Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Expression data from rice genotypes FL478 and IR29

ABSTRACT: Salt Stress response of salt-tolerant genotype FL478 compared to IR29 Rice GeneChip was used to find differential expression between two rice genotypes under control and salt stress conditions Keywords: genotype and treatment comparison Roots (tips) tissue was used for hybridization to GeneChips

ORGANISM(S): Oryza sativa

SUBMITTER: Harkamal Walia

PROVIDER: E-GEOD-13735 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Comparing genomic expression patterns across plant species reveals highly diverged transcriptional dynamics in response to salt stress.

Walia Harkamal H Wilson Clyde C Ismail Abdelbagi M AM Close Timothy J TJ Cui Xinping X

BMC genomics 20090825

<h4>Background</h4>Rice and barley are both members of Poaceae (grass family) but have a marked difference in salt tolerance. The molecular mechanism underlying this difference was previously unexplored. This study employs a comparative genomics approach to identify analogous and contrasting gene expression patterns between rice and barley.<h4>Results</h4>A hierarchical clustering approach identified several interesting expression trajectories among rice and barley genotypes. There were no major ...[more]

PMID: 19706179

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Project description:TITLE: Transcriptional profiling of Rgene-mediated responses in rice PROJECT DESCRIPTION: The dominant gene Xa7 and the recessive gene xa5 of rice confer resistance to several races of the bacterial blight pathogen Xanthomonas oryzae pv. oryzae (Xoo). To reveal the modes of action and the defense responses these genes initiate, we decided to obtain the global transcriptional profiles of the rice cultivars IRBB7, IRBB5 (which harbor Xa7 and xa5, respectively) and IR24 undergoing early infection by the Xoo Race 2 strain PXO86. Both IRBB7 and IRBB5 are resistant to PXO86 (which carry the corresponding avirulence genes avrXa7 and avrxa5), whereas IR24 is susceptible. We inoculated by vacuum infiltration the three rice cultivars ten days after seed germination (or 2 weeks after sowing) and collected inoculated tissue at 5 different timepoints within the first day after inoculation. The transcriptional profiles obtained will provide valuable insight into the similarities and differences between incompatible interactions mediated by a dominant and a recessive Rgene, in comparison to a compatible interaction. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, David O Nino-Liu. The equivalent experiment is OS4 at PLEXdb.] genotype: IR24 - time: 0 hai(3-replications); genotype: IR24 - time: 3 hai(3-replications); genotype: IR24 - time: 6 hai(3-replications); genotype: IR24 - time: 12 hai(3-replications); genotype: IR24 - time: 24 hai(3-replications); genotype: IRBB5 - time: 0 hai(3-replications); genotype: IRBB5 - time: 3 hai(3-replications); genotype: IRBB5 - time: 6 hai(3-replications); genotype: IRBB5 - time: 12 hai(3-replications); genotype: IRBB5 - time: 24 hai(3-replications); genotype: IRBB7 - time: 0 hai(3-replications); genotype: IRBB7 - time: 3 hai(3-replications); genotype: IRBB7 - time: 6 hai(3-replications); genotype: IRBB7 - time: 12 hai(3-replications); genotype: IRBB7 - time: 24 hai(3-replications)

Dataset Information

Expression data from rice genotypes FL478 and IR29

Publications

Comparing genomic expression patterns across plant species reveals highly diverged transcriptional dynamics in response to salt stress.

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