GEO DataSets

(Submitter supplied) Publication title: Pseudonodule formation by wild type and symbiotic mutant Medicago truncatula in response to auxin transport inhibitors This SuperSeries is composed of the SubSeries listed below.

Organism:

Sinorhizobium meliloti; Medicago sativa; Medicago truncatula

Type:

Expression profiling by array

Platforms:

GPL9757 GPL4652

23 Samples

Download data: CEL

(Submitter supplied) We used an Affymetrix oligonucleotide microarray consisting of 9,935 tentative consensus (TC)sequences, which are based on cDNA libraries (Mitra et al., 2004 [PMID:15220482]). We examined gene expression of wild-type M. truncatula plants after inoculation with wild-type S. meliloti at 1 d, 4 d, 7d, 14 d, and 21 d. We chose these time points because they span the range of development of the Rhizobium-legume symbiosis, from initiation of the interaction through nitrogen fixation. more...

Organism:

Sinorhizobium meliloti; Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL9757

10 Samples

Download data: CEL, TXT

(Submitter supplied) Rhizobium and allied bacteria form symbiotic nitrogen-fixing nodules on legume roots. Plant hormones appear to play a role in nodule formation. We treated Medicago truncatula roots with auxin transport inhibitors (ATIs) N-(1-naphthyl)phthalamic acid (NPA) and 2,3,5-triiodobenzoic acid (TIBA) to induce the formation of pseudonodules. We compared the transcriptional responses of M. truncatula roots treated with ATIs to roots inoculated with Sinorhizobium meliloti. more...

Organism:

Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL9757

4 Samples

Download data: CEL, TXT

(Submitter supplied) Rhizobium and allied bacteria form symbiotic nitrogen-fixing nodules on legume roots. Plant hormones appear to play a role in nodule formation. We treated Medicago truncatula roots with auxin transport inhibitors (ATIs) N-(1-naphthyl)phthalamic acid (NPA) and 2,3,5-triiodobenzoic acid (TIBA) to induce the formation of pseudonodules. We compared the transcriptional responses of M. truncatula roots treated with ATIs to roots inoculated with Sinorhizobium meliloti. more...

Organism:

Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL9757

4 Samples

Download data: CEL, TXT

(Submitter supplied) Rhizobium and allied bacteria form symbiotic nitrogen-fixing nodules on legume roots. Plant hormones appear to play a role in nodule formation. We treated Medicago truncatula roots with auxin transport inhibitors (ATIs) N-(1-naphthyl)phthalamic acid (NPA) and 2,3,5-triiodobenzoic acid (TIBA) to induce the formation of pseudonodules. We compared the transcriptional responses of M. truncatula roots treated with ATIs to roots inoculated with Sinorhizobium meliloti. more...

Organism:

Sinorhizobium meliloti; Medicago sativa; Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL4652

6 Samples

Download data: CEL, TXT

(Submitter supplied) The dual genome Affymetrix SymbiosisChip contains probe sets for S. meliloti ORFs annotated in 2001, intergenic regions over 150 bp, and ~10,000 probe sets corresponding to expressed sequence tags of the plant host, Medicago truncatula. Protocol: see manufacturer's website

Organism:

Sinorhizobium meliloti; Medicago truncatula

28 Series

269 Samples

Download data: CDF, TXT

(Submitter supplied) Salt stress is a major agricultural concern inhibiting not only plant growth but also the symbiotic association between legume roots and the soil bacteria rhizobia. This symbiotic association is initiated by a molecular dialogue between the two partners, leading to the activation of a signaling cascade in the legume host and ultimately the formation of nitrogen-fixing root nodules. Here we show that a moderate salt stress increases the responsiveness of early symbiotic genes in Medicago truncatula to its symbiotic partner, Sinorhizobium meliloti, while conversely, inoculation with S. more...

Organism:

Medicago truncatula

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23899

12 Samples

Download data: TXT

(Submitter supplied) For transcript analysis of responses in Medicago truncatula to its symbiont Sinorhizobium meliloti wild type or the succinoglycan-deficient exoY mutant we compared transcripts from line A17 roots inoculated with 25 mL OD = 0.05 S. meliloti wild type or exoY mutant. Keywords: 1 line; 2 S. meliloti samples

Organism:

Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL4799

6 Samples

Download data

(Submitter supplied) we compared changes in the transcriptome and the translatome of M. truncatula roots upon rhizobial infection using direct RNA-seq and Translating Ribosome Affinity Purification (TRAP) combined with RNA-seq (TRAP-seq), respectively. TRAP is a ribosome immunopurification approach that has been extensively used in plants and mammals to assess translational changes

Organism:

Medicago truncatula

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23695

8 Samples

Download data: TXT

(Submitter supplied) 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.

Organism:

Medicago sativa; Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL4652

15 Samples

Download data: CEL

(Submitter supplied) The RNA-binding protein Hfq is a global regulator, which controls diverse cellular processes in bacteria. To begin understanding the role of Hfq in the Sinorhizobium meliloti-Medicago truncatula nitrogen-fixing symbiosis, we defined free-living and symbiotic phenotypes of an hfq mutant. Over 500 transcripts were differentially accumulated in the hfq mutant of S. meliloti Rm1021 when grown in a shaking culture.

Organism:

Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL9757

6 Samples

Download data: CEL

(Submitter supplied) Legume GRAS-type transcription factors NSP1 and NSP2 are essential for Rhizobium Nod factor-induced nodulation. Both proteins are considered to be Nod factor response factors regulating gene expression upon symbiotic signalling. However, legume NSP1 and NSP2 can be functionally replaced by non-legume orthologs; including rice (Oryza sativa) OsNSP1 and OsNSP2. This shows that both proteins are functionally conserved in higher plants, suggesting an ancient function that was conserved during evolution. more...

Organism:

Medicago sativa; Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL4652

9 Samples

Download data: CEL

(Submitter supplied) Nitrogen assimilation in plants is a tightly regulated process that integrates developmental and environmental signals. The legume-rhizobial symbiosis results in the formation of a specialized organ called root nodule, where the rhizobia fixes atmospheric nitrogen into ammonia. Ammonia is assimilated by the plant enzyme glutamine synthetase, which is specifically inhibited by PPT. The expression of key genes related to the regulation of root nodule metabolism will likely be affected by glutamine synthetase inhibition. more...

Organism:

Medicago sativa; Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL4652

12 Samples

Download data: CEL

(Submitter supplied) The involvement of ROS in the legume – Rhizobium symbiotic interaction has been highlighted (Santos et al., 2001; Rubio et al., 2004). This interaction is characterized by the formation of a new organ on the root, the nodule and by the penetration, in parallel, of the bacteria into the root tissue via an infection thread (IT) (Parniske and Downie, 2003; Gage, 2004). H2O2 production has been shown in ITs during the Medicago – Sinorhizobium meliloti interaction (Santos et al., 2001). more...

Organism:

Sinorhizobium meliloti; Medicago sativa; Medicago truncatula

Type:

Genome variation profiling by SNP array

Platform:

GPL4652

8 Samples

Download data: CEL

(Submitter supplied) For transcript analysis of early nodulation events in Medicago truncatula we compared transcripts from inoculated and uninoculated roots corresponding to defined stages between 1 and 72 h post inoculation (hpi). Keywords: time course

Organism:

Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL2930

36 Samples

Download data

(Submitter supplied) Trancript Based Cloning (TBC) uses standard Gene Expression techniques to quickly isolate genes of interest and begin to determine their function. Using a particular mutant phenotype, identified during a programme of mutagenesis and screning, and a wild-type control we can quickly determine a list of genes that is likely to contain the gene responsible for the phenotype. TBC is a general method for identifying and cloning important plant genes that is fast and may be applicable to almost any plant species Transcript abundance assays on the barley rar1-2 mutant and Sultan5 wild type were performed by using standard methods for the Affymetrix barley genome array (Affymetrix). more...

Organism:

Hordeum vulgare

Type:

Expression profiling by array

Platform:

GPL1340

4 Samples

Download data: CEL

(Submitter supplied) We would like to know how symbiotic molecules such as Nod Factors (NF) influence lateral root (LR) development in M. truncatula. We have preliminary evidence that this action is through early stages of root development. Auxin is the major phytohormone controlling LR development and we also have evidence that NF interfere with auxin for the control of LR development. This transcriptomic study aims at finding new molecular targets that would be responsive to auxin and NF treatment, even at a higher level by the combination of both auxin and NF. more...

Organism:

Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL17428

24 Samples

Download data: PAIR

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Medicago truncatula; Sinorhizobium meliloti; Medicago sativa

Type:

Expression profiling by array

Platform:

GPL4652

114 Samples

Download data: CEL

(Submitter supplied) Legumes interact with soil fungi, leading to the development of arbuscular mycorrhizal (AM) roots. Diffusible AM fungal signals were identified as sulphated and non-sulphated LCOs (sMyc-LCOs and nsMyc-LCOs). Applying Myc-LCOs on roots of symbiotic mutants, we used GeneChips to detail the global programme of gene expression in these mutants in response to the external application of Myc-LCOs. Keywords: Expression profiling by array

Organism:

Sinorhizobium meliloti; Medicago sativa; Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL4652

48 Samples

Download data: CEL

(Submitter supplied) Legumes interact with rhizobia, leading to the development of root nodules. Diffusible rhizobial signals were identified as Nod-LCOs. Applying Nod-LCOs on plantlet roots, we used GeneChips to detail the global programme of gene expression in response to the external application of Nod-LCOs.

Organism:

Sinorhizobium meliloti; Medicago sativa; Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL4652

30 Samples

Download data: CEL