Primary Details
| Project ID | PTP036 |
| Transcriptome Exp. ID | PTE120 |
| Plant Name | Withania somnifera |
| Genome ID | GEN2 |
Plant Classification
|
||
| Kingdom | Plantae | |
| Phylum | Streptophyta | |
| Class | Magnolipsida | |
| Order | Solanales | |
| Family | Solanaceae | |
| Genus | Withania | |
| Species | somnifera | |
| Variety | NMITLI-118 |
Transcriptome Details
Sample Tissue
Root
Line/Chemotype/Cultivar
NMITLI-118
Study Title
Transcriptome analysis of leaf and root tissues of NMITLI-118 chemotype of Withania somnifera (Indian ginseng) using 454-Sequencing Platform- Leaf
Description
Phytochemical profiling suggests that withanolide biosynthesis may take place differentially in leaf and root tissues as well as in different chemotypes of Withania with differences in the content and/or nature of withanolide moiety. To develop basic understanding about withanolide biosynthesis in different chemotypes, we established transcriptome sequences of leaf and root tissues of NMITLI-118 chemotype using 454 pyrosequencing. The transcriptome data obtained was of 210 and 226 MB with 675691 and 731352 ESTs in leaf and root libraries respectively. Assembly of data yielded 20621 contigs and 63910 singletons in NMITLI-118 leaf and 22438 contigs and 78645 singletons in NMITLI-118 root transcriptomes. Each transcriptome had approximately 52% large contigs with an average length of 921 bps. Each library was annotated using BLASTx against TAIR10, nr and tomato databases. Using established transcriptome, we have identified total 2308 and 3112 SSR markers for leaf and root, which will help in future genetic studies of this valuable medicinal plant.
Sequencing Platform
454 GS FLX Titanium
Sequencing Strategy
RNA-Seq
Sequencing Library
Paired
Experiment Type
Replicate Number
Total Replicates
Merged replicated
Library Name
454 GS FLX Titanium
Selection Method
cDNA
Number of run
Spots No
731,352
Bases no
295.1M
Spot Length
403
Submitted By
Prabodh Kumar Trivedi
Affliated Institute
CSIR-NBRI
Country
India
State
Uttar Pradesh
City
Lucknow