PRJNA223351
Withania somnifera Transcriptome or Gene expression
Withania somnifera (L.) Dunal commonly known as Ashwagandha or Indian ginseng is a valued medicinal plant belonging to family Solanceae with pharmaceutical and nutraceutical applications. The present study was undertaken to characterize the salicylic acid treated leaf transcriptome for expression of pathogenesis – related (PR) genes. The raw 72 bp paired end sequence data was generated using Illumina Genome Analyzer IIx Sequencer and a total of 45.6 million reads (3.28 Gb) were generated. The raw reads were subjected to quality control and the total number of HQ reads was 87.26% (39.8 million reads). The de novo assembly generated 73,523 transcript contigs with average transcript contig length of 1620 bp. The maximum length of contig transcript was 9489 bp. The N50 value of the assembly was determined to be 1,978 bp. The assembled transcript contigs were annotated using BLASTx against Nr database for Viridiplantae. A total of 71,062 (96.65%) transcript were annotated and 53,424 (75%) sequences were assigned GO terms. The pathway assignment was performed using KEGG and the annotated transcript contigs were assigned to 182 pathways. Additionally, the leaf transcriptome data generated a total of 4,250 SSRs with maximum representation of di-nucleotide SSRs (1576) and a minimum representation of penta-nucleotide SSRs (15). The sequence data also revealed the presence of 51 hairpin and 860 miRNAs determined against the hairpin and mature miRNA sequences from plants available in the miRBase v 19.