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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of rice plants under the Sds (severe drought in soil) condition in shoots

ABSTRACT: In this series of experiments, we wanted to study the transcriptional responses of plants to different levels of water limitation. For mild drought stress, we controlled water potential (a scientific concept for dryness of soil) by using an automated watering system. This system adds water to soil based on the pF values reported by a pF sensor in soil. pF is a classical and widely used index of water potential that was first defined by Schofield (1935). For severe stress conditions, we withheld watering or even dried plants on a lab bench. Here, the transcriptional profiles were compared between well-watered and Sds-treated rice seedling shoots.
Sds (Severe dehydration stress in soil containers): We designated Sds as a term that means a severe drought stress causing dehydration of plants in our experiments (The plants were dehydrated at the sampling point). The drought stress was achieved by withholding water from plants grown in soil containers.

ORGANISM(S): Oryza sativa

SUBMITTER: Junya Mizoi

PROVIDER: E-MTAB-4138 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Transcription profiling of rice plants under the Sds (severe drought in soil) condition in shoot basal region

Project description:In this series of experiments, we wanted to study the transcriptional responses of plants to different levels of water limitation. For mild drought stress, we controlled water potential (a scientific concept for dryness of soil) by using an automated watering system. This system adds water to soil based on the pF values reported by a pF sensor in soil. pF is a classical and widely used index of water potential that was first defined by Schofield (1935). For severe stress conditions, we withheld watering or even dried plants on a lab bench. Here, the transcriptional profiles were compared between well-watered and Sds-treated rice seedling shoot basal region. Sds (Severe dehydration stress in soil containers): We designated Sds as a term that means a severe drought stress causing dehydration of plants in our experiments (The plants were dehydrated at the sampling point). The drought stress was achieved by withholding water from plants grown in soil containers.

2016-12-26 | E-MTAB-4141 | biostudies-arrayexpress

Transcription profiling of rice plants under the Md2 (pF2.5) condition in shoot basal region

Project description:In this series of experiments, we wanted to study the transcriptional responses of plants to different levels of water limitation. For mild drought stress, we controlled water potential (a scientific concept for dryness of soil) by using an automated watering system. This system adds water to soil based on the pF values reported by a pF sensor in soil. pF is a classical and widely used index of water potential that was first defined by Schofield (1935). For severe stress conditions, we withheld watering or even dried plants on a lab bench. Here, the transcriptional profiles were compared between well-watered and Md2-treated rice seedling shoot basal region. Md2 (Mild drought level 2): We designated Md2 as a term that means the level of drought severity corresponding to pF2.5, which is equal to a soil matric potential of -31.0 kPa. pF2.5: The value of pF shows the soil matric potential of -31.0 kPa. pF is an index that is equivalent to the effort required for plant root systems to extract water stored in soil.

2016-12-26 | E-MTAB-4139 | biostudies-arrayexpress

Transcription profiling of rice plants under the Md2 (pF2.5) condition in shoots

Project description:In this series of experiments, we wanted to study the transcriptional responses of plants to different levels of water limitation. For mild drought stress, we controlled water potential (a scientific concept for dryness of soil) by using an automated watering system. This system adds water to soil based on the pF values reported by a pF sensor in soil. pF is a classical and widely used index of water potential that was first defined by Schofield (1935). For severe stress conditions, we withheld watering or even dried plants on a lab bench. Here, the transcriptional profiles were compared between well-watered and Md2-treated rice seedling shoots. Md2 (Mild drought level 2): We designated Md2 as a term that means the level of drought severity corresponding to pF2.5, which is equal to a soil matric potential of -31.0 kPa. pF2.5: The value of pF shows the soil matric potential of -31.0 kPa. pF is an index that is equivalent to the effort required for plant root systems to extract water stored in soil.

2016-12-26 | E-MTAB-4135 | biostudies-arrayexpress

Transcription profiling of rice plants under the Md3 (pF3.5) condition in shoot basal region

Project description:In this series of experiments, we wanted to study the transcriptional responses of plants to different levels of water limitation. For mild drought stress, we controlled water potential (a scientific concept for dryness of soil) by using an automated watering system. This system adds water to soil based on the pF values reported by a pF sensor in soil. pF is a classical and widely used index of water potential that was first defined by Schofield (1935). For severe stress conditions, we withheld watering or even dried plants on a lab bench. Here, the transcriptional profiles were compared between well-watered and Md3-treated rice seedling shoot basal region. Md3 (Mild drought level 3): We designated Md3 as a term that means the level of drought severity corresponding to pF3.5, which is equal to a soil matric potential of -155.3 kPa. pF3.5: The value of pF shows the soil matric potential of -155.3 kPa.

2016-12-26 | E-MTAB-4140 | biostudies-arrayexpress

Transcription profiling of rice plants under the Md3 (pF3.5) condition in shoots

Project description:In this series of experiments, we wanted to study the transcriptional responses of plants to different levels of water limitation. For mild drought stress, we controlled water potential (a scientific concept for dryness of soil) by using an automated watering system. This system adds water to soil based on the pF values reported by a pF sensor in soil. pF is a classical and widely used index of water potential that was first defined by Schofield (1935). For severe stress conditions, we withheld watering or even dried plants on a lab bench. Here, the transcriptional profiles were compared between well-watered and Md3-treated rice seedling shoots. Md3 (Mild drought level 3): We designated Md3 as a term that means the level of drought severity corresponding to pF3.5, which is equal to a soil matric potential of -155.3 kPa. pF3.5: The value of pF shows the soil matric potential of -155.3 kPa.

2016-12-26 | E-MTAB-4136 | biostudies-arrayexpress

Transcription profiling of rice plants under the Sda (Air-drying) condition in shoots

Project description:In this series of experiments, we wanted to study the transcriptional responses of plants to different levels of water limitation. For mild drought stress, we controlled water potential (a scientific concept for dryness of soil) by using an automated watering system. This system adds water to soil based on the pF values reported by a pF sensor in soil. pF is a classical and widely used index of water potential that was first defined by Schofield (1935). For severe stress conditions, we withheld watering or even dried plants on a lab bench. Here, the transcriptional profiles were compared between well-watered and Sda-treated rice seedling shoots. Sda (Severe dehydration stress by air drying): We designated the Sda as a term that means a dehydration stress in our experiments. The dehydration stress treatment was carried out by pulling plants from the soil and leaving them on a bench.

2016-12-26 | E-MTAB-4137 | biostudies-arrayexpress

iPOTs: Internet of Things-based pot system controlling optional treatment of soil water condition for plant phenotyping under drought stress

Project description:A cultivation facility that can assist users in controlling the soil water condition is needed for accurately phenotyping plants under drought stress in an artificial environment. Here we report the Internet of Things (IoT)-based pot system controlling optional treatment of soil water condition (iPOTs), an automatic irrigation system that mimics the drought condition in a growth chamber. The Wi-Fi-enabled iPOTs system allows water supply from the bottom of the pot, based on the soil water level set by the user, and automatically controls the soil water level at a desired depth. The iPOTs also allows users to monitor environmental parameters, such as soil temperature, air temperature, humidity, and light intensity, in each pot. To verify whether the iPOTs mimics the drought condition, we conducted a drought stress test on rice varieties and near-isogenic lines, with diverse root system architecture, using the iPOTs system installed in a growth chamber. Similar to the results of a previous drought stress field trial, the growth of shallow-rooted rice accessions was severely affected by drought stress compared with that of deep-rooted accessions. The microclimate data obtained using the iPOTs system increased the accuracy of plant growth evaluation. Transcriptome analysis revealed that pot positions in the growth chamber had little impact on plant growth. Together, these results suggest that the iPOTs system represents a reliable platform for phenotyping plants under drought stress.

2021-08-24 | GSE171578 | GEO

Gene expression changes in response to drought stress in Arabidopsis reveal early responses leading to acclimation in plant growth

2010-10-01 | GSE24177 | GEO

Populus trichocarpa Transcriptome or Gene expression

Project description:Our analysis provides a comprehensive picture of how P. trichocarpa responds to drought stress at physiological and transcriptome levels which may help to understand molecular mechanisms associated with drought response and could be useful for genetic engineering of woody plants. Drought stress treatment was performed dividing P. trichocarpa plants into the well-watered (WW) group (soil volumetric water content of 40â45 %) and the water-limited group (soil volumetric water content of 10â15 %). Two cDNA libraries constructed separately from the WW and WL groups were subjected to high-throughput Illumina sequencing.

2013-11-20 | E-MTAB-4126 | biostudies-arrayexpress

Gene expression changes in response to drought stress in Arabidopsis reveal early responses leading to acclimation in plant growth

Project description:Plant drought stress response and resistance are complex biological processes that merit systems-level analyses to dissect drought stress encountered by crops in the field. We have used gene expression profiling of Arabidopsis plants subjected to a controlled, sublethal, moderate drought (mDr) treatment to characterize early and late response to drought. We have also compared these profiles to those from plants treated with soil water deficit (progressive) drought (pDr) to reveal acclimation responses in plants. Controlled moderate drought (mDr) was maintained by giving Arabidopsis (Columbia) plants water to keep the soil moisture level at 30% of field capacity, which is 200% or 2 g H2O g-1 dry soil. Water was withheld at 30 days after sowing (DAS). For progressive drought (pDr) treatment, plants were grown in a growth room as described above, water was withheld at 35 DAS, and were allowed to dry until the required pDr level was reached. For RNA isolation, two biological replicate samples of 5 pooled plants were collected at early (day1) and late stage (day10) for mDr, and first day of wilting for pDr, along with controls for mDr and pDr. Samples were hybridized to the Affymetrix (ATH1 25K) GeneChip.

2010-10-01 | E-GEOD-24177 | biostudies-arrayexpress

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