Transcriptomics

Dataset Information

8

Transcription profiling by array of Nipponbare rice roots over a time course of potassium deprivation


ABSTRACT: Potassium (K+) is one of the most important nutrient ions in plant cells and play crucial roles in many plant physiological and developmental processes. K+ deficiency is the common abiotic stress in natural environment, which inhibits plant growth and reduces production of crops. We used microarrays to analyse the transcriptomic changes in rice roots after suffering K+ starvation at different times. The results of GO analysis showed that these transcriptionally changed genes mainly fell into the categories of metabolic process, membrane, cation binding, kinase activity, transport and so on. The two-week-old hydroponic rice seedlings were transferred to K+-free solution (-K) and K+-replete solution (+K, 1 mM K+) as treatment (LK) and control (CK) conditions respectively. The fresh roots of both control and treated rice seedlings were collected after K+-deficient treatment at indicated times (6 h, 3 d and 5 d). The roots were frozen immediately using liquid nitrogen and stored at -80℃ for further RNA extraction. Every RNA sample was derived from 5 independent seedlings. In sum, three time points were selected and three biological replicates were performed at each time point, totally 18 rice genome arrays were used.

REANALYSED by: E-GEOD-37161

ORGANISM(S): Oryza sativa Japonica Group  

SUBMITTER: Yi Wang   Tian-Li Ma  Wei-Hua Wu 

PROVIDER: E-GEOD-37161 | ArrayExpress | 2012-10-31

SECONDARY ACCESSION(S): GSE37161PRJNA158587

REPOSITORIES: GEO, ArrayExpress

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Publications

Transcriptome analysis of rice root responses to potassium deficiency.

Ma Tian-Li TL   Wu Wei-Hua WH   Wang Yi Y  

BMC plant biology 20120910


BACKGROUND: Potassium (K+) is an important nutrient ion in plant cells and plays crucial roles in many plant physiological and developmental processes. In the natural environment, K+ deficiency is a common abiotic stress that inhibits plant growth and reduces crop productivity. Several microarray studies have been conducted on genome-wide gene expression profiles of rice during its responses to various stresses. However, little is known about the transcriptional changes in rice genes under low-K  ...[more]

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