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Intraspecific variation in the Populus balsamifera drought transcriptome
Malcolm M. Campbell, University of Toronto, Department of Cell & Systems Biology, Toronto, Canada (malcolm.campbell@utoronto.ca)
Experiment design (72 hybridizations)
genotype
•AP-947 •AP-1005 •AP-1006 •AP-2278 •AP-2298 •AP-2300
stress condition
•well watered •water limited
time
•predawn •midday

This experiment has been imported by PLEXdb from NCBI GEO (GSE21171)

Series_summary:
Drought is a major limitation to the growth and ...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Intraspecific variation in the Populus balsamifera drought transcriptome
Accession No: PT23
Microarray: Poplar61k
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•AP-947   •AP-1005   •AP-1006   •AP-2278   •AP-2298   •AP-2300
stress condition
•well watered   •water limited
time
•predawn   •midday
Quality Control: biological replicates
Treatment summary:
 genotype  stress condition  time  # replicates
 AP-947  well watered  predawn  3
 AP-947  well watered  midday  3
 AP-947  water limited  predawn  3
 AP-947  water limited  midday  3
 AP-1005  well watered  predawn  3
 AP-1005  well watered  midday  3
 AP-1005  water limited  predawn  3
 AP-1005  water limited  midday  3
 AP-1006  well watered  predawn  3
 AP-1006  well watered  midday  3
 AP-1006  water limited  predawn  3
 AP-1006  water limited  midday  3
 AP-2278  well watered  predawn  3
 AP-2278  well watered  midday  3
 AP-2278  water limited  predawn  3
 AP-2278  water limited  midday  3
 AP-2298  well watered  predawn  3
 AP-2298  well watered  midday  3
 AP-2298  water limited  predawn  3
 AP-2298  water limited  midday  3
 AP-2300  well watered  predawn  3
 AP-2300  well watered  midday  3
 AP-2300  water limited  predawn  3
 AP-2300  water limited  midday  3
Total hybridizations: 72
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE21171)

Series_summary:
Drought is a major limitation to the growth and productivity of trees in the ecologically and economically important genus Populus. The ability of Populus trees to contend with drought is a function of the responsiveness of their genome to this environmental insult, involving reconfiguration of the transcriptome to appropriately remodel growth, development and metabolism. The Populus drought transcriptome is shaped by interspecific genotypic variation, but the extent to which intraspecific variation shapes the drought transcriptome has not yet been examined. Here we test hypotheses aimed at examining the extent of intraspecific variation in the drought transcriptome. Transcriptome remodeling in response to water-deficit conditions was examined in six different Populus balsamifera L. genotypes using Affymetrix GeneChip technology. There were significant differences in the transcriptomes of the genotypes in response to water-deficit conditions; however, a common species-level response could also be identified across all individuals. Genotypes that had more similar drought-responsive transcriptomes also had fewer genotypic differences, as determined by microarray-derived single feature polymorphism (SFP) analysis, suggesting that responses may be conserved across individuals that share a greater degree of genotypic similarity. This work highlights the fact that a core species-level response can be defined; however, the underpinning genotype-derived complexities of the drought response in Populus must be taken into consideration when defining both species- and genus-level responses.

Series_overall_design:
72 arrays total. 6 genotypes, 2 time points. 2 water regimes. 3 biological replicates per treatment
Publication: 'Intraspecific variation in the Populus balsamifera drought transcriptome.', Hamanishi ET, Raj S, Wilkins O, Thomas BR, Mansfield SD, Plant AL, Campbell MM.
Plant Cell Environ 2010 Oct;33(10):1742-55. PMID: 20525001.
pubmed: 20525001
Created: 2011-06-30 09:14:53
Last Update: 2011-07-01 17:34:02
Released: 2011-07-01
GEO Accession GSE21171
Submitter: PLEXdb Curator
Name: Malcolm M. Campbell
Institution: University of Toronto, Department of Cell & Systems Biology, Toronto, Canada
Head of Laboratory: Malcolm M. Campbell
email(s):
Homepage:

 
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