DNA Barcodes for thrips species and development of multiplex real-time PCR assay for Frankliniella occidentalis Pergande, Frankliniella panamensis Hood, Thrips palmi Karny and Thrips tabaci Lindeman (Thysanoptera: Thripidae)

References

• Lims V7. laboratory information management system (LIMS), an electronic internal database at plant health & environment laboratory (PHEL), ministry for primary industries, Auckland, New Zealand.
   Google Scholar
• Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. 1990. Basic local alignment search tool. Journal of Molecular Biology 215:403–410.
   PubMed Web of Science ®Google Scholar
• Barba-Alvarado AA, Jaén-Sanjur JN, Galipienso L, Elvira-González L, Rubio L, Herrera-Vasquez JA. 2020. Molecular identification, occurrence and distribution of Thrips palmi, Frankliniella intonsa and Frankliniella cephalica (Thysanoptera: Thripidae) on cucurbit crops in Panama. Journal of Plant Protection Research 60:68–76.
   Web of Science ®Google Scholar
• Billington C, Abeysekera G, Scholes P, Pickering P, Pang L. 2021. Utility of a field deployable qPCR instrument for analyzing freshwater quality. Agrosystems, Geosciences & Environment 4:e20223. doi:10.1002/agg2.20223.
   Google Scholar
• Bisevac L. 1997. A New method for mounting Thrips (Thysanoptera) on slides. Australian Journal of Entomology 36:220–220.
   Google Scholar
• Boateng CO, Schwartz HF, Havey MJ, Otto K. 2014. Evaluation of onion germplasm for resistance to Iris yellow spot (Iris yellow spot virus) and onion thrips, Thrips tabaci. Southwestern Entomologist 39:237–260.
   Web of Science ®Google Scholar
• Brunner PC, Fleming C, Frey JE. 2002. A molecular identification key for economically important thrips species (Thysanoptera: Thripidae) using direct sequencing and a PCR-RFLP-based approach. Agricultural and Forest Entomology 4:127–136.
   Web of Science ®Google Scholar
• Brunner PC, Frey JE. 2010. Habitat-specific population structure in native western flower thrips Frankliniella occidentalis (Insecta, Thysanoptera). Journal of Evolutionary Biology 23:797–804.
   PubMed Web of Science ®Google Scholar
• Bustin SA, Benes V, Garson JA, Hellemans J, Huggett J, Kubista M, Mueller R, Nolan T, Pfaffl MW, Shipley GL, et al. 2009. The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments. Clinical Chemistry 55:611–622.
   PubMed Web of Science ®Google Scholar
• EPPO. 2021a. EPPO A1 List of pests recommended for regulation as quarantine pests. Retrieved March 12, 2021 from: https://www.eppo.int/ACTIVITIES/plant_quarantine/A1_list.
   Google Scholar
• EPPO. 2021b. EPPO A2 List of pests recommended for regulation as quarantine pests. Retrieved March 12, 2021 from: https://www.eppo.int/ACTIVITIES/plant_quarantine/A2_list.
   Google Scholar
• Farkas P, György Z, Tóth A, Sojnóczki A, Fail J. 2020. A simple molecular identification method of the Thrips tabaci (Thysanoptera: Thripidae) cryptic species complex. Bulletin of Entomological Research 110:397–405.
   PubMed Web of Science ®Google Scholar
• Felsenstein J. 1985. Confidence limits on phylogenies: An approach using the bootstrap. Evolution 39:783–791. doi:10.2307/2408678.
   PubMed Web of Science ®Google Scholar
• Folmer O, Black M, Hoeh W, Lutz R, Vrijenhoek R. 1994. DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Molecular Marine Biological Biotechnology 3:294–299.
   PubMedGoogle Scholar
• Ghosh A, Basavaraj YB, Jangra S, Das A. 2019. Exposure to watermelon bud necrosis virus and groundnut bud necrosis virus alters the life history traits of their vector, Thrips palmi (Thysanoptera: Thripidae). Archives of Virology 164:2799–2804.
   PubMed Web of Science ®Google Scholar
• Ghosh A, Dey D, Timmanna, Basavaraj, Mandal B, Jain RK. 2017. Thrips as the vectors of tospoviruses in Indian agriculture. In: A century of plant virology in India (eds B Mandal, GP Rao, VK Baranwal, & RK Jain) pp. 537–561. Springer, Berlin.
   Google Scholar
• Ghosh A, Jangra S, Dietzgen RG, Yeh W-B. 2021. Frontiers approaches to the diagnosis of thrips (thysanoptera): How effective Are the molecular and electronic detection platforms? Insects 12:Article no. 920.
   PubMed Web of Science ®Google Scholar
• Gunawardana DN, Li D, Masumoto M, Mound LA, O’Donnell CA, Skarlinsky TL. 2017. Resolving the confused identity of Frankliniella panamensis (Thysanoptera: Thripidae). Zootaxa 4323:125–131.
   Web of Science ®Google Scholar
• Huang KS, Lee SE, Yeh Y, Shen GS, Mei E, Chang CM. 2010. Taqman real-time quantitative PCR for identification of western flower thrip (Frankliniella occidentalis) for plant quarantine. Biology Letters 6:555–557.
   PubMed Web of Science ®Google Scholar
• Iftikhar R, Ashfaq M, Rasool A, Hebert PDN. 2016. DNA barcode analysis of Thrips (thysanoptera). Diversity in Pakistan Reveals Cryptic Species Complexes. PLoS One 11:e0146014.
   PubMed Web of Science ®Google Scholar
• Jangra S, Mittal A, Dhall H, Jain RK, Ghosh A. 2020. A multiplex PCR assay for rapid identification of major tospovirus vectors reported in India. BMC Genomics 21:170-178.
   Web of Science ®Google Scholar
• Kobayashi K, Hasegawa E. 2012. Discrimination of reproductive forms of thrips tabaci (thysanoptera: thripidae) by PCR With sequence specific primers. Journal of Economic Entomology 105:555–559.
   PubMed Web of Science ®Google Scholar
• Kox L, Van Den Beld H, Zijlstra C, Vierbergen G. 2005. Real-time PCR assay for the identification of Thrips palmi. EPPO Bulletin 35:141–148.
   Google Scholar
• Lewis T. 1997. Thrips as crop pests. Wallingford: CAB International.
   Google Scholar
• Li D, Fan Q-H, Waite DW, Gunawardana D, George S, Kumarasinghe L. 2015. Development and validation of a real-time PCR assay for rapid detection of two-spotted spider mite, Tetranychus urticae (Acari: Tetranychidae). PLoS One 10:e0131887.
   PubMed Web of Science ®Google Scholar
• Li D, Waite DW, Gunawardana DN, McCarthy B, Anderson D, Flynn A, George S. 2019. DNA barcoding and real-time PCR detection of Bactrocera xanthodes (Tephritidae: Diptera) complex. Bulletin of Entomological Research 109:102–110.
   PubMed Web of Science ®Google Scholar
• Moritz G, Delker C, Paulsen M, Mound L, Burgermeister W. 2000. Modern methods for identification of Thysanoptera. EPPO Bulletin 30:591–593.
   Google Scholar
• Mound L. 1997. Biological diversity. In: Thrips as crop pests (ed. T. Lewis) pp. 197–215. CAB International. Wallingford.
   Google Scholar
• Mound LA, Gunawardana DN, Li D. 2017a. A new species of Stenchaetothrips (Thysanoptera, Thripidae) from Bamboo, based on morphological and molecular data. Zootaxa 4323:295–260.
   Web of Science ®Google Scholar
• Mound LA, Kibby G. 1998. Thysanoptera: an identification guide. CAB International, Wallingford.
   Google Scholar
• Mound LA, Nielsen M, Hastings A. 2017b. Thysanoptera aotearoa—thrips of New Zealand. Queensland, Australia: Lucidcentral.org, Identic Pty Ltd.
   Google Scholar
• Nakahara S, Minoura K. 2015. Identification of four thrips species (thysanoptera: thripidae) by multiplex polymerase chain reaction. Research Bulletin of The Plant Protection Service Japan 51:37–42.
   Google Scholar
• NAPPO. 2020. Frankliniella panamensis. Retrieved 12 March 2020 from https://gd.eppo.int/taxon/FRANPN/categorization.
   Google Scholar
• OligoAnalyzer. 2012. Primerquest® program. Coralville, USA: DT.
   Google Scholar
• Palmer JM, Mound LA, Du Heaume GJ. 1989. CIE guides to insects of importance to man. 2. Thysanoptera. CAB International, Wallingford.
   Google Scholar
• Pappu HR, Jones RA, Jain RK. 2009. Global status of tospovirus epidemics in diverse cropping systems: successes achieved and challenges ahead. Virus Research 141:219–236.
   PubMed Web of Science ®Google Scholar
• Przybylska A, Fiedler Ż, Frąckowiak P, Obrępalska-Stęplowska A. 2018. Real-time PCR assay for distinguishing Frankliniella occidentalis and Thrips palmi Arnika Przybylska, Żaneta Fiedler, Aleksandra Obrępalska-Stęplowska. Bulletin of Entomological Research 108:413–420.
   PubMed Web of Science ®Google Scholar
• Przybylska A, Fiedler Ż, Kucharczyk H, Obrępalska-Stęplowska A. 2015. Detection of the quarantine species Thrips palmi by loop-mediated isothermal amplification. PLoS One 10:e0122033–e0122033.
   PubMed Web of Science ®Google Scholar
• Ratnasingham S, Hebert PDN. 2007. Barcoding: bold: The barcode of life data system http://www.barcodinglife.org. Molecular Ecology Notes 7:355–364.
   PubMed Web of Science ®Google Scholar
• Reitz SR, Gao Y, Kirk WDJ, Hoddle MS, Leiss KA, Funderburk JE. 2020. Invasion biology, ecology, and management of western flower thrips. Annual Review of Entomology 65:17–37.
   PubMed Web of Science ®Google Scholar
• Riley DG, Joseph SV, Srinivasan R, Diffie S. 2011. Thrips vectors of tospoviruses. Journal of Integrated Pest Management 2:I1–I10.
   Google Scholar
• Rotenberg D, Jacobson A, Schneweis D, Whitfield A. 2015. Thrips transmission of tospoviruses. Current Opinion in Virology 15:80–89.
   PubMed Web of Science ®Google Scholar
• Rugman-Jones P, Hoddle M, 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 103:877–886.
   PubMed Web of Science ®Google Scholar
• Tamura K, Nei M, Kumar S. 2004. Prospects for inferring very large phylogenies by using the neighbor-joining method. Proceedings of the National Academy of Sciences 101:11030–11035.
   PubMed Web of Science ®Google Scholar
• Tamura K, Stecher G, Kumar S. 2021. Mega11: molecular evolutionary genetics analysis version 11. Molecular Biology and Evolution 38:3022–3027. doi:10.1093/molbev/msab120.
   PubMed Web of Science ®Google Scholar
• Team R. 2020. Rstudio: integrated development for R. RStudio. MA URL, PBC, Boston.
   Google Scholar
• Toda S, Komazaki S. 2002. Identification of thrips species (Thysanoptera: Thripidae) on Japanese fruit trees by polymerase chain reaction and restriction fragment length polymorphism of the ribosomal ITS2 region. Bulletin of Entomological Research 92:359–363.
   PubMed Web of Science ®Google Scholar
• Trdan S, Andjus L, Raspudić E, Kač M. 2005. Distribution of Aeolothrips intermedius Bagnall (Thysanoptera: Aeolothripidae) and its potential prey Thysanoptera species on different cultivated host plants. Journal of Pest Science 78:217–226.
   Web of Science ®Google Scholar
• Trdan S, Valič N, Žnidarčič D. 2007. Field efficacy of deltamethrin in reducing damage caused by Thrips tabaci Lindeman (Thysanoptera: Thripidae) on early white cabbage. Journal of Pest Science 80:217–223.
   Web of Science ®Google Scholar
• Vierbergen G, Kucharczyk H, Kirk WDJ. 2010. A key to the second instar larvae of the Thripidae of the Western Palaearctic region (Thysanoptera). Tijdschrift Voor Entomologie 153:99–160.
   Google Scholar
• Walsh K, Boonham N, Barker I, Collins DW. 2005. Development of a sequence-specific real-time PCR to the melon thrips Thrips palmi (Thysan., Thripidae). Journal of Applied Entomology 129:272–279.
   Web of Science ®Google Scholar
• Wang H, Kennedy GG, Reay-Jones FPF, Reisig DD, Toews MD, Roberts PM, Herbert DA Jr, Taylor S, Jacobson AL, Greene JK. 2018. Molecular identification of thrips species infesting cotton in the southeastern United States. Journal of Economic Entomology 111:892–898.
   PubMed Web of Science ®Google Scholar
• Whitfield AE, Ullman DE, German TL. 2005. Tospovirus-thrips interactions. Annual Review of Phytopathology 43:459–489.
   PubMed Web of Science ®Google Scholar
• Wijkamp I, Almarza N, Goldbach R, Peters D. 1995. Distinct levels of specificity in thrips transmission of tospoviruses. Phytopathology 85:1069–1074.
   Web of Science ®Google Scholar
• Yeh WB, Tseng MJ, Chang NT, Wu SY, Tsai YS. 2014. Development of species-specific primers for agronomical thrips and multiplex assay for quarantine identification of western flower thrips. Journal of Economic Entomology 107:1728–1735.
   PubMed Web of Science ®Google Scholar
• Yeh WB, Tseng MJ, Chang NT, Wu SY, Tsai YS. 2015. Agronomically important thrips: development of species-specific primers in multiplex PCR and microarray assay using internal transcribed spacer 1 (ITS1) sequences for identification. Bulletin of Entomological Research 105:52–59.
   PubMed Web of Science ®Google Scholar
• Zur Strassen R. 2003. Die terebranten thysanopteren Europas und des mittelmeer-gebietes [The Terebrant Thysanoptera of Europe and the Mediterranean]. Keltern: Goecke & Evers.
   Google Scholar