The response and recovery of the Arabidopsis thalianatranscriptome to phosphate starvation

BMC Plant Biology

Research Article

Matthew A Hannah¹  Vladimir B Bajic²  Jun Liu³  Jongchan Woo³  Takatoshi Kiba³  Nam-Hai Chua³  Cameron Ross MacPherson⁴  Huan Wang⁵  Xiu-Jie Wang⁶ 

[1] Bayer Crop Science, Technologiepark 38, 9052, Ghent, Belgium;Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology (KAUST), Thuwal, Kingdom of Saudi Arabia;Laboratory of Plant and Molecular Biology, The Rockefeller University, 10065, New York, NY, USA;Laboratory of Plant and Molecular Biology, The Rockefeller University, 10065, New York, NY, USA;Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology (KAUST), Thuwal, Kingdom of Saudi Arabia;Laboratory of Plant and Molecular Biology, The Rockefeller University, 10065, New York, NY, USA;State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China;State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China;

关键词: Phosphate starvation;    Response and recovery;    Roots and shoots;    Organ specific;    Whole seedling;    Initial, Persistent, and Latent expression patterns;    Functional analysis;    Comparative analysis with AtGenExpress;    Micro-array and tiling-array;    Hydroponic culture;   

DOI  :  10.1186/1471-2229-12-62

 received in 2011-12-02, accepted in 2012-04-10,  发布年份 2012

来源: Springer

【 摘 要 】

BackgroundOver application of phosphate fertilizers in modern agriculture contaminates waterways and disrupts natural ecosystems. Nevertheless, this is a common practice among farmers, especially in developing countries as abundant fertilizers are believed to boost crop yields. The study of plant phosphate metabolism and its underlying genetic pathways is key to discovering methods of efficient fertilizer usage. The work presented here describes a genome-wide resource on the molecular dynamics underpinning the response and recovery in roots and shoots of Arabidopsis thaliana to phosphate-starvation.ResultsGenome-wide profiling by micro- and tiling-arrays (accessible from GEO: GSE34004) revealed minimal overlap between root and shoot transcriptomes suggesting two independent phosphate-starvation regulons. Novel gene expression patterns were detected for over 1000 candidates and were classified as either initial, persistent, or latent responders. Comparative analysis to AtGenExpress identified cohorts of genes co-regulated across multiple stimuli. The hormone ABA displayed a dominant role in regulating many phosphate-responsive candidates. Analysis of co-regulation enabled the determination of specific versus generic members of closely related gene families with respect to phosphate-starvation. Thus, among others, we showed that PHR1-regulated members of closely related phosphate-responsive families (PHT1;1, PHT1;7–9, SPX1-3, and PHO1;H1) display greater specificity to phosphate-starvation than their more generic counterparts.ConclusionOur results uncover much larger, staged responses to phosphate-starvation than previously described. To our knowledge, this work describes the most complete genome-wide data on plant nutrient stress to-date.

【 授权许可】

Unknown   
© Woo et al.; licensee BioMed Central Ltd. 2012. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.