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Genetic diversity analysis of severely infesting invasive thrips, Thrips parvispinus (Karny) in chilli (Capsicum annuum L.) in India

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Abstract

Thrips are economically important pests of crops and vectors of viral diseases worldwide. Invasion and outbreak of thrips have recently caused havoc in agricultural and horticultural ecosystems in India. Species identification is challenging due to their small size and subtle morphological differences. The present morphological and molecular studies revealed that, the thrips species which had created havoc on chilli at Andhra Pradesh and Telangana states of India during 2021–22 was an invasive thrips, Thrips parvispinus (Karny). The mean population of thrips ranged from 18.46 to 37.16 per five terminal leaves across the surveyed chilli fields. The most affected fields were noticed in Guntur district of Andhra Pradesh followed by Bhadradri Kothagudem district of Telangana with > 75 per cent foliage showing curling symptoms due to thrips feeding at both the locations. Genomic sequence variation in terms of haplotype diversity and nucleotide complexity was observed among 51 T. parvispinus GenBank accessions from India and Indonesia using mtCOI as molecular marker. A total of 12 haplotypes were identified from the 51 sequences of T. parvispinus. Nucleotide diversity of the Indian sequences as observed to be higher (π = 0.00585) than that of Indonesia (π = 0.00396). Similarly, haplotype diversity was also observed to be maximum in Indian accessions (Hd = 0.856) compared to Indonesia (Hd = 0.580). The genetic diversity and demography of T. parvispinus from India revealed the populations from India having more haplotype diversity than populations from Indonesia with a weak genetic structure observed between the populations among India and Indonesia. The shared haplotype H8 between Indonesia and India assumes a flow of genetic material, and implies Indonesia could be a plausible source of T. parvispinus invasion into India.

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References

  • Ananthakrishnan, T. N., & Sen, S. (1980). Taxonomy of Indian Thysanoptera. Handbook Series No.1, Zoological Survey of India, Kolkata, 234.

  • Ananthakrishnan, T. N., & Dhileepan, K. (1984). Thrips-fungus association with special reference to the sporophagous Bactrothrips idolomorphus (Karny) (Tubulifera: Thysanoptera). Proceedings of the Indian Academy of Sciences Animal Sciences, 93(3), 243–249.

    Article  Google Scholar 

  • Ashokan, R., Kumar, N. K., Kumar, V., & Ranganath, H. R. (2007). Molecular differences in the mitochondrial cytochrome oxidase I (mtCOI) gene and development of a species-specific marker for onion thrips, Thrips tabaci Lindeman, and melon thrips, T. palmi Karny (Thysanoptera: Thripidae), vectors of tospoviruses (Bunyaviridae). Bulletin of Entomological Research, 97(5), 461–470.

    Article  Google Scholar 

  • Ball, S. L., & Armstrong, K. F. (2006). DNA barcodes for insect pest identification: A test case with tussock moths (Lepidoptera: Lymantriidae). Canadian Journal of Forest Research, 36(2), 337–350.

    Article  CAS  Google Scholar 

  • Banerjee, D., Kumar, V., Maity, A., Ghosh, B., Tyagi, K., Singha, D., Kundu, S., Laskar, B. A., Naskar, A., & Rath, S. (2015). Identification through DNA barcoding of Tabanidae (Diptera) vectors of surra disease in India. Acta Tropica, 150, 52–58.

    Article  PubMed  Google Scholar 

  • Basavaraj, K., Sreenivas, A. G., Prasad, P. B., & Rachana, R. R. (2022). First report of invasive thrips, Thrips Parvispinus (Karny) (Thysanoptera: Thripidae) infesting chilli, Capsicum annuum L. in Kalaburagi, Karnataka, India. Journal of Experimental Zoology India, 25(1), 191–194.

    Google Scholar 

  • Bhatti, J. S. (1999). Enigmatic complete anterior tentorium and tentorial body in adults of the Onion thrips, Thrips tabaci (Thripidae), with review of the tentorium in the Order Terebrantia. Thrips, 1, 15–30.

    Article  Google Scholar 

  • Buckman, R. S., Mound, L. A., & Whiting, M. F. (2013). Phylogeny of thrips (Insecta: Thysanoptera) based on five molecular loci. Systematic Entomology, 38(1), 123–133.

    Article  Google Scholar 

  • Dickey, A. M., Kumar, V., Hoddle, M. S., Funderburk, J. E., Morgan, J. K., Jara-Cavieres, A., Shatters, R. G. J., Osborne, L. S., McKenzie, C. L. (2015). The Scirtothrips dorsalis species complex: endemism and invasion in a global pest. PLoS One, 10(4).

  • Excoffier, L., & Lischer, H. E. (2010). Arlequin suite ver. 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources, 10(3), 564–567.

    Article  PubMed  Google Scholar 

  • Felsenstein, J. (1985). Confidence limits on phylogenies: An approach using the bootstrap. Evolution, 39, 783–791.

    Article  PubMed  Google Scholar 

  • Folmer, O., Black, M., Hoeh, W., Lutz, R., & Vrijenhoek, R. (1994a). DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Molecular Marine Biology and Biotechnology, 3(5), 294–299.

    CAS  PubMed  Google Scholar 

  • Folmer, O., Hoeh, W. R., Black, M. B., & Vrijenhoek, R. C. (1994b). Conserved primers for PCR amplification of mitochondrial DNA from different invertebrate phyla. Molecular Marine Biology and Biotechnology, 3(5), 294–299.

    CAS  PubMed  Google Scholar 

  • Fu, Y. X., & Li, W. H. (1993). Statistical tests of neutrality of mutations. Genetics, 133(3), 693–709.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Grant, W. A. S., & Bowen, B. W. (1998). Shallow population histories in deep evolutionary lineages of marine fishes: Insights from sardines and anchovies and lessons for conservation. Journal of Heredity, 89(5), 415–426.

    Article  Google Scholar 

  • Hebert, P. D., Cywinska, A., Ball, S. L., & DeWaard, J. R. (2003). Biological identifications through DNA barcodes. Proceedings of the Royal Society of London Series b: Biological Sciences, 270(1512), 313–321.

    Article  CAS  PubMed Central  Google Scholar 

  • Hebert, P. D., Penton, E. H., Burns, J. M., Janzen, D. H., & Hallwachs, W. (2004). Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator. Proceedings of the National Academy of Sciences, 101(41), 14812–14817.

    Article  CAS  Google Scholar 

  • Iftikhar, R., Ashfaq, M., Rasool, A., Hebert, P.D. (2016). DNA barcode analysis of thrips (Thysanoptera) diversity in Pakistan reveals cryptic species complexes. PLoS One, 11(1).

  • Kaur, S., Dhaliwal, M. S., Cheema, D. S., & Sharma, A. (2010). Screening of chilli germplasm for resistance against chilli thrips and yellow mite. Journal of Research Punjab Agricultural University, 47(3), 143–144.

    Google Scholar 

  • Kimura, M. (1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16(2), 111–120.

    Article  CAS  PubMed  Google Scholar 

  • Kumar, V., Seal, D. R., Osborne, L. S., & McKenzie, C. L. (2014). Coupling scanning electron microscopy with DNA bar coding: A novel approach for thrips identification. Applied Entomology and Zoology, 49(3), 403–409.

    Article  CAS  Google Scholar 

  • Kumar, S., Stecher, G., Li, M., Knyaz, C., Tamura, K. (2018). MEGA X: Molecular evolutionary genetics analysis across computing platforms. Molecular Biology and Evolution, 35(6).

  • Lee, D. K., In, J., & Lee, S. (2015). Standard deviation and standard error of the mean. Korean Journal of Anesthesiology, 68(3), 220–223.

    Article  PubMed  PubMed Central  Google Scholar 

  • Lee, Y., Lee, W., Kanturski, M., Foottit, R. G., Akimoto, S. I., & Lee, S. (2017). Cryptic diversity of the subfamily Calaphidinae (Hemiptera: Aphididae) revealed by comprehensive DNA barcoding. PLoS ONE, 12(4), e0176582.

    Article  PubMed  PubMed Central  Google Scholar 

  • Librado, P., & Rozas, J. (2009). DnaSP v5: Software for comprehensive analysis of DNA polymorphism data. Bioinformatics Applications Note, 25(11), 1451–1452.

    CAS  Google Scholar 

  • Mound, L. A., & Azidah, A. A. (2009). Species of the genus Thrips (Thysanoptera) from Peninsular Malaysia, with a checklist of recorded Thripidae. Zootaxa, 2023(1), 55–68.

    Article  Google Scholar 

  • Mound, L. A., & Collins, D. W. (2000). A South East Asian pest species newly recorded from Europe: Thrips parvispinus (Thysanoptera: Thripidae), its confused identity and potential quarantine significance. European Journal of Entomology, 97, 197–200.

    Article  Google Scholar 

  • Mound, L. A., & Marullo, R. (1996). The Thrips of Central and South America: An introduction. Memoirs on Entomology International, 6, 1–488.

    Google Scholar 

  • Mound, L. A., & Masumoto, M. (2005). The genus Thrips (Thysanoptera, Thripidae) in Australia, New Caledonia and New Zealand. Zootaxa, 1020(1), 1–64.

    Article  Google Scholar 

  • MsangoSoko, K., Gandotra, S., Chandel, R. K., Sharma, K., Ramakrishinan, B., & Subramanian, S. (2020). Composition and diversity of gut bacteria associated with the eri silk moth, Samia ricini, (Lepidoptera: Saturniidae) as revealed by culture-dependent and metagenomics analysis. Journal of Microbiology and Biotechnology, 30(9), 1367–1378.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Murai, T., Watanabe, H., Toriumi, W., Adati, T., & Okajima, S. (2009). Damage to vegetable crops by Thrips parvispinus Karny (Thysanoptera: Thripidae) and preliminary studies on biology and control. Journal of Insect Science, 10, 166.

    Google Scholar 

  • Perring, T. M. (2001). The Bemisia tabaci species complex. Crop Protection, 20(9), 725–737.

    Article  Google Scholar 

  • Rachana, R. R., Roselin, P., & Varatharajan, R. (2018). Report of invasive thrips species, Thrips parvispinus (Karny) (Thripidae: Thysanoptera) on Dahlia rosea (Asteraceae) in Karnataka. Pest Management in Horticultural Ecosystems, 24(2), 175–176.

    Google Scholar 

  • Rachana, R. R., Roselin, P., Amutha, M., Sireesha, K., & Reddy, G. N. (2022). Invasive pest, Thrips parvispinus (Karny) (Thysanoptera: Thripidae) - a looming threat to Indian agriculture. Current Science, 122(2), 211–213.

    Article  Google Scholar 

  • Riley, D. G., Joseph, S. V., Srinivasan, R., & Diffie, S. (2011). Thrips vectors of tospoviruses. Journal of Integrated Pest Management, 2(1), 1–10.

    Article  Google Scholar 

  • Roderick, G. K. (2004). Tracing the origin of pests and natural enemies: genetic and statistical approaches. In: Lester EE, Sforza R, Mateille T (Eds.), Genetics, evolution and biological control CABI Cambridge (pp. 97–112).

  • Roselin, P., Sharma, K., & Rachana, R. R. (2021). Diversity of floral thrips from Western Ghats of Karnataka. Indian Journal of Entomology, 83(3), 407–410.

    Article  Google Scholar 

  • Rugman-Jones, P. F., Hoddle, M. S., Mound, L. A., & Stouthamer, R. (2006). Molecular identification key for pest species of Scirtothrips (Thysanoptera: Thripidae). Journal of Economic Entomology, 99(5), 1813–1819.

    Article  CAS  PubMed  Google Scholar 

  • Rugman-Jones, P. F., Hoddle, M. S., & Stouthamer, R. (2010). Nuclear-mitochondrial barcoding exposes the global pest western flower thrips (Thysanoptera: Thripidae) as two sympatric cryptic species in its native California. Journal of Economic Entomology, 103(3), 877–886.

    Article  PubMed  Google Scholar 

  • Shao, R., & Barker, S. C. (2003). The highly rearranged mitochondrial genome of the plague thrips, Thrips imaginis (Insecta: Thysanoptera): convergence of two novel gene boundaries and an extraordinary arrangement of rRNA genes. Molecular Biology and Evolution, 20(3).

  • Sireesha, K., Prasanna, B. V. L., Vijaya Lakshmi, T., & Reddy, R. V. S. K. (2021). Outbreak of invasive thrips species Thrips parvispinus in chilli growing areas of Andhra Pradesh. Insect Environment, 24(4), 514–519.

    Google Scholar 

  • Sridhar, V., Chandana, P. S., & Rachana, R. (2021). Global status of Thrips Parvispinus (Karny, 1922), an invasive pest. The Journal of Research PJTSAU, 49(4), 1–11.

    Google Scholar 

  • Tajima, F. (1989). Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics, 123(3), 585–595.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • ThripsWiki (2022). ThripsWiki - providing information on the World's thrips.

  • Toda, S., & Murai, T. (2007). Phylogenetic analysis based on mitochondrial COI gene sequences in Thrips tabaci Lindeman (Thysanoptera: Thripidae) in relation to reproductive forms and geographic distribution. Applied Entomology and Zoology, 42(2), 309–316.

    Article  CAS  Google Scholar 

  • Tyagi, K., Kumar, V., Singha, D., & Chakraborty, R. (2015). Morphological and DNA barcoding evidence for invasive pest thrips, Thrips parvispinus (Thripidae: Thysanoptera), newly recorded from India. Journal of Insect Science, 15(1), 10.

    Article  Google Scholar 

  • Tyagi, K., Kumar, V., Singha, D., Chandra, K., Laskar, B. A., Kundu, S., Chakraborty, R., & Chatterjee, S. (2017). DNA Barcoding studies on Thrips in India: Cryptic species and Species complexes. Scientific Reports, 7(1), 1–14.

    Article  Google Scholar 

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Acknowledgements

We thank the officials of Directorate of Plant Protection Quarantine and Storage, Government of India; Andhra Pradesh State Department of Horticulture; Telangana State Department of Horticulture and chilli growing farmers of Andhra Pradesh and Telangana states for their arrangements and assistance during the field survey. We also thank Assistant Director General (Plant Protection & Biosafety), Indian Council of Agricultural Research for his constant guidance and support in carrying out the present investigation.

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Authors and Affiliations

  1. ICAR-National Research Centre for Integrated Pest Management, New Delhi, 110012, Delhi, India

    Kerur Vishwanath Raghavendra, Surender Kumar Singh & Subhash Chander

  2. Division of Entomology, ICAR- Indian Agricultural Research Institute, New Delhi, 110012, Delhi, India

    Kurubarahalli Bhoothanna Ramesh

  3. Division of Germplasm Collection and Characterization, ICAR-National Bureau of Agricultural Insect Resources, Bengaluru, 560024, India

    Rajan Remani Rachana

  4. Division of Molecular Biology and Biotechnology, ICAR- Indian Agricultural Research Institute, New Delhi, 110012, Delhi, India

    Chowdanayak Mahendra

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  1. Kerur Vishwanath Raghavendra
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All authors contributed to the study. Kerur Vishwanath Raghavendra, Rajan Remani Rachana, Kurubarahalli Bhoothanna Ramesh, Chowdanayak Mahendra: conceptualization, formal analysis and scientific investigation, original draft preparation. Kerur Vishwanath Raghavendra, Subhash Chander, Surender Kumar Singh, Kurubarahalli Bhoothanna Ramesh: critically edited the manuscript. All authors read and approved the final manuscript.

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Correspondence to Kerur Vishwanath Raghavendra or Kurubarahalli Bhoothanna Ramesh.

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Raghavendra, K.V., Ramesh, K.B., Rachana, R.R. et al. Genetic diversity analysis of severely infesting invasive thrips, Thrips parvispinus (Karny) in chilli (Capsicum annuum L.) in India. Phytoparasitica 51, 227–239 (2023). https://doi.org/10.1007/s12600-023-01054-1

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