Summary of Study ST000007
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000006. The data can be accessed directly via it's Project DOI: 10.21228/M8CC7R This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000007 |
| Study Title | Rice Infection Study |
| Study Type | MS analysis |
| Study Summary | Bacterial leaf blight (BLB), caused by Xanthomonas oryzae pv. oryzae (Xoo), gives rise to devastating crop losses in rice. Disease resistant rice cultivars are the most economical way to combat the disease. The TP309 cultivar is susceptible to infection by Xoo strain PXO99. A transgenic variety, TP309_Xa21, expresses the pattern recognition receptor Xa21, and is resistant. PXO99?raxST, a strain lacking the raxST gene, is able to overcome Xa21-mediated immunity. We used a single extraction solvent to demonstrate comprehensive metabolomics and transcriptomics profiling under sample limited conditions, and analyze the molecular responses of two rice lines challenged with either PXO99 or PXO99?raxST. LCTOF raw data file filtering resulted in better within group reproducibility of replicate samples for statistical analyses. Accurate mass match compound identification with molecular formula generation (MFG) ranking of 355 masses was achieved with the METLIN database. GCTOF analysis yielded an additional 441 compounds after BinBase database processing, of which 154 were structurally identified by retention index/MS library matching. Multivariate statistics revealed that the susceptible and resistant genotypes possess distinct profiles. Although few mRNA and metabolite differences were detected in PXO99 challenged TP309 compared to mock, many differential changes occurred in the Xa21-mediated response to PXO99 and PXO99?raxST. Acetophenone, xanthophylls, fatty acids, alkaloids, glutathione, carbohydrate and lipid biosynthetic pathways were affected. Significant transcriptional induction of several pathogenesis related genes in Xa21 challenged strains, as well as differential changes to GAD, PAL, ICL1 and Glutathione-S-transferase transcripts indicated limited correlation with metabolite changes under single time point global profiling conditions. |
| Institute | University of California, Davis |
| Department | Davis Genome Center |
| Laboratory | Fiehn |
| Last Name | Kind |
| First Name | Tobias |
| Address | 451 E. Health Sci. Drive, Davis, California 95616, USA |
| tkind@ucdavis.edu | |
| Submit Date | 2013-02-22 |
| Num Groups | 7 |
| Total Subjects | 60 |
| Raw Data Available | No |
| Analysis Type Detail | GC-MS |
| Release Date | 2013-03-24 |
| Release Version | 1 |
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Subject:
| Subject ID: | SU000009 |
| Subject Type: | Plant |
| Subject Species: | Oryza sativa Japonica Group |
| Taxonomy ID: | 39947 |
| Genotype Strain: | Taipei 309 +Xa21 transgene | Taipei 309; At1g08510 |
| Species Group: | Plants |
