A transcriptomic approach for exploring the molecular basis for dosha-balancing property-based classification of plants in Ayurveda

Shukla, Ashutosh K.; Mall, Maneesha; Santosh, K C; Singh, Sailendra; Nair, P.M.; Parashar, Gaurav; Shasany, Ajit Kumar; Singh, Subhash; Joshi, Vinod Kumar; Khanuja, S. P. S.

doi:10.1007/s11033-012-2400-7

Cited by 14 publications

(8 citation statements)

References 12 publications

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“…Another aspect that needs attention is that contamination in herbal products may not only be at the plant species level. In traditional systems of medicine such as Ayurveda, specific plant parts/tissues collected in a season-specific manner have been prescribed to be used for therapeutic purpose (Shukla et al, 2013). If the prescribed plant part is replaced by a non-prescribed part or by a prescribed part collected in the wrong season, then the therapeutic activity of the product might be compromised and DNA barcoding will fail to identify the adulteration responsible for lowering the quality of the product.…”

Section: Discussionmentioning

confidence: 99%

DNA barcoding: an efficient tool to overcome authentication challenges in the herbal market

Mishra

Kumar

Nagireddy

et al. 2015

Plant Biotechnology Journal

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biological reference material herbal barcode library. SummaryThe past couple of decades have witnessed global resurgence of herbal-based health care. As a result, the trade of raw drugs has surged globally. Accurate and fast scientific identification of the plant(s) is the key to success for the herbal drug industry. The conventional approach is to engage an expert taxonomist, who uses a mix of traditional and modern techniques for precise plant identification. However, for bulk identification at industrial scale, the process is protracted and time-consuming. DNA barcoding, on the other hand, offers an alternative and feasible taxonomic tool box for rapid and robust species identification. For the success of DNA barcode, the barcode loci must have sufficient information to differentiate unambiguously between closely related plant species and discover new cryptic species. For herbal plant identification, matK, rbcL, trnH-psbA, ITS, trnL-F, 5S-rRNA and 18S-rRNA have been used as successful DNA barcodes. Emerging advances in DNA barcoding coupled with next-generation sequencing and high-resolution melting curve analysis have paved the way for successful species-level resolution recovered from finished herbal products. Further, development of multilocus strategy and its application has provided new vistas to the DNA barcode-based plant identification for herbal drug industry. For successful and acceptable identification of herbal ingredients and a holistic quality control of the drug, DNA barcoding needs to work harmoniously with other components of the systems biology approach. We suggest that for effectively resolving authentication challenges associated with the herbal market, DNA barcoding must be used in conjunction with metabolomics along with need-based transcriptomics and proteomics.

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Section: Discussionmentioning

confidence: 99%

DNA barcoding: an efficient tool to overcome authentication challenges in the herbal market

Mishra

Kumar

Nagireddy

et al. 2015

Plant Biotechnology Journal

Self Cite

271

181

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“…Despite pharmacological importance, the transcriptomic and genomic data of A. racemosus are very limited that are available in the National Center of Biotechnology Information (NCBI) database. In NCBI only 97 ESTs and 22 nucleotide sequences are available from A. Racemosus [42]. Characterization of transcriptome is especially important for such a plant species which have a very large genome and present a great challenge for whole genome sequencing.…”

Section: Discussionmentioning

confidence: 99%

De novo leaf and root transcriptome analysis identified novel genes involved in Steroidal sapogenin biosynthesis in Asparagus racemosus

et al. 2014

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BackgroundSaponins are mainly amphipathic glycosides that posses many biological activities and confer potential health benefits to humans. Inspite of its medicinal attributes most of the triterpenes and enzymes involved in the saponin biosynthesis remains uncharacterized at the molecular level. Since the major steroidal components are present in the roots of A. racemosus our study is focussed on the comparative denovo transcriptome analysis of root versus leaf tissue and identifying some root specific transcripts involved in saponin biosynthesis using high-throughput next generation transcriptome sequencing.ResultsAfter sequencing, de novo assembly and quantitative assessment, 126861 unigenes were finally generated with an average length of 1200 bp. Then functional annotation and GO enrichment analysis was performed by aligning all-unigenes with public protein databases including NR, SwissProt, and KEGG. Differentially expressed genes in root were initially identified using the RPKM method using digital subtraction between root and leaf. Twenty seven putative secondary metabolite related transcripts were experimentally validated for their expression in root or leaf tissue using q-RT PCR analysis. Most of the above selected transcripts showed preferential expression in root as compared to leaf supporting the digitally subtracted result obtained. The methyl jasmonate application induces the secondary metabolite related gene transcripts leading to their increased accumulation in plants. Therefore, the identified transcripts related to saponin biosynthesis were further analyzed for their induced expression after 3, 5 and 12 hours of exogenous application of Methyl Jasmonate in tissue specific manner.ConclusionsIn this study, we have identified a large set of cDNA unigenes from A. racemosus leaf and root tissue. This is the first transcriptome sequencing of this non-model species using Illumina, a next generation sequencing technology. The present study has also identified number of root specific transcripts showing homology with saponin biosynthetic pathway. An integrated pathway of identified saponin biosynthesis transcripts their tissue specific expression and induced accumulation after methyl jasmonate treatment was discussed.Electronic supplementary materialThe online version of this article (doi:10.1186/1471-2164-15-746) contains supplementary material, which is available to authorized users.

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“…One of the major advantages of DNA-based analysis is the ubiquitous presence of DNA in all parts of the plant and no effect of seasonal variations on the quality and quantity of DNA has been observed. However, in traditional systems of medicine, specific plant parts/tissues collected in a particular season when secondary metabolite production is highest have been prescribed to be used for therapeutic purposes [106]. DNA barcoding cannot differentiate the different tissues of the plant within the same species.…”

Section: Accuracy Of Dna Barcoding Techniques For Authentication Of Bmentioning

confidence: 99%

DNA Barcoding for the Identification of Botanicals in Herbal Medicine and Dietary Supplements: Strengths and Limitations

et al. 2016

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In the past decades, the use of traditional medicine has increased globally, leading to a booming herbal medicine and dietary supplement industry. The increased popularity of herbal products has led to a rise in demand for botanical raw materials. Accurate identification of medicinal herbs is a legal requirement in most countries and prerequisite for delivering a quality product that meets consumer expectations. Traditional identification methods include botanical taxonomy, macroscopic and microscopic examination, and chemical methods. Advances in the identification of biological species using DNA-based techniques have led to the development of a DNA marker-based platform for authentication of plant materials. DNA barcoding, in particular, has been proposed as a means to identify herbal ingredients and to detect adulteration. However, general barcoding techniques using universal primers have been shown to provide mixed results with regard to data accuracy. Further technological advances such as mini-barcodes, digital polymerase chain reaction, and next generation sequencing provide additional tools for the authentication of herbs, and may be successful in identifying processed ingredients used in finished herbal products. This review gives an overview on the strengths and limitations of DNA barcoding techniques for botanical ingredient identification. Based on the available information, we do not recommend the use of universal primers for DNA barcoding of processed plant material as a sole means of species identification, but suggest an approach combining DNA-based methods using genus- or species-specific primers, chemical analysis, and microscopic and macroscopic methods for the successful authentication of botanical ingredients used in the herbal dietary supplement industry.

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A transcriptomic approach for exploring the molecular basis for dosha-balancing property-based classification of plants in Ayurveda

Cited by 14 publications

References 12 publications

DNA barcoding: an efficient tool to overcome authentication challenges in the herbal market

DNA barcoding: an efficient tool to overcome authentication challenges in the herbal market

De novo leaf and root transcriptome analysis identified novel genes involved in Steroidal sapogenin biosynthesis in Asparagus racemosus

DNA Barcoding for the Identification of Botanicals in Herbal Medicine and Dietary Supplements: Strengths and Limitations

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