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Transcriptome during autoregulation of mycorrhization in soybean
Sara Schaarschmidt, ATLAS Biolabs GmbH (sara.schaarschmidt@hu-berlin.de)
Experiment design (30 hybridizations)
genotype
•Bragg wt •nts1007
inoculation
•minus •plus
tissue type name
•root-parts AB •root-part A (myc) •root-part B (non-myc) •shoot

The autoregulation of mycorrhization (AOM) describes a plant regulatory mechanism that limits the number of infection events by arbuscular mycorrhi...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Transcriptome during autoregulation of mycorrhization in soybean
Accession No: GM53
Microarray: Soybean
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•Bragg wt   •nts1007
inoculation
•minus  •plus
tissue type name
•root-parts AB   •root-part A (myc)   •root-part B (non-myc)   •shoot
Quality Control: biological replicates
Treatment summary:
 genotype  inoculation  tissue type name  # replicates
 Bragg wt  minus  root-parts AB  3
 Bragg wt  minus  root-part A (myc)  0
 Bragg wt  minus  root-part B (non-myc)  0
 Bragg wt  minus  shoot  3
 Bragg wt  plus  root-parts AB  0
 Bragg wt  plus  root-part A (myc)  3
 Bragg wt  plus  root-part B (non-myc)  3
 Bragg wt  plus  shoot  3
 nts1007  minus  root-parts AB  3
 nts1007  minus  root-part A (myc)  0
 nts1007  minus  root-part B (non-myc)  0
 nts1007  minus  shoot  3
 nts1007  plus  root-parts AB  0
 nts1007  plus  root-part A (myc)  3
 nts1007  plus  root-part B (non-myc)  3
 nts1007  plus  shoot  3
Total hybridizations: 30
Description: The autoregulation of mycorrhization (AOM) describes a plant regulatory mechanism that limits the number of infection events by arbuscular mycorrhizal fungi. The key signal mediator is a receptor kinase (GmNARK) that acts in the shoots. Early signals of the mycorrhizal symbiosis induce a root-derived signal that activates GmNARK in the shoot finally leading to a systemic repression of subsequent infections in the root. So far, less is known about the signals down-stream of GmNARK.
To find genes regulated by GmNARK in a mycorrhiza-dependent as well as in a mycorrhiza-independent manner, we used the Affymetrix GeneChip for soybean.

In general, mycorrhizal root systems consist of both colonized and non-colonized, but autoregulated roots. To physically separate those two root types for transcript analysis of specifically regulated genes, we used the split-root system.
Transcript profiling during AOM was done with material of Bragg wild-type and of the nark mutant nts1007, either non-inoculated or partially inoculated with the mycorrhizal fungus Rhizophagus irregularis (formerly Glomus intraradices). Wild-type and nark mutants were inoculated with R. irregularis on one half of the root-systems (root-parts "A") only. The remaining half of the root-systems stayed non-infected (root-parts "B"). Corresponding controls stayed completely non-infected. Gene expression was analyzed in inoculated root-parts, non-inoculated root-parts and shoots of three individual plants per treatment.

Submitted at NCBI GEO via PLEXdb.

Publication: none
Created: 2013-02-11 11:37:11
Last Update: 2013-02-20 14:56:45
Released: 2013-05-09
GEO Accession GSE44685
Submitter: Sara Schaarschmidt
Name: Sara Schaarschmidt
Institution: ATLAS Biolabs GmbH
Head of Laboratory: Dr. Florian Wagner
email(s):
Homepage:

 
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