Tuyển tập các báo cáo nghiên cứu về y học được đăng trên tạp chí y học Wertheim cung cấp cho các bạn kiến thức về ngành y đề tài: Predictive network modeling of the highresolution dynamic plant transcriptome in response to nitrate. | Krouk et al. Genome Biology 2010 11 R123 http content 11 12 R123 Genome Biology RESEARCH Open Access Predictive network modeling of the high-resolution dynamic plant transcriptome in response to nitrate 3 I z- 3 3 1 Gabriel Krouk 1 Piotr Mirowski Yann LeCun Dennis E Shasha Gloria M Coruzzi Abstract Background Nitrate acting as both a nitrogen source and a signaling molecule controls many aspects of plant development. However gene networks involved in plant adaptation to fluctuating nitrate environments have not yet been identified. Results Here we use time-series transcriptome data to decipher gene relationships and consequently to build core regulatory networks involved in Arabidopsis root adaptation to nitrate provision. The experimental approach has been to monitor genome-wide responses to nitrate at 3 6 9 12 15 and 20 minutes using Affymetrix ATH1 gene chips. This high-resolution time course analysis demonstrated that the previously known primary nitrate response is actually preceded by a very fast gene expression modulation involving genes and functions needed to prepare plants to use or reduce nitrate. A state-space model inferred from this microarray time-series data successfully predicts gene behavior in unlearnt conditions. Conclusions The experiments and methods allow us to propose a temporal working model for nitrate-driven gene networks. This network model is tested both in silico and experimentally. For example the over-expression of a predicted gene hub encoding a transcription factor induced early in the cascade indeed leads to the modification of the kinetic nitrate response of sentinel genes such as NIR NIA2 and and several other transcription factors. The potential nitrate hormone connections implicated by this time-series data are also evaluated. Background Higher plants which constitute a main entry of nitrogen in to the food chain acquire nitrogen mainly as nitrate NO3- . Soil concentrations of this mineral ion can
