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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Expression data of one-week-old rice seedlings exposed to Pi-deficient solution for 6, 24, 48, 72 hours

ABSTRACT: Expression profiles of one-week-old rice seedlings exposed to Pi-deficient solution for 6, 24, 48, 72 hours were monitored by microarray that contains approximately 60,000 rice clones (Affymetrix GeneChip). The probes were prepared from RNAs isolated from rice seedlings exposed to Pi-deficient solution for 6, 24, 48, 72 hours, respectively, and those non-treated controls. For hybridization, two biological replicates were used to extract RNAs from different batches of plants. Rice seedlings were exposed to low phosphate for 6h, 24h, 48h and 72 h, respectively. The Pi-inducible and Pi-repressive genes were taken as the expression ratio (treatment relative to control) greater and less than 2-fold, respectively

ORGANISM(S): Oryza sativa Japonica Group

SUBMITTER: xiaoyan dai

PROVIDER: E-GEOD-35984 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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OsMYB2P-1, an R2R3 MYB transcription factor, is involved in the regulation of phosphate-starvation responses and root architecture in rice.

Dai Xiaoyan X Wang Yuanyuan Y Yang An A Zhang Wen-Hao WH

Plant physiology 20120306 1

An R2R3 MYB transcription factor, OsMYB2P-1, was identified from microarray data by monitoring the expression profile of rice (Oryza sativa ssp. japonica) seedlings exposed to phosphate (Pi)-deficient medium. Expression of OsMYB2P-1 was induced by Pi starvation. OsMYB2P-1 was localized in the nuclei and exhibited transcriptional activation activity. Overexpression of OsMYB2P-1 in Arabidopsis (Arabidopsis thaliana) and rice enhanced tolerance to Pi starvation, while suppression of OsMYB2P-1 by RN ...[more]

PMID: 22395576

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Expression data of one-week-old rice seedlings exposed to Pi-deficient solution for 6, 24, 48, 72 hours

Project description:Expression profiles of one-week-old rice seedlings exposed to Pi-deficient solution for 6, 24, 48, 72 hours were monitored by microarray that contains approximately 60,000 rice clones (Affymetrix GeneChip). The probes were prepared from RNAs isolated from rice seedlings exposed to Pi-deficient solution for 6, 24, 48, 72 hours, respectively, and those non-treated controls. For hybridization, two biological replicates were used to extract RNAs from different batches of plants.

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Low P stress transcriptome of control rice variety (Dongjin-byeo) and NtPT1-trasngenic rice (PT 1-7-8)

Project description:To understand expression of candidate gene located on QTLs for phosphate sensitivity traits under low P using NtPT1-transgenic rice with increased Pi uptake efficiency and gene expression profile at the V3-stage seedling through the 60K Rice Whole Genome Microarray Uniformly germinated seedlings were transferred to a hydroponic system filled with aerated standard solution (normal P, 320 M Pi) and grown for 2 weeks in a glasshouse at 25°C/18°C (day/night) under a natural photoperiod (about 16 h). The composition and concentration of each element in the standard solution were as follows: N (1.43 mM), P (0.32 mM), K (0.51 mM), Ca (0.75 mM), Mg (1.64 mM), Fe (59.37 μM), B (18.92 μM), Mn (9.50 μM), Mo (0.10 μM), Zn (0.15 μM), Cu (0.16 μM), and citric acid (70.72 μM) (Yoshida et al., 1976). Some of the two-week-old seedlings were transferred to the low P solution (the same nutrient solution containing 32 M Pi) over a period of 5 days to expose them to P-deficiency condition. Control plants were maintained in the standard solution for the entire period.

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Project description:To better understand the complex mechanisms regulating Pi homeostasis in rice (Oryza sativa L. cv. Nipponbare), a time course experiment was performed, where pre-germinated seedlings were grown hydroponically for two weeks on Pi-sufficient medium (0.32 mM Pi), before transferring half of the plants to Pi-deficient solution (0 mM Pi) for 21 days (d). After three weeks of Pi-starvation treatment, half of these plants where then re-supplied with Pi sufficient media for up to 24 hours (h). In total, nine time points were selected in order to cover short and long term responses to Pi starvation as well as the effects of Pi re-supply on Pi starved plants.

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An improved, low-cost, hydroponic system for growing Arabidopsis and other model plant species under sterility conditions (Arabidopsis transcriptional profile in early response to Pi starvation)

Project description:Transcriptional profiling of roots from 12 days-old Arabidopsis thaliana seedlings transfered to Pi-deficient medium in hydroponic solution in a 10 min, 30 min, and 2 hrs time course period.

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Expression analysis of abiotic stress-treated rice

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Microarray analysis of rice plants exposed to jasmonic acid (JA)

Project description:In this study, integrated transcriptomics and proteomics approaches were applied to investigate the molecular responses of JA in the shoots of 7-days old rice (cv. Nipponbare) seedlings exposed to 5 micromolar JA for a period of 7 days. Based on the morphological alteration of JA-exposed rice seedlings, transcript profiling of rice genes was performed in seedlings using rice DNA microarray chip, and proteomics by 2-DGE. This systematic survey showed that JA triggers a chain reaction of altered gene and protein expressions involved in multiple cellular processes in rice growth and development and defense. Keywords: JA exposure response

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

Project description: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.

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