Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Affy_med_2013_05-Comparison between nodules of WT, NF737 and MS240 lines

ABSTRACT: affy_med_2013_05 - affy_med_2013_05 - The experiment is designed to detect transcriptome differences between wild type and two fix minus (NF737 and MS240) mutant lines.-Medicago truncatula WT (R108) and two mutant lines (NF737 and MS240/dnf2) were nodulated using WSM419 Sinorhizobium medicae symbiotic bacteria. Plants were grown in vitro on BN medium and the nodules harvested 14 days post inoculation (dpi). RNA was extracted using the plant RNA extraction kit from Thermo Scientific followed by a DNAse I treatment (TurbO DNAse I Ambion).

ORGANISM(S): Medicago truncatula Medicago

PROVIDER: GSE54862 | GEO | 2015/12/01

SECONDARY ACCESSION(S): PRJNA238134

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Medicago truncatula R108 in symbiosis with rhizobia wt or rhizobia mutant for BacA. Comparison of the transcriptomic response of Medicago truncatula plants.

Project description:12plex_medicago_2013-08 - r108 in symbiosis with rhizobia wt or rhizobia mutant for baca. - Two experiments to compare the transcriptomic response of medicago plants: Agar medium versus Phytagel medium (exp1) and rhizobium WT versus BacA (exp2). - Medicago truncatula ecotype R108 was inoculated with the symbiotic rhizobium Sinorhizobium meliloti strain Sm1021 and with its derivative mutant delta bacA. Nodules were collected 13 days after inoculation, and RNA were prepared for transcriptome analysis, there were three biological independant experiements.

2018-11-01 | GSE121775 | GEO

Time-course transcriptome analysis of Sinorhizobium medicae (MD4 strain) in mature nodules of Medicago truncatula grown in split-root under different nitrogen (N) supply

Project description:The experiment aim is the identification of the transcriptional response of mature nodules of Medicago truncatula inoculated with the strain MD4 of Sinorhizobium medicae in response to different nitrogen (N) supply (N-satiety and N-deficient conditions). We performed a time-course (1 and 3 days treatment) split-root experiment to identify plant systemic responses: the root systems of nodulated symbiotic plants were divided into two compartments, one of them treated and the other kept on control conditions. Nodules were isolated from the non-treated side of the split root and total RNA isolated for RNAseq analysis. To analyse Sinorhizobium medicae MD4 expression, a ribosomal RNA depletion protocol was performed before library preparation.

2020-09-30 | E-MTAB-8598 | biostudies-arrayexpress

Time-course transcriptome analysis of mature nodules in Medicago truncatula grown in split-root under different nitrogen (N) supply

2020-09-30 | E-MTAB-8597 | biostudies-arrayexpress

Response of the mature nodules of the Medicago truncatula/sinorhizobium medicae md4 symbiotic association to systemic signaling associated to plant water deficit (PEG treatment)

Project description:The experiment aims to identify the response of the mature nodules and denodulated roots of Medicago truncatula /Sinorhizobium medicae md4 to the systemic signaling of plant water deficit. The root systems of nodulated symbiotic plants were divided into two compartments. The N source of N2 fixing plants was exclusively the air. To apply the water stress, we treated half root system with PEG while the other was kept on control conditions. To characterize the systemic responses of the transcriptome to the PEG treatment , nodules and roots of the non-treated half root system were harvested and total RNA isolated for RNAseq analysis. We performed a time-course (6 hours, 1-, 3- and 5-days treatment) .

2021-11-30 | E-MTAB-10497 | biostudies-arrayexpress

Nodule Zone Specific Proteome - Integrated analysis of zone-specific protein and metabolite profiles within nitrogen-fixing Medicago truncatula-Sinorhizobium medicae nodules

Project description:Root nodules of the medicago truncatula-sinorhizobium meliloti plant-bacterail symbiotic model system were hand sectioned followed by LCMS. Sections were made to separate different developmental zones along the nodules longitudinal axis.

2017-07-17 | PXD006683 | Pride

Response of the mature nodules and denodulated roots of the Medicago truncatula/sinorhizobium medicae md4 symbiotic association to systemic signaling of plant N deficit

Project description:The experiment aims to identify the response of mature nodules and denodulated roots of Medicago truncatula /Sinorhizobium medicae md4 to the systemic signaling of plant N deficit. The root systems of nodulated symbiotic plants were divided into two compartments. The N source of N2 fixing plants was exclusively the air. To reduce the plant nitrogen (N) supply (N-deficient conditions), we flushed one half root system with Ar/O2 (80/20 v/v) while the other half root system was kept on control conditions (Air). To characterize the systemic responses of the transcriptome to plant N deficit , nodules and roots of the non-treated half root system were harvested and total RNA isolated for RNAseq analysis. We performed a time-course (6 hours, 1-, 3- and 5-days treatment).

2021-11-30 | E-MTAB-10496 | biostudies-arrayexpress

Medicago truncatula R108: permissive medium versus non permissive medium. Comparison of the transcriptomic response of medicago truncatula plants.

Project description:12plex_medicago_2013-08 - r108 permissive medium versus non permissive medium. - Two experiments to compare the transcriptomic response of medicago plants: Agar medium versus Phytagel medium (exp1) and rhizobium WT versus BacA (exp2). - Medicago truncatula R108 seedlings were inoculated with S. medicae WSM419 and were cultivated during three days on buffered nidulation medium solidified with Phytagel or Agar.

2018-11-01 | GSE121771 | GEO

Transcriptomic changes in Medicago truncatula and Lotus japonicus root nodules during drought stress

Project description:Drought is one of the major environmental factors limiting biomass and seed yield production in agriculture. In this research we focused on plants from Fabaceae family, which have a unique ability for establishment of symbiosis with nitrogen-fixing bacteria, and are relatively susceptible to water limitation. We present the changes in nitrogenase activity and global gene expression occurring in Medicago truncatula and Lotus japonicus root nodules during water deficit. Our results prove a decrease in the efficiency of nitrogen fixation as well as extensive changes in plant and bacterial transcriptomes shortly after watering cessation. We show for the first time that not only symbiotic plant component, but also Sinorhizobium meliloti and Mesorhizobium loti bacteria residing in the root nodules of M. truncatula and L. japonicus, respectively, adjust their gene expression in response to water shortage. Although our results demonstrate that both M. truncatula and L. japonicus root nodules are susceptible to water deprivation, they indicate significant differences in plant and bacterial response to drought between tested species, which may be related to various type of root nodules formed by these species.

2019-02-26 | GSE126986 | GEO

Cell- and tissue-specific transcriptome analyses of Medicago truncatula root nodules

Project description:We used laser-capture microdissection (LCM) to isolate specific cells from the Medicago truncatula nodule meristem (M), the distal infection (DIZ), the proximal infection zone (PIZ), infected cells (IC) and uninfected cells (UIC) from the fixation zone. Based on Medicago GeneChips, we identified the cell- and tissue-specific programm of gene expression in Medicago truncatula root nodules. Nodules were harvested three weeks after inoculation of Medicago truncatula (genotype Jemalong A17) plants with Sinorhizobium meliloti strain 2011. Nodules were fixed in Farmer's fixative and subsequently embedded in paraffin. 8 M-BM-5m de-paraffined sections were used to capture cells from the nodule meristem, distal infection zone, proximal infection zone, infected cells and uninfected cells from the fixation zone, using an Arcturus Pixcell II laser capture microscope. 3 biological replicates were used for each cell-/tissue type. After RNA extraction, the RNA was amplified and used for Medicago Gene Chip hybridization.

2013-05-29 | E-GEOD-43354 | biostudies-arrayexpress

Transcriptome of Medicago truncatula abi5 mutants during seed development

Project description:A transcriptome analysis of developing abi5 and wild type (R108) seeds from Medicago truncatula was performed to decipher the role of ABI54 in the regulation of late seed maturation and seed longevity.

2016-09-24 | GSE87313 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data