De novo sequencing and characterization of Picrorhiza kurrooa transcriptome at two temperatures showed major transcriptome adjustments

Additional file 1:

Pooled transcriptome data of P. kurrooa. Due to large amount, data is divided into Additional file 1 and Additional file 2.

Format: TXT Size: 16.2MB Download file

Additional file 2:

Pooled transcriptome data of P. kurrooa. File contains the remaining data of Additional file 1.

Format: TXT Size: 16.5MB Download file

Additional file 3:

Dissimilar sequence groupings for assembled transcriptome sequences. The grouped sequences are dissimilar from each other, and belong to different regions of common genes. This helps reducing the over-representation of total transcripts, usually missed in assembling.

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Additional file 4:

Top highly represented functional conserved domains found in unknown sequences.

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Additional file 5:

Experimentally validated expressed sequence tags (ESTs) of P. kurrooa available at dbEST NCBI. Methods section has details including URL used in the present analysis.

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Additional file 6:

Guanine-cytosine (GC) content analysis of P. kurrooa transcripts. The average GC content of each transcript was calculated and highest proportion of transcripts belongs to the GC content range of 40-49%.

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Additional file 7:

Simple sequence repeats (SSRs) identified in transcripts of P. kurrooa.

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Additional file 8:

Comparative plots for top ten highest represented molecular function (A) and biological process (B) categories in A. thaliana and P. kurrooa.

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Additional file 9:

Reads per exon kilobase per million (RPKM) based gene expression at 15°C and 25°C in different expression categories ranging from > 10 fold increment to 0.5 fold or lower.

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Additional file 10:

Details on all the transcription factor (TF) families analyzed in P. kurrooa.

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Additional file 11:

Top 20 most abundant transcription factor (TF) families analyzed in P. kurrooa. Details of all the TFs are mentioned in Additional file 10.

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Additional file 12:

Reads per exon kilobase per million (RPKM) based expression of transcription factors analysed for P. kurrooa transcriptome at 15°C and 25°C.

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Additional file 13:

Reads per exon kilobase per million (RPKM) based expression of targeted genes of mevalonate (MVA), 2-C-methyl-D-erythritol 4-phosphate (MEP) and phenylpropanoid (PP) pathway (pathways associated with picrosides biosynthesis) at 15°C and 25°C.

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Additional file 14:

Reads per exon kilobase per million (RPKM) based expression of annotated cytochrome P450s (CYPs) in P. kurrooa transcriptome.

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Additional file 15:

Reads per exon kilobase per million (RPKM) based expression of annotated glycosyltransferases in P. kurrooa transcriptome.

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Additional file 16:

Oligonucleotide sequences and polymerase chain reaction (PCR) conditions used in reverse transcriptase (RT-PCR) based expression analysis.

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