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| Status |
Public on Jun 30, 2015 |
| Title |
Whole genome expression profiling of rice leaves treated with Xanthomonas oryzae pv. oryzae secreted cell wall degrading lipase/esteraseA (LipA) at early time points, 30 min. and 120 min. |
| Organism |
Oryza sativa |
| Experiment type |
Expression profiling by array
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| Summary |
Treatment of rice tissues with purified preparations of a Xanthomonas oryzae pv. oryzae (Xoo) secreted plant cell wall degrading enzyme, Lipase/Esterase (LipA), elicits cell wall damage induced innate immune responses. LipA activity is required for induction of defense responses.
In order to characterize the early events during elaboration of cell wall degrading enzyme, Lipase/Esterase (LipA) induced innate immune response in rice, we have performed global gene expression profiling of rice leaves treated with purified LipA at early time points, 30 minutes and 120min, after treatment. Whole genome transcriptional profiling was performed using Affymetrix Rice GeneChips
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| Overall design |
Leaves of two weeks old green house grown susceptible rice cultivar (Taichung Native-1; TN-1) were infiltrated with either 30-40μl of purified Xoo Lipase/Esterase (LipA)(500μg/ml) or with buffer (10mM potassium phosphate buffer pH 6.0) alone (as described in Jha et al. 2007; MPMI vol 20, pp 31-40). The plants were shifted to a growth chamber (28oC; 80% relative humidity; 12/12h light/dark cycle) 48 hours before the treatment. 20-30 leaf pieces covering the infiltrated zone from each of the treatments were harvested 30 min. and 120 min. after infiltration. Total RNA isolated from the pooled samples was subjected for expression analysis using Affymetrix GeneChip System. The experiment was repeated with three different biological replicates using RNA isolated from three batches of rice leaves treated with the freshly purified Xoo Lipase/Esterase (LipA)and the buffer
Gene Expression profiling of rice leaves undergoing an innate immune respone induced by LipA (Lipase/Esterase A) enzyme
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| Contributor(s) |
Ranjan A, Patel HK, Ramesh P, Sonti RV |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Jan 09, 2014 |
| Last update date |
Dec 27, 2017 |
| Contact name |
Ramesh V. Sonti |
| E-mail(s) |
[email protected]
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| Organization name |
Centre for cellular and molecular biology (CCMB)
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| Department |
Plant Microbe Interactions
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| Street address |
Uppal Road
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| City |
Hyderabad |
| State/province |
Andhra Pradesh |
| ZIP/Postal code |
500007 |
| Country |
India |
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| Platforms (1) |
| GPL2025 |
[Rice] Affymetrix Rice Genome Array |
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| Samples (24)
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| GSM1303766 |
Buffer treated leaves, biological replicate1 (30min_PLIER16) |
| GSM1303767 |
Buffer treated leaves, biological replicate2 (30min_PLIER16) |
| GSM1303768 |
Buffer treated leaves, biological replicate3 (30min_PLIER16) |
| GSM1303769 |
Lipase/Esterase A treated leaves, biological replicate1 (30min_PLIER16) |
| GSM1303770 |
Lipase/Esterase A treated leaves, biological replicate2 (30min_PLIER16) |
| GSM1303771 |
Lipase/Esterase A treated leaves, biological replicate3 (30min_PLIER16) |
| GSM1303772 |
Buffer treated leaves, biological replicate1 (120min_PLIER16) |
| GSM1303773 |
Buffer treated leaves, biological replicate2 (120min_PLIER16) |
| GSM1303774 |
Buffer treated leaves, biological replicate3 (120min_PLIER16) |
| GSM1303775 |
Lipase/Esterase A treated leaves, biological replicate1 (120min_PLIER16) |
| GSM1303776 |
Lipase/Esterase A treated leaves, biological replicate2 (120min_PLIER16) |
| GSM1303777 |
Lipase/Esterase A treated leaves, biological replicate3 (120min_PLIER16) |
| GSM1303778 |
Buffer treated leaves, biological replicate1 (30min_RMA) |
| GSM1303779 |
Buffer treated leaves, biological replicate2 (30min_RMA) |
| GSM1303780 |
Buffer treated leaves, biological replicate3 (30min_RMA) |
| GSM1303781 |
Lipase/Esterase A treated leaves, biological replicate1 (30min_RMA) |
| GSM1303782 |
Lipase/Esterase A treated leaves, biological replicate2 (30min_RMA) |
| GSM1303783 |
Lipase/Esterase A treated leaves, biological replicate3 (30min_RMA) |
| GSM1303784 |
Buffer treated leaves, biological replicate1 (120min_RMA) |
| GSM1303785 |
Buffer treated leaves, biological replicate2 (120min_RMA) |
| GSM1303786 |
Buffer treated leaves, biological replicate3 (120min_RMA) |
| GSM1303787 |
Lipase/Esterase A treated leaves, biological replicate1 (120min_RMA) |
| GSM1303788 |
Lipase/Esterase A treated leaves, biological replicate2 (120min_RMA) |
| GSM1303789 |
Lipase/Esterase A treated leaves, biological replicate3 (120min_RMA) |
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| Relations |
| BioProject |
PRJNA234000 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE53940_120_min_Buffer-1.CEL.gz |
3.9 Mb |
(ftp)(http) |
CEL |
| GSE53940_120_min_Buffer-2.CEL.gz |
4.2 Mb |
(ftp)(http) |
CEL |
| GSE53940_120_min_Buffer-3.CEL.gz |
4.2 Mb |
(ftp)(http) |
CEL |
| GSE53940_120_min_Lipase-1.CEL.gz |
3.9 Mb |
(ftp)(http) |
CEL |
| GSE53940_120_min_Lipase-2.CEL.gz |
4.4 Mb |
(ftp)(http) |
CEL |
| GSE53940_120_min_Lipase-3.CEL.gz |
4.1 Mb |
(ftp)(http) |
CEL |
| GSE53940_30_min_Buffer-1.CEL.gz |
3.9 Mb |
(ftp)(http) |
CEL |
| GSE53940_30_min_Buffer-2.CEL.gz |
4.1 Mb |
(ftp)(http) |
CEL |
| GSE53940_30_min_Buffer-3.CEL.gz |
3.3 Mb |
(ftp)(http) |
CEL |
| GSE53940_30_min_Lipase-1.CEL.gz |
3.9 Mb |
(ftp)(http) |
CEL |
| GSE53940_30_min_Lipase-2.CEL.gz |
4.1 Mb |
(ftp)(http) |
CEL |
| GSE53940_30_min_Lipase-3.CEL.gz |
3.3 Mb |
(ftp)(http) |
CEL |
| Processed data included within Sample table |
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