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| Status |
Public on Sep 22, 2008 |
| Title |
Rice cultivars undergoing a susceptible and resistant interaction with the parasitic plant Striga hermonthica |
| Platform organism |
Oryza sativa |
| Sample organism |
Oryza sativa Japonica Group |
| Experiment type |
Expression profiling by array
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| Summary |
Using rice cultivars Nipponbare, which exhibits resistance to Striga hermonthica (a root parasitic plant that causes devastating loss of yield), and IAC165, which is susceptible, we aim to identify suites of genes underlying susceptibility and resistance to S. hermonthica by profiling changes in gene expression using rice whole genome microarrays. In addition to a functional categorisation of changes in gene expression, genes that were significantly differentially regulated within regions predicted to contain Nipponbare quantitative trait loci for resistance were identified.
Keywords: Infected material vs. comparable control tissue, time course
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| Overall design |
Root tissue was harvested from two cultivars of rice that had been infected with Striga hermonthica (or from uninfected control tissue). Three timepoints were used (2, 4 and 11 days after infection or mock-inoculation) using two replicate chips per treatment/timepoint.
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| Contributor(s) |
Scholes JD, Swarbrick PJ, Huang K, Slate J, Press MC |
| Citation(s) |
19086183 |
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| Submission date |
Feb 04, 2008 |
| Last update date |
Dec 27, 2017 |
| Contact name |
Julie Scholes |
| Organization name |
University of Sheffield
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| Department |
Animal and Plant Sciences
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| Street address |
Western Bank
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| City |
Sheffield |
| ZIP/Postal code |
S10 2TN |
| Country |
United Kingdom |
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| Platforms (1) |
| GPL2025 |
[Rice] Affymetrix Rice Genome Array |
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| Samples (24)
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| GSM261998 |
IAC165, 2 days after mock-infection, biological replicate #1 |
| GSM261999 |
IAC165, 2 days after mock-infection, biological replicate #2 |
| GSM262000 |
IAC165, 2 days after infection with S. hermonthica, biological replicate #1 |
| GSM262001 |
IAC165, 2 days after infection with S. hermonthica, biological replicate #2 |
| GSM262002 |
IAC165, 4 days after mock-infection, biological replicate #1 |
| GSM262003 |
IAC165, 4 days after mock-infection, biological replicate #2 |
| GSM262004 |
IAC165, 4 days after infection with S. hermonthica, biological replicate #1 |
| GSM262005 |
IAC165, 4 days after infection with S. hermonthica, biological replicate #2 |
| GSM262006 |
IAC165, 11 days after mock-infection, biological replicate #1 |
| GSM262007 |
IAC165, 11 days after mock-infection, biological replicate #2 |
| GSM262008 |
IAC165, 11 days after infection with S. hermonthica, biological replicate #1 |
| GSM262009 |
IAC165, 11 days after infection with S. hermonthica, biological replicate #2 |
| GSM262010 |
Nipponbare, 2 days after mock-infection, biological replicate #1 |
| GSM262011 |
Nipponbare, 2 days after mock-infection, biological replicate #2 |
| GSM262012 |
Nipponbare, 2 days after infection with S. hermonthica, biological replicate #1 |
| GSM262013 |
Nipponbare, 2 days after infection with S. hermonthica, biological replicate #2 |
| GSM262014 |
Nipponbare, 4 days after mock-infection, biological replicate #1 |
| GSM262015 |
Nipponbare, 4 days after mock-infection, biological replicate #2 |
| GSM262016 |
Nipponbare, 4 days after infection with S. hermonthica, biological replicate #1 |
| GSM262017 |
Nipponbare, 4 days after infection with S. hermonthica, biological replicate #2 |
| GSM262018 |
Nipponbare, 11 days after mock-infection, biological replicate #1 |
| GSM262019 |
Nipponbare, 11 days after mock-infection, biological replicate #2 |
| GSM262020 |
Nipponbare, 11 days after infection with S. hermonthica, biological replicate #1 |
| GSM262021 |
Nipponbare, 11 days after infection with S. hermonthica, biological replicate #2 |
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| Relations |
| BioProject |
PRJNA108111 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE10373_RAW.tar |
194.2 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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