Open Access Highly Accessed Research article

Next generation sequencing and de novo transcriptome analysis of Costus pictus D. Don, a non-model plant with potent anti-diabetic properties

Ramasamy S Annadurai2, Vasanthan Jayakumar1, Raja C Mugasimangalam1, Mohan AVSK Katta1, Sanchita Anand1, Sreeja Gopinathan1, Santosh Prasad Sarma1, Sunjay Jude Fernandes1, Nandita Mullapudi1, S Murugesan3 and Sudha Narayana Rao1*

Author Affiliations

1 Research and Development Unit, Genotypic Technology Private Limited, Balaji Complex, Poojari Layout, 80 Feet Road, RMV 2nd Stage, Bangalore, Karnataka, 560094, India

2 Currently at MTP Biology, ITC R&D Centre, Peenya Industrial Area, 1st Phase, Bangalore, Karnataka, 560 058, India

3 Division of Bioprospecting, Institute of Forest Genetics and Tree Breeding, R.S.Puram, Coimbatore, Tamilnadu, 641 002, India

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BMC Genomics 2012, 13:663  doi:10.1186/1471-2164-13-663

Published: 23 November 2012

Additional files

Additional file 1:

Venn diagram depicting sharing of transcripts annotated by six different databases. The Venn diagram shows transcripts unique to each database and which are shared amongst different databases.

Format: DOC Size: 208KB Download file

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Additional file 2:

PlantCyc Enzyme Annotations. The tab delimited table lists the pathway annotations from PlantCyc enzymes annotation.

Format: XLS Size: 1.5MB Download file

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Additional file 3:

Other Secondary Metabolite Annotations. The document shows the percentage distribution of other secondary metabolite pathway related transcripts observed from PlantCyc enzymes annotation.

Format: DOC Size: 106KB Download file

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Additional file 4:

Swiss-Prot Annotations. The tab delimited table lists the Swiss-Prot annotations leading to Gene Ontology term classifications.

Format: XLS Size: 7MB Download file

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Additional file 5:

KOG Annotations. The tab delimited table lists the annotations from Cluster of Orthologous Groups leading to KOG classifications.

Format: XLS Size: 5.6MB Download file

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Additional file 6:

Pfam Annotations. The tab delimited table lists the annotations from Pfam protein domains.

Format: XLS Size: 4MB Download file

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Additional file 7:

Final Annotation table. The final tab delimited table lists the best annotation assigned to transcripts after picking the best annotation from individual databases.

Format: XLS Size: 10.4MB Download file

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Additional file 8:

SNPs. The tab delimited table lists the SNPs obtained after aligning the reads back to the transcripts.

Format: CSV Size: 6.2MB Download file

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Additional file 9:

Supplementary data for Validation of assembled transcripts of C. pictus.

Format: DOCX Size: 104KB Download file

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Additional file 10:

SSRs. The tab delimited table lists the SSRs identified using MISA.

Format: XLS Size: 1.3MB Download file

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Additional file 11:

Similarity search among other anti-diabetic plant resources. The file provides results of similarity search of the transcripts against GenBank nucleotide sequences from other anti-diabetic plants.

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Additional file 12:

SNP filtering criteria. The file provides criteria used for filtering SNPs.

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