Open Access Research article

Identification and expression analysis of methyl jasmonate responsive ESTs in paclitaxel producing Taxus cuspidata suspension culture cells

Sangram K Lenka1, Nadia Boutaoui1, Bibin Paulose2, Kham Vongpaseuth34, Jennifer Normanly24, Susan C Roberts34 and Elsbeth L Walker14*

Author Affiliations

1 Department of Biology, University of Massachusetts, Amherst, MA, 01003, USA

2 Department of Biochemistry and Molecular Biology, University of Massachusetts, Amherst, MA, 01003, USA

3 Department of Chemical Engineering, University of Massachusetts, Amherst, MA, 01003, USA

4 Plant Biology Graduate Program, University of Massachusetts, Amherst, MA, 01003, USA

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BMC Genomics 2012, 13:148  doi:10.1186/1471-2164-13-148

Published: 24 April 2012

Additional files

Additional file 1:

Table S1. The duplicate sequences obtained from the three up-regulated libraries corresponding to each contig.

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Additional file 2:

Table S2. Identity and description of unigenes derived from up- and down- regulated T. cuspidata SSH libraries.

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Additional file 3:

Figure S1. Gene Ontology mapping. GO mapping for Taxus cuspidata up-regulated unigenes by (a) biological process, (b) molecular function, and (c) cellular components.

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Additional file 4:

Table S3. Macroarray data from both the up- and down-regulated libraries hybridised with various RNA targets.

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Additional file 5:

Figure S2. Pattern of expression of clones from down-regulated libraries. Macroarrays spotted with randomly selected clones (probes) from all six SSH libraries were hybridized with labelled RNA targets prepared from mock elicited and elicited cells at three time points: 6h, 18h, and 5 day. Expression profile plots for the set of probes corresponding to each down-regulated library are shown: 6h library probes. Expression is given as the fold-change in gene expression in the elicited culture over the un-elicited culture. Only results from probes showing a statistically significant change in expression (P 

    <
 0.05) are shown.

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Additional file 6:

Figure S3. Pattern of expression of clones from down-regulated libraries. Macroarrays spotted with randomly selected clones (probes) from all six SSH libraries were hybridized with labelled RNA targets prepared from mock elicited and elicited cells at three time points: 6h, 18h, and 5 day. Expression profile plots for the set of probes corresponding to each down-regulated library are shown: 18h library probes C. Expression is given as the fold-change in gene expression in the elicited culture over the un-elicited culture. Only results from probes showing a statistically significant change in expression (P 

    <
 0.05) are shown.

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Additional file 7:

Figure S4. Pattern of expression of clones from down-regulated libraries. Macroarrays spotted with randomly selected clones (probes) from all six SSH libraries were hybridized with labelled RNA targets prepared from mock elicited and elicited cells at three time points: 6h, 18h, and 5 day. Expression profile plots for the set of probes corresponding to each down-regulated library are shown: 5 day library probes. Expression is given as the fold-change in gene expression in the elicited culture over the un-elicited culture. Only results from probes showing a statistically significant change in expression (P 

    <
 0.05) are shown.

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Additional file 8:

Table S4. List of sequences obtained from the SSH libraries.

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Additional file 9:

Table S5. List of primer sets used for RT-PCR analysis.

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