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DNA Barcoding of Invasive Terrestrial Plant Species in India

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Abstract

Invasive plants are known to cause biodiversity loss and pose a major risk to human health and environment. Identification of invasive plants and distinguishing them from native species has been relied on morphological examination. Stringent requirement of floral characters and decreasing number of expert taxonomists are making conventional morphology-based identification system tedious and resource-intensive. DNA barcoding may help in quick identification of invasive species if distinct sequence divergence pattern at various taxonomic levels is observed. The present work evaluates the utility of four molecular markers; rbcL, matK, their combination (rbcL + matK), and psbA-trnH for identification of 37 invasive plant species from India and also in distinguishing them from 97 native species. A psbA-trnH locus was found to be of restricted utility in this work as it was represented by the members of a single family. A hierarchical increase in K2P mean divergence across different taxonomic levels was found to be the maximum for matK alone followed by rbcL + matK and rbcL alone, respectively. NJ clustering analysis, however, confirmed the suitability of combined locus (rbcL + matK) over individual rbcL and matK as the DNA barcode. RbcL showed the lowest resolution power among the three markers studied. MatK exhibited much better performance compared to rbcL alone in identifying most of the species accurately although it failed to show monophyly of genus Dinebra. Two families; Asteraceae and Poaceae, remained polyphyletic in the trees constructed by all three markers. Combined locus (rbcL + matK) was found to be the most suitable marker as it raised the resolution power of both the markers and could identify more than 90% of genera correctly. Phylogenetic tree constructed by Maximum-Parsimony method using combined locus as a molecular marker exhibited the best resolution, thus, supporting the significance of two-locus combination of rbcL + matK for barcoding invasive plant species from India. Present study contributes to the global barcode data of invasive plant species by adding fifty-one new sequences to it. Effective barcoding of additional number of native as well as invasive plant species from India is possible using this dual locus if it is combined with one or more new molecular plastid markers. Expansion of barcode database with a focus on barcode performance optimisation to improve discrimination ability at species level can be undertaken in future.

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Acknowledgements

This work was supported by ‘Seed Money’ grant from Deccan Education Society’s Fergusson College (Autonomous), Pune (Project number 12-2022). We are grateful to Dr. Shrikant S. Ranade, Chairman, IMT Technologies, Pune for his generous donation to Fergusson College which helped immensely to this work. Authors thank Prof. Milind Sardesai from Department of Botany, Savitribai Phule Pune University, Pune for his help in identification of plants species. We appreciate Dr. Dheeraj Dhotre, Mr. Gaurang Gowande, Monica Joshi and our undergraduate students Falguni, Mahek, Akash, and Vaishnavi for their help in bioinformatics work. We thank Dr. Aditya Ambade from Shrewsbury, Massachusetts, USA for critical proofreading of this manuscript. We are indebted to the Head of Biotechnology Department and authorities of Fergusson College for facilities and encouragement. Lastly, we thank the reviewers for providing unbiased and useful comments.

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  1. Department of Biotechnology, Fergusson College (Autonomous), Shivajinagar, Pune, Maharashtra, 411004, India

    Nayan Lonare, Gayatri Patil, Hrishikesh Hardikar & Sanket Tembe

  2. IMT Technologies Pvt. Ltd, Kondhwa Khurd, Pune, Maharashtra, 411048, India

    Suprriya Waghmare & Reshma Bhor

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  1. Nayan Lonare
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Lonare, N., Patil, G., Waghmare, S. et al. DNA Barcoding of Invasive Terrestrial Plant Species in India. Mol Biotechnol (2024). https://doi.org/10.1007/s12033-024-01102-z

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