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Generation and analysis of expressed sequence tags from leaf and root of Withania somnifera (Ashwgandha)

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Abstract

The first transcriptomes, expressed sequence tags (ESTs) in a leaf and root from Withania somnifera plant referenced in this report are the first of its kind. A cDNA library was constructed from samples of the 2-months-old, in vitro cultured leaves and roots, which generated 1,047 leaf cDNA and 1,034 root cDNA clones representing 48.5% and 61.5% unique sequences. The ESTs from leaf and root grouped into 239 and 230 clusters representing 22.8% and 22.2% of total sequences. Of these, about 70% encoded proteins found similar (E-value ≥10−14) to characterized or annotated proteins from the NCBI non-redundant database and diverse molecular functions and biological processes based on gene ontology (GO) classification. We identified genes with potential role in photosynthesis (cytochrome p-450), pathogenesis (arginine decarboxylase, chitinase) and withanolide biosynthesis (squalene epoxidase, CDP-ME kinase). Highly expressed transcripts, with a particularly high abundance of cytochrome p-450 (0.85% in leaf) were noticed. Pfam analysis revealed the presence of functional domains in selected sequences. W. somnifera is a source of multifarious and beneficial alkaloids referred as withanolides. High levels of withanolides accumulate in mature leaves and roots. Since, the knowledge for synthesis and presence of some of these important biochemical constituent is limited, identification of the genes involved in two different pathways of secondary metabolite synthesis (MVA and MEP), in different tissue will be requisite for articulation of withanolide biosynthesis. This investigation aimed at elucidating the differential gene expression in two vital sites where withanolides essentially found and leaf and root transcriptomes were comparatively analyzed. The comparative analysis of the sequences provides a framework for future research in proteomics and evolutionary genomics in the withanolide biosynthesis.

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Abbreviations

EST:

Expressed sequence tags

cDNA:

Complementary DNA

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Authors and Affiliations

  1. Korean Ginseng Center and Ginseng Genetic Resource Bank, Kyung Hee University, 1 Seocheon, Giheung-gu, Yongin-si, Gyeonggi-do, 449-701, South Korea

    Neha G. Wasnik, Yu-Jin Kim & Deok-Chun Yang

  2. Avinashilingam University for Women, Coimbatore, 641043, India

    Kalaiselvi Senthil & Neha G. Wasnik

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  1. Kalaiselvi Senthil
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  2. Neha G. Wasnik
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  3. Yu-Jin Kim
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  4. Deok-Chun Yang
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Correspondence to Deok-Chun Yang.

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Senthil, K., Wasnik, N.G., Kim, YJ. et al. Generation and analysis of expressed sequence tags from leaf and root of Withania somnifera (Ashwgandha). Mol Biol Rep 37, 893 (2010). https://doi.org/10.1007/s11033-009-9696-y

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