Gene expression changes in phosphorus deficient potato (Solanum tuberosum L.) leaves and the potential for diagnostic gene expression markers
Hammond, John P., Broadley, Martin R., Bowen, Helen C., Spracklen, William P., Hayden, Rory M. and White, Philip J.. (2011) Gene expression changes in phosphorus deficient potato (Solanum tuberosum L.) leaves and the potential for diagnostic gene expression markers. PLoS ONE, Vol.6 (No.9). e24606. ISSN 1932-6203
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Official URL: http://dx.doi.org/10.1371/journal.pone.0024606
Background: There are compelling economic and environmental reasons to reduce our reliance on inorganic phosphate (Pi)
fertilisers. Better management of Pi fertiliser applications is one option to improve the efficiency of Pi fertiliser use, whilst
maintaining crop yields. Application rates of Pi fertilisers are traditionally determined from analyses of soil or plant tissues.
Alternatively, diagnostic genes with altered expression under Pi limiting conditions that suggest a physiological
requirement for Pi fertilisation, could be used to manage Pifertiliser applications, and might be more precise than indirect
measurements of soil or tissue samples.
Results: We grew potato (Solanum tuberosum L.) plants hydroponically, under glasshouse conditions, to control their
nutrient status accurately. Samples of total leaf RNA taken periodically after Pi was removed from the nutrient solution were
labelled and hybridised to potato oligonucleotide arrays. A total of 1,659 genes were significantly differentially expressed
following Pi withdrawal. These included genes that encode proteins involved in lipid, protein, and carbohydrate
metabolism, characteristic of Pi deficient leaves and included potential novel roles for genes encoding patatin like proteins
in potatoes. The array data were analysed using a support vector machine algorithm to identify groups of genes that could
predict the Pi status of the crop. These groups of diagnostic genes were tested using field grown potatoes that had either
been fertilised or unfertilised. A group of 200 genes could correctly predict the Pi status of field grown potatoes.
Conclusions: This paper provides a proof-of-concept demonstration for using microarrays and class prediction tools to
predict the Pi status of a field grown potato crop. There is potential to develop this technology for other biotic and abiotic
stresses in field grown crops. Ultimately, a better understanding of crop stresses may improve our management of the crop,
improving the sustainability of agriculture.
|Item Type:||Journal Article|
|Subjects:||S Agriculture > SB Plant culture|
|Divisions:||Faculty of Science > Life Sciences (2010- )
Faculty of Science > Life Sciences (2010- ) > Warwick HRI (2004-2010)
|Library of Congress Subject Headings (LCSH):||Phosphatic fertilizers, Potatoes -- Physiology, Potatoes -- Genetics, Plants -- Effect of phosphorus on|
|Journal or Publication Title:||PLoS ONE|
|Publisher:||Public Library of Science|
|Official Date:||14 September 2011|
|Access rights to Published version:||Open Access|
|Funder:||Great Britain. Dept. for Environment, Food & Rural Affairs (DEFRA), Scotland. Rural and Environment Research and Analysis Directorate (RERAD)|
|Grant number:||HH3504SPO (DEFRA)|
1. Holford ICR (1997) Soil phosphorus: its measurement, and its uptake by plants.
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