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Open Access Highly Accessed Research article

Xanthomonas oryzae pv oryzae triggers immediate transcriptomic modulations in rice

Rumdeep K Grewal, Sumanti Gupta and Sampa Das*

Author Affiliations

Division of Plant Biology, Bose Institute, Centenary Campus, P1/12 C.I.T. Scheme VII M, Kankurgachi, Kolkata-700054, India

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BMC Genomics 2012, 13:49  doi:10.1186/1471-2164-13-49

Published: 31 January 2012

Additional files

Additional file 1:

Xanthomonas oryzae pv oryzae induced disease symptoms in adult rice plants. A. Susceptible IR24. B. Resistant IET8585.

Format: PPT Size: 1.4MB Download file

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Additional file 2:

Quantitative RT-PCR validation of microarray data. A powerpoint file containing comparison of pathogen induced differential fold inductions as obtained from microarray and real-time PCR.

Format: PPT Size: 360KB Download file

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Additional file 3:

Complete list of transcripts found to be up-regulated in resistant plant as compared to susceptible one. Excel file containing the gene name, fold change and gene description of the transcripts.

Format: XLS Size: 32KB Download file

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Additional file 4:

Complete list of transcripts found to be down-regulated in resistant plant as compared to susceptible one. Excel file containing the gene name, fold change and gene description of the transcripts.

Format: XLS Size: 27KB Download file

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Open Data

Additional file 5:

Interaction network of up-regulated transcripts. A powerpoint file containing interaction map generated by Pathway Studio (version 7.1). The transcripts up-regulated in present study are highlighted in yellow.

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Additional file 6:

Interaction network of down-regulated transcripts. A powerpoint file containing interaction map generated by Pathway Studio (version 7.1). The transcripts down-regulated in present study are highlighted in yellow.

Format: PPT Size: 2.1MB Download file

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Open Data

Additional file 7:

K means clusters comparing the expressional level of transcripts. A powerpoint file containing K means clusters comparing the expression level of transcripts having beyond +/-2 fold change and p < = 0.05 at 0,1,6 and 120 hours after inoculation. The green and orange represent down-regulation and up-regulation respectively. The intensity of color signifies the degree of fold change.

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Additional file 8:

Microarray experiment design. Excel file containing the details of the samples hybridized to each array.

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Additional file 9:

The representative data of microarray hybridization and qRT-PCR. A powerpoint file containing A. Part of image of microarray hybridization. B. Scatter plot of log intensities across an array. C. Real-time PCR curve.

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Additional file 10:

List of primer for the qRT-PCR. Excel file containing all primer sequences used for the quantitative RT-PCR.

Format: XLS Size: 21KB Download file

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Open Data