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Expression profile of maize´s stalk challenged with the corn borer Sesamia nonagrioides
Victor Rodriguez, Mision Biologica de Galicia (CSIC), Department of Plant Genetics and Breeding, Pontevedra, Spain (vmrodriguez@mbg.csic.es)
Experiment design (8 hybridizations)
genotype
•CM151 •EP39 •EP42 •PB130
insect infestation
•control •infested

This experiment has been imported by PLEXdb from NCBI GEO (GSE28244)

Series_summary:
Stalk borers are major pests for some of the mos...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Expression profile of maize´s stalk challenged with the corn borer Sesamia nonagrioides
Accession No: ZM48
Microarray: maize18k
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•CM151   •EP39   •EP42   •PB130
insect infestation
•control   •infested
Quality Control: biological replicates
Treatment summary:
 genotype  insect infestation  # replicates
 CM151  control  1
 CM151  infested  1
 EP39  control  1
 EP39  infested  1
 EP42  control  1
 EP42  infested  1
 PB130  control  1
 PB130  infested  1
Total hybridizations: 8
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE28244)

Series_summary:
Stalk borers are major pests for some of the most important crops in the world, such as maize or rice. Plant defense mechanisms against these herbivores have been poorly investigated. The maize´s stalk responds to insect feeding activating defense genes including hormone biosynthetic-related or proteinase inhibitor transcripts. The most outstanding conclusion is that cells in the maize´s stalk undergo cell wall fortification after corn borer tunneling.
We performed a gene expression profiling to identify those genes differentially expressed in maize after infestation with the corn borer S. nonagrioides.

Series_overall_design:
Four genetically unrelated maize inbred lines (EP39, EP42, CM151 and PB130) were infested at VT (tasseling) developmental stage with a mass of approximately 40 eggs of S. nonagrioides laid on the sheath of the main ear. Another four biological replicates per genotype were used as control. Samples for RNA extraction were harvested fifteen days after infestation.


PLEXdb Curator's Note:
At PLEXdb we have separated the 4 genetic lines (EP39, EP42, CM151 and PB130) into a factor. This is not obvious from the sample titles at GEO although it appears in the experiment description and the sample descriptions/characteristics within each sample. As a result, each genetic line and treatment combination has one replication each; not 4 reps as it appears from the GEO experiment description page.

We chose to do this way as the corresponding publications mentions the following:
"..... These inbred lines were chosen based on their different level of resistance to the attack by Sesamia nonagrioides as previously published ... ... ... The RNA from the four biological replicates per genotype and treatment was equimolarly pooled for microarray hybridization. ... ... ."

Also, the sample names which are quoted from GEO do not reflect the actual replication no. at PLEXdb.
Publication: 'Inducible maize defense mechanisms against the corn borer Sesamia nonagrioides: a transcriptome and biochemical approach.', Rodríguez VM, Santiago R, Malvar RA, Butrón A.
Mol Plant Microbe Interact 2011 Sep 14.
pubmed: 21916555
Created: 2011-10-18 11:24:59
Last Update: 2011-10-18 12:19:18
Released: 2011-10-18
GEO Accession GSE28244
Submitter: PLEXdb Curator
Name: Victor Rodriguez
Institution: Mision Biologica de Galicia (CSIC), Department of Plant Genetics and Breeding, Pontevedra, Spain
Head of Laboratory: Victor Rodriguez
email(s):
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