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| Status |
Public on Feb 01, 2009 |
| Title |
Zhong You 821 Sclerotinia infected vs Mock infected controls in B. napus (Zhong You 821) |
| Organism |
Brassica napus |
| Experiment type |
Expression profiling by array
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| Summary |
The fungal pathogen Sclerotinia sclerotiorum infects a broad range of dicotyledonous plant species and is the causative agent of stem rot in Brassica napus. To elucidate the mechanisms underlying the defense response, we studied the patterns of gene expression in a partially resistant variety of ZhongYou 821 (ZY821) and a susceptible line from Westar over five time points, 6, 12, 24, 48, and 72 hours post-inoculation (hpi) using a B. napus oligonucleotide microarray. Maximum differential gene expression was observed at 48 hpi in both genotypes with ZY821 responding more quickly than Westar. Specific sets of genes exhibited higher levels of expression at the earlier stages of the infection (6-12 hpi), including genes encoding defense-associated proteins such as chitinases, glucanases, osmotins and lectins and genes encoding transcription factors belonging to the zinc finger, WRKY, AP2, and MYB classes. Genes encoding enzymes involved in JA, ethylene, and auxin synthesis were induced in both genotypes, as were those for gibberellin degradation. Changes in metabolic pathways affecting carbohydrate and energy metabolism appeared to be directed toward shuttling carbon reserves to the TCA cycle. Genes involved in glucosinolate and phenylpropanoid biosynthesis were highly up-regulated suggesting that secondary metabolites are also important components of the response to S. sclerotiorum in B. napus.
Keywords: Time course, infected vs mock infected
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| Overall design |
Time course experiment (6hr, 12 hr, 24 hr, 48 hr, 72 hrs), sclerotinia infected vs mock-infected. Biological replicates: 3, independently harvested.
Technical replicates: 2, dye swapped within each time for each biological replicate (total 6 slides per time point)
time after innoculation: 6 hours: zy 6h inf vs control rep1, zy 6h control vs inf rep1, zy 6h inf vs control rep2, zy 6h control vs inf rep2, zy 6h inf vs control rep3, zy 6h control vs inf rep3
time after innoculation: 12 hours: zy 12h inf vs control rep1, zy 12h control vs inf rep1, zy 12h inf vs control rep2, zy 12h control vs inf rep2, zy 12h inf vs control rep3, zy 12h control vs inf rep3
time after innoculation: 24 hours: zy 24h inf vs control rep1, zy 24h control vs inf rep1, zy 24h inf vs control rep2, zy 24h control vs inf rep2, zy 24h inf vs control rep3, zy 24h control vs inf rep3
time after innoculation: 48 hours: zy 48h inf vs control rep1, zy 48h control vs inf rep1, zy 48h inf vs control rep2, zy 48h control vs inf rep2, zy 48h inf vs control rep3, zy 48h control vs inf rep3
time after innoculation: 72 hours: zy 72h inf vs control rep1, zy 72h control vs inf rep1, zy 72h inf vs control rep2, zy 72h control vs inf rep2, zy 72h inf vs control rep3, zy 72h control vs inf rep3
biological replicate: zy 6h inf vs control rep1, zy 6h inf vs control rep2, zy 6h inf vs control rep3
biological replicate: zy 6h control vs inf rep1, zy 6h control vs inf rep2, zy 6h control vs inf rep3
technical replicate - labeled-extract: zy 6h inf vs control rep1, zy 6h control vs inf rep1
technical replicate - labeled-extract: zy 6h inf vs control rep2, zy 6h control vs inf rep2
technical replicate - labeled-extract: zy 6h inf vs control rep3, zy 6h control vs inf rep3
biological replicate: zy 12h inf vs control rep1, zy 12h inf vs control rep2, zy 12h inf vs control rep3
biological replicate: zy 12h control vs inf rep1, zy 12h control vs inf rep2, zy 12h control vs inf rep3
technical replicate - labeled-extract: zy 12h inf vs control rep1, zy 12h control vs inf rep1
technical replicate - labeled-extract: zy 12h inf vs control rep2, zy 12h control vs inf rep2
technical replicate - labeled-extract: zy 12h inf vs control rep3, zy 12h control vs inf rep3
biological replicate: zy 24h inf vs control rep1, zy 24h inf vs control rep2, zy 24h inf vs control rep3
biological replicate: zy 24h control vs inf rep1, zy 24h control vs inf rep2, zy 24h control vs inf rep3
technical replicate - labeled-extract: zy 24h inf vs control rep1, zy 24h control vs inf rep1
technical replicate - labeled-extract: zy 24h inf vs control rep2, zy 24h control vs inf rep2
technical replicate - labeled-extract: zy 24h inf vs control rep3, zy 24h control vs inf rep3
biological replicate: zy 48h inf vs control rep1, zy 48h inf vs control rep2, zy 48h inf vs control rep3
biological replicate: zy 48h control vs inf rep1, zy 48h control vs inf rep2, zy 48h control vs inf rep3
technical replicate - labeled-extract: zy 48h inf vs control rep1, zy 48h control vs inf rep1
technical replicate - labeled-extract: zy 48h inf vs control rep2, zy 48h control vs inf rep2
technical replicate - labeled-extract: zy 48h inf vs control rep3, zy 48h control vs inf rep3
biological replicate: zy 72h inf vs control rep1, zy 72h inf vs control rep2, zy 72h inf vs control rep3
biological replicate: zy 72h control vs inf rep1, zy 72h control vs inf rep2, zy 72h control vs inf rep3
technical replicate - labeled-extract: zy 72h inf vs control rep1, zy 72h control vs inf rep1
technical replicate - labeled-extract: zy 72h inf vs control rep2, zy 72h control vs inf rep2
technical replicate - labeled-extract: zy 72h inf vs control rep3, zy 72h control vs inf rep3
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| Contributor(s) |
Zhao J, Bekkaoui D, Buchwaldt L, Rimmer R, Sharpe A, McGregor L, Hegedus D |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Oct 17, 2008 |
| Last update date |
Mar 20, 2012 |
| Contact name |
Dwayne Hegedus |
| E-mail(s) |
dwayne.hegedus@agr.gc.ca
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| Phone |
(306) 385-9427
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| Organization name |
Agriculture and Agri-Food Canada
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| Street address |
107 Science Place
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| City |
Saskatoon |
| State/province |
SK |
| ZIP/Postal code |
S7N 0X2 |
| Country |
Canada |
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| Platforms (1) |
| GPL7499 |
Agriculture and Agri-Food Canada B. napus Westar 15K v1.0 |
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| Samples (30)
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| GSM334645 |
Zhong You 821 stem-6 hour Infection vs control-Replicate 1 |
| GSM334646 |
Zhong You 821 stem-6 hour Control vs Infection-Replicate 1 |
| GSM334647 |
Zhong You 821 stem-6 hour Infection vs control-Replicate 2 |
| GSM334648 |
Zhong You 821 stem-6 hour Control vs Infection-Replicate 2 |
| GSM334649 |
Zhong You 821 stem-6 hour Infection vs control-Replicate 3 |
| GSM334650 |
Zhong You 821 stem-6 hour Control vs Infection-Replicate 3 |
| GSM334651 |
Zhong You 821 stem-12 hour Infection vs control-Replicate 1 |
| GSM334652 |
Zhong You 821 stem-12 hour Control vs Infection-Replicate 1 |
| GSM334653 |
Zhong You 821 stem-12 hour Infection vs control-Replicate 2 |
| GSM334654 |
Zhong You 821 stem-12 hour Control vs Infection-Replicate 2 |
| GSM334655 |
Zhong You 821 stem-12 hour Infection vs control-Replicate 3 |
| GSM334656 |
Zhong You 821 stem-12 hour Control vs Infection-Replicate 3 |
| GSM334657 |
Zhong You 821 stem-24 hour Infection vs control-Replicate 1 |
| GSM334658 |
Zhong You 821 stem-24 hour Control vs Infection-Replicate 1 |
| GSM334659 |
Zhong You 821 stem-24 hour Infection vs control-Replicate 2 |
| GSM334660 |
Zhong You 821 stem-24 hour Control vs Infection-Replicate 2 |
| GSM334661 |
Zhong You 821 stem-24 hour Infection vs control-Replicate 3 |
| GSM334662 |
Zhong You 821 stem-24 hour Control vs Infection-Replicate 3 |
| GSM334663 |
Zhong You 821 stem-48 hour Infection vs control-Replicate 1 |
| GSM334664 |
Zhong You 821 stem-48 hour Control vs Infection-Replicate 1 |
| GSM334665 |
Zhong You 821 stem-48 hour Infection vs control-Replicate 2 |
| GSM334666 |
Zhong You 821 stem-48 hour Control vs Infection-Replicate 2 |
| GSM334667 |
Zhong You 821 stem-48 hour Infection vs control-Replicate 3 |
| GSM334668 |
Zhong You 821 stem-48 hour Control vs Infection-Replicate 3 |
| GSM334669 |
Zhong You 821 stem-72 hour Infection vs control-Replicate 1 |
| GSM334670 |
Zhong You 821 stem-72 hour Control vs Infection-Replicate 1 |
| GSM334671 |
Zhong You 821 stem-72 hour Infection vs control-Replicate 2 |
| GSM334672 |
Zhong You 821 stem-72 hour Control vs Infection-Replicate 2 |
| GSM334673 |
Zhong You 821 stem-72 hour Infection vs control-Replicate 3 |
| GSM334674 |
Zhong You 821 stem-72 hour Control vs Infection-Replicate 3 |
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| This SubSeries is part of SuperSeries: |
| GSE13262 |
Sclerotinia infected vs Mock infected controls in B. napus Westar and Zhong You 821 |
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| Relations |
| BioProject |
PRJNA114025 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE13256_RAW.tar |
60.3 Mb |
(http)(custom) |
TAR (of TXT) |
| GSE13256_ReadMe.txt |
52 b |
(ftp)(http) |
TXT |
| GSE13256_Zhong_You_12_hrs.txt |
7.4 Mb |
(ftp)(http) |
TXT |
| GSE13256_Zhong_You_24_hrs.txt |
7.4 Mb |
(ftp)(http) |
TXT |
| GSE13256_Zhong_You_48_hrs.txt |
7.4 Mb |
(ftp)(http) |
TXT |
| GSE13256_Zhong_You_6_hrs.txt |
7.4 Mb |
(ftp)(http) |
TXT |
| GSE13256_Zhong_You_72_hrs.txt |
7.4 Mb |
(ftp)(http) |
TXT |
| Processed data included within Sample table |
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