-eQTL within the genome. Interval mapping, using P supply as a covariate, revealed 18,876 eQTL. trans-eQTL hotspots occurred on chromosomes A06 and A01 within Brassica rapa; these were enriched with P metabolism-related Gene Ontology terms (A06) as well as chloroplast- and photosynthesis-related terms (A01). We have also attributed heritability components to measures of gene expression across environments, allowing the identification of novel gene expression markers and gene expression changes associated with low P availability. Informative gene expression markers were used to map eQTL and P use efficiency-related QTL. Genes responsive to P supply had large environmental and heritable variance components. Regulatory loci and genes associated with P use efficiency identified through eQTL analysis are potential targets for further characterization and may have potential for crop improvement.
| Item Type: | Journal Article | ||||
|---|---|---|---|---|---|
| Subjects: | Q Science > QK Botany S Agriculture > S Agriculture (General) S Agriculture > SB Plant culture |
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| Divisions: | Faculty of Science > Life Sciences (2010- ) | ||||
| Library of Congress Subject Headings (LCSH): | Soils -- Phosphorus content, Plant gene expression , Turnips | ||||
| Journal or Publication Title: | Plant Physiology | ||||
| Publisher: | American Society of Plant Biologists | ||||
| ISSN: | 0032-0889 | ||||
| Official Date: | 2011 | ||||
| Dates: |
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| Volume: | Vol.156 | ||||
| Number: | No.3 | ||||
| Page Range: | pp. 1230-1241 | ||||
| DOI: | 10.1104/pp.111.175612 | ||||
| Status: | Peer Reviewed | ||||
| Publication Status: | Published |
Data sourced from Thomson Reuters' Web of Knowledge
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