Abstract
The family Tetranychidae includes many agriculturally important species known as spider mites. Their morphological identification is quite difficult due to the tiny size of their taxonomic characters and the requirement for high-level expertise. This may lead to pest misidentification and thus failure in pest management. DNA-based species identification seems to offer an alternative solution to overcome these issues. In the present study, two common molecular markers—Cytochrome oxidase subunit I (COI) and Internal transcribed spacer 2 (ITS2)—were used to identify 10 spider mite species from Turkey. Furthermore, genetic distances for several of them were assessed. Panonychus ulmi and Bryobia kissophila had the lowest (1.1%) and highest (4.5%) intra-specific genetic distances, respectively. In addition, integrative taxonomy allowed to identify Eotetranychus quercicola in Turkey as a new record. The sequences herein obtained will allow rapid species identification using molecular techniques and will contribute to resolve the phylogenetic history of spider mites.
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References
Altunç YE, Akyazı R (2020) Two New Records for Spider Mite Fauna of Turkey, Tetranychus kanzawai Kishida and Eotetranychus rubiphilus Reck (Trombidiformes: Tetranychidae). Turkish J Agric-Food Sci Technol. https://doi.org/10.24925/turjaf.v8i8.1598-1602.2387
Arabuli T, Negm MW, Matsuda T, Kitashima Y, Abramishvili T, Akimov IA, Zhovnerchuk OV, Popov SY, Gotoh T (2019) Morphological identification of Amphitetranychus species (Acari: Tetranychidae) with crossbreeding, esterase zymograms and DNA barcode data. PLoS ONE 14(9):e0221951. https://doi.org/10.1371/journal.pone.0221951
Auger P, Migeon A (2014) Three new species of Tetranychidae (Acari, Prostigmata) from the French Alps (South-Eastern France). Acarologia 54(1):15–37. https://doi.org/10.1051/acarologia/20142111
Auger P, Migeon A, Flechtmann CHW (2003) A new species of Eotetranychus from France (Acari, Prostigmata: Tetranychidae). Zootaxa 206(1):1–7
Ben-David T, Melamed S, Gerson U, Morin S (2007) ITS2 sequences as barcodes for identifying and analyzing spider mites (Acari: Tetranychidae). Exp Appl Acarol 41(3):169–181. https://doi.org/10.1007/s10493-007-9058-1
Carstens BC, Pelletier TA, Reid NM, Satler JD (2013) How to fail at species delimitation. Mol Ecol 22(17):4369–4383. https://doi.org/10.1111/mec.12413
Choi CW, Shim JK, Jung DO, Lee KY (2018) Genetic variation of the hawthorn spider mite Amphitetranychus viennensis (Acari: Tetranychidae) in Korea. Entomol Res 48(3):165–173. https://doi.org/10.1111/1748-5967.12255
Çobanoğlu S, Ueckermann EA, Kumral NA (2015) A new Tetranychus Dufour (Acari: Tetranychidae) associated with Solanaceae from Turkey. Turk J Zool 39(4):565–570. https://doi.org/10.3906/zoo-1406-17
Cruickshank RH (2002) Molecular markers for the phylogenetics of mites and ticks. Syst Appl Acarol 7(1):3–14. https://doi.org/10.11158/saa.7.1.1
de Mendonça RS, Navia D, Diniz IR, Auger P, Navajas M (2011) A critical review on some closely related species of Tetranychus sensu stricto (Acari: Tetranychidae) in the public DNA sequences databases. Exp Appl Acarol 55(1):1–23. https://doi.org/10.1007/s10493-011-9453-5
Delsuc F, Brinkmann H, Philippe H (2005) Phylogenomics and the reconstruction of the tree of life. Nat Rev Genet 6(5):361–375. https://doi.org/10.1038/nrg1603
Gadagkar SR, Rosenberg MS, Kumar S (2005) Inferring species phylogenies from multiple genes: concatenated sequence tree versus consensus gene tree. J Exp Zool 304(1):64–74. https://doi.org/10.1002/jez.b.21026
Hall T (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98
Hatzinikolis EN, Emmanouel NG (1991) Α Revision of the Genus Bryobia in Greece (Acari: Tetranychidae). Entomol Hell. 9:21–34. https://doi.org/10.12681/eh.13989
Hebert PD, Ratnasingham S, De Waard JR (2003) Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Proc R Soc b: Biol Sci 270(suppl_1):S96–S99. https://doi.org/10.1098/rsbl.2003.0025
Helle W, Sabelis MW (1985) Spider mites: their biology, natural enemies and control. Elsevier, Amsterdam
Hinomoto N, Tran DP, Pham AT, Le Ngoc TB, Tajima R, Ohashi K, Osakabe M, Takafuji A (2007) Identification of spider mites (Acari: Tetranychidae) by DNA sequences: a case study in Northern Vietnam. Int J Acarology 33(1):53–60. https://doi.org/10.1080/01647950708684501
İnak E, Alpkent YN, Çobanoğlu S, Dermauw W, Van Leeuwen T (2019) Resistance incidence and presence of resistance mutations in populations of Tetranychus urticae from vegetable crops in Turkey. Exp Appl Acarol 78(3):343–360. https://doi.org/10.1007/s10493-019-00398-w
İnak E, Çobanoğlu S, Sade E, Tixier MS (2020) Molecular characterization of phytoseiid mites in Turkey based on the internal transcribed spacer (ITS) region, with a new record for the country. Exp Appl Acarol 81:201–213. https://doi.org/10.1007/s10493-020-00504-3
Jeppson LR, Keifer HH, Baker EW (1975) Mites injurious to economic plants. Univ of California Press, California
Katoh K, Rozewicki J, Yamada KD (2019) MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization. Brief Bioinformatics 20(4):1160–1166. https://doi.org/10.1093/bib/bbx108
Koetschan C, Foerster F, Keller A, Schleicher T, Ruderisch B, Schwarz R, Müller T, Wolf M, Schultz J (2010) The ITS2 Database III—sequences and structures for phylogeny. Nucleic Acids Res 38(suppl_1):D275–D279. https://doi.org/10.1093/nar/gkp966
Kumar S, Stecher G, Li M, Knyaz C, Tamura K (2018) MEGA X: molecular evolutionary genetics analysis across computing platforms. Mol Biol Evol 35(6):1547–1549. https://doi.org/10.1093/molbev/msy096
Matsuda T, Fukumoto C, Hinomoto N, Gotoh T (2013) DNA-based identification of spider mites: molecular evidence for cryptic species of the genus Tetranychus (Acari: Tetranychidae). J Econ Entomol 106(1):463–472. https://doi.org/10.1603/EC12328
Matsuda T, Morishita M, Hinomoto N, Gotoh T (2014) Phylogenetic analysis of the spider mite sub-family Tetranychinae (Acari: Tetranychidae) based on the mitochondrial COI gene and the 18S and the 5′ end of the 28S rRNA genes indicates that several genera are polyphyletic. PLoS ONE 9(10):e108672. https://doi.org/10.1371/journal.pone.0108672
Matsuda T, Kozaki T, Ishii K, Gotoh T (2018) Phylogeny of the spider mite sub-family Tetranychinae (Acari: Tetranychidae) inferred from RNA-Seq data. PLoS ONE 13(9):e0203136. https://doi.org/10.1371/journal.pone.0203136
Migeon A, Dorkeld F (2022) Spider Mites Web: a comprehensive database for the Tetranychidae. Available from . Accessed 21 February 2022 http://www1.montpellier.inra.fr/CBGP/spmweb
Navajas M, Boursot P (2003) Nuclear ribosomal DNA monophyly versus mitochondrial DNA polyphyly in two closely related mite species: the influence of life history and molecular drive. Proc. Royal Soc B 270(suppl_1):S124–S127. https://doi.org/10.1098/rsbl.2003.0034
Navajas M, Fenton B (2000) The application of molecular markers in the study of diversity in acarology: a review. Exp Appl Acarol 24(10):751–774. https://doi.org/10.1023/A:1006497906793
Navajas M, Cotton D, Kreiter S, Gutierrez J (1992) Molecular approach in spider mites (Acari: Tetranychidae): preliminary data on ribosomal DNA sequences. Exp Appl Acarol 15(4):211–218. https://doi.org/10.1007/BF01246563
Navajas M, Lagnel J, Gutierrez J, Boursot P (1998) Species-wide homogeneity of nuclear ribosomal ITS2 sequences in the spider mite Tetranychus urticae contrasts with extensive mitochondrial COI polymorphism. Heredity 80(6):742–752. https://doi.org/10.1046/j.1365-2540.1998.00349.x
Navajas M, Gutierrez J, Lagnel J, Fauvel G, Gotoh T (1999) DNA sequences and cross-breeding experiments in the hawthorn spider mite Amphitetranychus viennensis reveal high genetic differentiation between Japanese and French populations. Entomol Exp Appl 90(2):113–122. https://doi.org/10.1046/j.1570-7458.1999.00429.x
Pritchard AE, Baker EW (1955) A revision of the spider mite family Tetranychidae. Memoirs Series, San Francisco, Pacific Coast Entomological Society, California
Ros VI, Breeuwer JA (2007) Spider mite (Acari: Tetranychidae) mitochondrial COI phylogeny reviewed: host plant relationships, phylogeography, reproductive parasites and barcoding. Exp Appl Acarol 42(4):239–262. https://doi.org/10.1007/s10493-007-9092-z
Ros VI, Breeuwer JA, Menken SB (2008) Origins of asexuality in Bryobiamites (Acari: Tetranychidae). BMC Evol Biol 8:153. https://doi.org/10.1186/1471-2148-8-153
Schultz J, Wolf M (2009) ITS2 sequence–structure analysis in phylogenetics: a how-to manual for molecular systematics. Mol Phylogenet Evol 52(2):520–523. https://doi.org/10.1016/j.ympev.2009.01.008
Seeman OD, Beard JJ (2011) Identification of exotic pest and Australian native and naturalised species of Tetranychus (Acari: Tetranychidae). Zootaxa 2961(1):1–72. https://doi.org/10.11646/zootaxa.2961.1.1
Tamura K (1992) Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G+C-content biases. Mol Biol Evol 9(4):678–687. https://doi.org/10.1093/oxfordjournals.molbev.a040752
Van Leeuwen T, Vontas J, Tsagkarakou A, Tirry L (2009) Mechanisms of acaricide resistance in the two-spotted spider mite Tetranychus urticae. Ishaaya I Horowitz AR Biorational control of arthropod pests. Springer, Dordrecht, pp 347–393
Van Leeuwen T, Vontas J, Tsagkarakou A, Dermauw W, Tirry L (2010) Acaricide resistance mechanisms in the two-spotted spider mite Tetranychus urticae and other important Acari: a review. Insect Biochem Mol 40(8):563–572. https://doi.org/10.1016/j.ibmb.2010.05.008
Yao H, Song J, Liu C, Luo K, Han J, Li Y, Pang X, Xu H, Zhu Y, Xiao P, Chen S (2010) Use of ITS2 region as the universal DNA barcode for plants and animals. PLoS ONE 5(10):e13102. https://doi.org/10.1371/journal.pone.0013102
Zhang ZQ (2003) Mites of greenhouses: identification, biology and control. Cabi, UK
Acknowledgements
The authors would like to thank to everyone who provides plant samples. This study is a part of the PhD thesis of first author.
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This research was supported by Ankara University Scientific Research Projects Coordination Unit. Project Number 19L0447009, 2021.
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Eİ and SÇ: conceived the ideas. Eİ: performed the experiments. All the authors analysed the data. Eİ, PA and AM: wrote the main manuscript text. All authors read and approved the final manuscript.
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İnak, E., Çobanoğlu, S., Auger, P. et al. Molecular identification and phylogenetic analysis of spider mites (Prostigmata: Tetranychidae) of Turkey. Exp Appl Acarol 87, 195–205 (2022). https://doi.org/10.1007/s10493-022-00728-5
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DOI: https://doi.org/10.1007/s10493-022-00728-5