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Expression data from LCM-captured Arabidopsis root cells after challenge with Meloidogyne incognita
Lauren McIntyre, University of Florida, Department of Molecular Genetics and Microbiology, Gainesville, Florida (mcintyre@ufl.edu)
Experiment design (16 hybridizations)
nematode infestation
•control root cell •infested giant cell
time
•14 dai •21 dai

This experiment has been imported by PLEXdb from NCBI GEO (GSE37553)

Series_summary:
The differentiation of specialized feeding sites...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Expression data from LCM-captured Arabidopsis root cells after challenge with Meloidogyne incognita
Accession No: AT138
Microarray: ATH1-121501
Visibility: public
Experiment Type:
Experiment Factor(s):
nematode infestation
•control root cell   •infested giant cell
time
•14 dai   •21 dai
Quality Control: biological replicates
Treatment summary:
 nematode infestation  time  # replicates
 control root cell  14 dai  3
 control root cell  21 dai  5
 infested giant cell  14 dai  3
 infested giant cell  21 dai  5
Total hybridizations: 16
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE37553)

Series_summary:
The differentiation of specialized feeding sites in Arabidopsis root cells in response to nematode infestation involves substantial cellular reprogramming of host cells that is not well characterized at the molecular level. Expression data was generated from Arabidopsis root cells undergoing giant cell formation due to nematode infestation and from non-infested control root cells. Cells were laser captured 14 and 21 days after infestation.

Series_overall_design:
Samples, collected 14 days post infestation, consisted of three biological replicates per treatment (control root cells or giant cells). RNA samples were isolated from ~150 control cells or from ~80 giant cells using the PicoPure RNA Isolation Kit (Arcturus, Mountain View, USA). RNA amplifications were carried out with the NuGEN WT-Ovation Pico kit.
GSM546568-GSM546577: Control and giant cells collected 21 days post infestation.


Curator's Comment:
PLEXdb has merged both the biological and technical replications together, they were listed separately in the GEO series.
[Correlation between replicates within a treatment (MAS Scatter Plots): a few below 85%]
Publication: none
Created: 2012-05-23 10:56:58
Last Update: 2012-05-30 11:03:55
Released: 2012-05-30
GEO Accession GSE37553
Submitter: PLEXdb Curator
Name: Lauren McIntyre
Institution: University of Florida, Department of Molecular Genetics and Microbiology, Gainesville, Florida
Head of Laboratory: Christopher Taylor
email(s):
Homepage:

 
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