Research Article
BibTex RIS Cite

Characterization and taxonomic utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae)

Year 2022, Volume: 46 Issue: 1, 13 - 23, 01.03.2022
https://doi.org/10.16970/entoted.1018061

Abstract

The widespread use of ITS2 as a potential marker in insects has accelerated species-level phylogenetic studies. Reliable and quality data can be obtained thanks to the features such as rapid evolution and secondary structure of this marker. This paper presents the phylogenetic relationship among 36 individuals of Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae) collected between 2002 and 2018 to obtain the first data on ITS2 secondary structure. Aligned of ITS2 data were analyzed by application of maximum likelihood method to reveal phylogenetic relationship among the specimens. Also, the structural properties, length variation and presence of compensatory base changes make the ITS2 useful marker in determination of species boundaries of closely related species. Four species (Dolerus triplicatus (Klug, 1818), Dolerus germanicus (Fabricius, 1775), Dolerus puncticollis Thomson, 1871 and Dolerus nigratus (Müller, 1776) and two putative species (Dolerus spp. 1 and 2) were determined from 36 individuals belonging to Dolerus.

Supporting Institution

TÜBİTAK (The Scientific and Technological Research Council of Turkey)

Project Number

113Z753

Thanks

This study was financially supported by the TÜBITAK (The Scientific and Technological Research Council of Turkey) via a research project with grant number 113Z753. The members of Cumhuriyet University Evolutionary Bioinformatics Research Group (EBRG) are thanked for their contributions in bioinformatic work. Mehmet Gülmez is supported by the Council of Higher Education (CoHE) of Turkey with 100/2000 PhD Scholarship.

References

  • Aljanabi, S. M. & I. Martinez, 1997. Universal and rapid salt-extraction of high-quality genomic DNA for PCR-based techniques. Nucleic Acids Research, 25 (22): 4692-4693.
  • Ankenbrand, M. J., A. Keller, M. Wolf, J. Schultz & F. Förster, 2015. ITS2 database V: twice as much. Molecular Biology & Evolution, 32 (11): 3030-3032.
  • Barker, A. M., 1998. The identification of larvae of eight graminivorous species of the sawfly genus Dolerus Panzer 1801 (Hymenoptera: Tenthredinidae) regularly found in grass and cereal fields in southern England. Journal of Natural History, 32 (8): 1181-1215.
  • Barker, A. M., N. J., Brown & C. J. M. Reynolds 1999. Do host-plant requirements and mortality from soil cultivation determine the distribution of graminivorous sawflies on farmland? Journal of Applied Ecology, 36 (2): 271-282.
  • Budak, M., M. Güler, E. M. Korkmaz, S. H. Örgen & H. H. Başıbüyük, 2016. The characterisation and taxonomic utility of ITS2 in Tenthredopsis Costa, 1859 (Tenthredinidae: Hymenoptera) with some new records from Turkey. Biochemical Systematics & Ecology, 66: 76-85.
  • Caisová L., B. Marin & M. Melkonian, 2011. A close-up view on ITS2 evolution and speciation-a case study in the Ulvophyceae (Chlorophyta, Viridiplantae). BMC Evolutionary Biology, 11 (1): 1-24.
  • Caisová, L., B. Marin & M. A. Melkonian, 2013. A consensus secondary structure of ITS2 in the Chlorophyta identified by phylogenetic reconstruction. Protist, 164 (4): 482-496.
  • Caisová, L. & M. Melkonian, 2014. Evolution of helix formation in the ribosomal internal transcribed spacer 2 (ITS2) and its significance for RNA secondary structures. Journal of Molecular Evolution, 78 (6): 324-337.
  • Çalmaşur, Ö. & H. Özbek, 2004a. A contribution to the knowledge of the Tenthredinidae (Symphyta, Hymenoptera) Fauna of Turkey Part I: The Subfamily Tenthredininae. Turkish Journal of Zoology, 28 (1): 37-54.
  • Çalmaşur, Ö. & H. Özbek, 2004b. Contribution to the knowledge of Tenthredinidae (Symphyta, Hymenoptera) fauna of Turkey Part II: Subfamilies Blennocampinae, Dolerinae, Nematinae and Selandrinae. Turkish Journal of Zoology, 28 (1): 55-71.
  • Çalmaşur, Ö., 2020. New records and some new distribution data for the Turkish Nematinae (Hymenoptera: Symphyta: Tenthredinidae) fauna. Turkish Journal of Entomology, 44 (3): 413-422.
  • Coleman, A. W., 2003. ITS2 is a double-edged tool for eukaryote evolutionary comparisons. Trends in Genetics, 19 (7): 370-375.
  • Coleman, A. W., 2007. Pan-eukaryote ITS2 homologies revealed by RNA secondary structure. Nucleic Acids Research, 35 (10): 3322-3329.
  • Coleman, A. W., 2009. Is there a molecular key to the level of “biological species” in eukaryotes? A DNA guide. Molecular Phylogenetics & Evolution, 50 (1): 197-203.
  • Coleman, A. W., 2015. Nuclear rRNA transcript processing versus internal transcribed spacer secondary structure. Trends in Genetics, 31 (3): 157-163.
  • Darty, K., A. Denise & Y. Ponty, 2009. VARNA: interactive drawing and editing of the RNA secondary structure. Bioinformatics, 25 (15): 1974-1975.
  • Dover, G., 1982. Molecular drive: a cohesive mode of species evolution. Nature, 299: 111-117.
  • Fagan-Jeffries, E. P., S. J. B. Cooper, T. M. Bradford & A. D. Austin, 2019. Intragenomic internal transcribed spacer 2 variation in a genus of parasitoid wasps (Hymenoptera: Braconidae): implications for accurate species delimitation and phylogenetic analysis, Insect Molecular Biology, 28 (4): 485-498.
  • Goulet, H., 1986. The genera and species of the Nearctic Dolerini (Symphyta: Tenthredinidae: Selandriinae): classification and phylogeny. The Memoirs of the Entomological Society of Canada, 118 (S135): 5-208.
  • Gutell, R. R., N. Larsen & C. R. Woese, 1994. Lessons from an evolving rRNA: 16S and 23S rRNA structures from a comparative perspective. Microbiological Reviews, 58 (1): 10-26.
  • Haris, A., 1995. Further data on the food-choice of wheat-sawflies (Dolerus spp., Hymenoptera, Tenthredinidae). Acta Phytopathologica et Entomologica Hungarica, 30 (1): 255-264.
  • Haris, A., 2000. Study on the Palaearctic Dolerus Panzer, 1801 species (Hymenoptera: Tenthredinidae). Folia Entomologica Hungarica, 61 (1): 95-148.
  • Heidemaa, M., 2004. Systematic Studies on Sawflies of the Genera Dolerus, Empria and Caliroa (Hymenoptera: Tenthredinidae). University of Tartu, Institute of Zoology and Hydrobiology, Faculty of Biology and Geography, (Unpublished) Phd Thesis, Estonia, 162 pp.
  • Hong, J. H., C. S. Oh, M. Seo & D. H. Shin, 2019. Analysis of COI and ITS2 Regions of DNA Obtained from Paragonimus westermani Eggs in Ancient Coprolites on Joseon Dynasty Mummies. Memorias do Instituto Oswaldo Cruz, 114 pp.
  • Ji, Y. J., D. X. Zhang & L. J. He, 2003. Evolutionary conservation and versatility of a new set of primers for amplifying the ribosomal internal transcribed spacer regions in insects and other invertebrates. Molecular Ecology Notes, 3 (4): 581-585.
  • Jørgensen, A., J. R. Stothard, H. Madsen, A. Nalugwa, S. Nyakaana & D. Rollinson, 2013. The ITS2 of the genus Bulinus: novel secondary structure among freshwater snails and potential new taxonomic markers. Acta Tropica, 128 (2): 218-225.
  • Katılmış, Y. & S. Kıyak, 2015. A little-known species Pontania proxima (Serville, 1823) (Hymenoptera: Symphyta: Tenthredinidae) from Turkey. Munis Entomology & Zoology, 10 (1): 196-198.
  • Kearse, M., R. Moir, A. Wilson, S. Stones-Havas, M. Cheung, S. Sturrock, S. Buxton, A. Cooper, S. Markowitz, C. Duran, T. Thierer, B. Ashton, P. Meintjes & A. Drummond, 2012. Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics, 28 (12): 1647-1649.
  • Kitthawee, S., 2003. ITS2 sequence variations among members of Diachasmimorpha longicaudata complex (Hymenoptera: Braconidae) in Thailand. Journal of Asia-Pacific Entomology, 16 (2): 173-179.
  • Kumar, S., G. Stecher & K. Tamura, 2016. Molecular Biology & Evolution, 33 (7): 1870-1874.
  • Larkin, M., G. Blackshields, N. Brown, R. Chenna, P. McGettigan, H. McWilliam, F. Valentin, I. Wallace, A. Wilm, R. Lopez, J. Thompson, T. Gibson & D. Higgins, 2007. ClustalW and ClustalX version2. Bioinformatics, 23 (21): 2947-2948.
  • Leppänen, S. A., E. Altenhofer, A. D. Liston & T. Nyman, 2012. Phylogenetics and evolution of host-plant use in leafmining sawflies (Hymenoptera: Tenthredinidae: Heterarthrinae). Molecular Phylogenetics & Evolution, 64 (2): 331-341.
  • Liao, D., 1999. Concerted evolution: Molecular mechanism and biological implications. American Journal of Human Genetics, 64 (1): 24-30.
  • Malm, T. & T. Nyman, 2015. Phylogeny of the symphytan grade of Hymenoptera: new pieces into the old jigsaw (fly) puzzle. Cladistics, 31 (1): 1-17.
  • Mathews, D. H., J. Sabina, M. Zuker & D. H. Turner, 1999. Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. Journal of Molecular Biology, 28 (5): 911-940.
  • Müller, T., N. Philippi, T. Dandekar, J. Schultz & M. Wolf, 2007. Distinguishing species. Rna, 13 (9): 1469-1472.
  • Mullineux, T. & G. Hausner, 2009. Evolution of rDNA ITS1 and ITS2 sequences and RNA secondary structures within members of the fungal genera Grosmannia and Leptographium. Fungal Genetics Biology, 46 (11): 855-867.
  • Nelson, L. A., J. F. Wallman & M. Dowton, 2008. Identification of forensically important Chrysomya (Diptera: Calliphoridae) species using the second ribosomal internal transcribed spacer (ITS2). Forensic Science International, 177 (2-3): 238-247.
  • Niu, G., S. Jiang, Ö. Doğan, E. M. Korkmaz, M. Budak, D. Wu & M. Wei, 2021. Mitochondrial phylogenomics of Tenthredinidae (Hymenoptera: Tenthredinoidea) supports the monophyly of Megabelesesinae as a Subfamily. Insects, 12 (6): 495: 1-19.
  • Niu, G., E. M. Korkmaz, Ö. Doğan, Y. Zhang, M. N. Aydemir, M. Budak, S. Du, H. H. Başıbüyük & M. Wei, 2019. The first mitogenomes of the superfamily Pamphilioidea (Hymenoptera: Symphyta): Mitogenome architecture and phylogenetic inference. International Journal of Biological Macromolecules, 124: 185-199.
  • Pawłowska, J., G. Walther, M. Wilk, S. de Hoog & M. Wrzosek, 2013. The use of compensatory base change analysis of ITS2 as a tool in the phylogeny of Mucorales, illustrated by the Mucor circinelloides complex. Organisms Diversity & Evolution, 13 (4): 497-502.
  • Poczai, P., I. Varga & J. Hyvönen, 2015. Internal transcribed spacer (ITS) evolution in populations of the hyperparasitic European mistletoe pathogen fungus, Sphaeropsis visci (Botryosphaeriaceae): the utility of ITS2 secondary structures. Gene, 558 (1): 54-64.
  • Ponce-Gordo, F., F. Fonseca-Salamanca & R. A. Martínez-Díaz, 2011. Genetic heterogeneity in internal transcribed spacer genes of Balantidium coli (Litostomatea, Ciliophora), Protist, 162 (5): 774-794.
  • Prous, M., M. Heidemaa, S. Akihiko & V. Soon, 2011. Review of the sawfly genus Empria (Hymenoptera, Tenthredinidae) in Japan. ZooKeys, 150: 347-380.
  • R Core Team, 2014. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07-0, URL (Web page: http://www.R-project.org/)(Date accessed: July 2021).
  • Ruhl, M. W., M. Wolf & T. M. Jenkins, 2010. Compensatory base changes illuminate morphologically difficult taxonomy. Molecular Phylogenetics and Evolution, 54 (2): 664-669.
  • Salvi, D. & P. Mariottini, 2012. Molecular phylogenetics in 2D: ITS2 rRNA evolution and sequence-structure barcode from Veneridae to Bivalvia, Molecular Phylogenetics & Evolution, 65 (2): 792-798.
  • Schill, R. O., F. Förster, T. Dandekar & M. Wolf, 2010. Using compensatory base change analysis of internal transcribed spacer 2 secondary structures to identify three new species in Paramacrobiotus (Tardigrada). Organisms Diversity & Evolution, 10 (4): 287-296.
  • Schliep, K. P., 2011. Phangorn: phylogenetic analysis in R. Bioinformatics, 27 (4): 592-593.
  • Schulmeister, S., 2003. Simultaneous analysis of basal Hymenoptera (Insecta): introducing robust-choice sensitivity analysis. Biological Journal of the Linnean Society, 79 (2): 245-275.
  • Schwarzfeld, M. D. & F. A. Sperling, 2015. Comparison of five methods for delimitating species in Ophion Fabricius, a diverse genus of parasitoid wasps (Hymenoptera, Ichneumonidae). Molecular Phylogenetics & Evolution, 93: 234-248.
  • Seibel, P. N., T. Müller, T. Dandekar, J. Schultz & M. Wolf, 2006. 4SALE-a tool for synchronous RNA sequence and secondary structure alignment and editing. BMC bioinformatics, 7 (1): 1-7.
  • Taeger, A., A. D. Liston, M. Prous, E. K. Groll, T. Gehroldt & S. M. Blank, 2021. ECatSym – Electronic World Catalog of Symphyta (Insecta, Hymenoptera). Program version 5.0 (19 Dec 2018), data version 40 (23 Sep 2018). Senckenberg Deutsches Entomologisches Institut (SDEI). Müncheberg. (Web page: https://sdei.de/ecatsym/) (Date accessed: June 2021). (in Germany).
  • Tang, J., L. Toe & C. Back, 1996. Unnasch T.R., Intra-specific heterogeneity of the rDNA internal transcribed spacer in the Simulium damnosum (Diptera: Simuliidae) complex. Molecular Biology & Evolution, 13 (1): 244-252.
  • Torres-Suárez, O. L., 2014. Gorgonia mariae and Antillogorgia bipinnata populations inferred from compensatory base change analysis of the internal transcribed spacer 2. Molecular Phylogenetics and Evolution, 79: 240-248.
  • Uluar, O. & B. Çıplak, 2020. Evolution, characterization and phylogenetic utility of ITS2 gene in Orthoptera and some Polyneoptera: Highly variable at the order level and highly conserved at the species level. Zootaxa, 4780 (1): 54-76.
  • Vandivier, L. E., S. J. Anderson, S. W. Foley & B. D. Gregory, 2016. The conservation and function of RNA secondary structure in plants. Annual Review of Plant Biology, 67: 463-488.
  • Verma, C. & G. Mishra, 2020. Widespread inspection and comparative analysis of ITS secondary structure conservation and covariation of Coccinellidae. International Journal of Tropical Insect Science, 40 (3): 1-11.
  • Vilhelmsen, L., 2015. Morphological phylogenetics of the Tenthredinidae (Insecta: Hymenoptera). Invertebrate Systematics, 29 (2): 164-190.
  • Wagener, B., A. Reineke, B. Löhr & C. P. Zebitz, 2006. Phylogenetic study of Diadegma species (Hymenoptera: Ichneumonidae) inferred from analysis of mitochondrial and nuclear DNA sequences. Biological Control, 37 (2): 131-140.
  • Wolf, M., C. Koetschan & T. Müller, 2014. ITS2, 18S, 16S or any other RNA d simply aligning sequences and their individual secondary structures simultaneously by an automatic approach. Gene, 546 (3): 145-149.
  • Young, I. & A. W. Coleman, 2004. The advantages of the ITS2 region of the nuclear rDNA cistron for analysis of phylogenetic relationships of insects: A Drosophila example. Molecular Pylogenetics & Evolution, 30 (1): 236-242.
  • Zhao, L. L., S. J. Feng, J. Y. Tian, A. Z. Wei & T. X. Yang, 2018. Internal transcribed spacer 2 (ITS2) barcodes: A useful tool for identifying Chinese Zanthoxylum. Applications in Plant Sciences, 6 (6): 1-8.
  • Zuker, M., 2003. Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Research, 31 (13): 3406-3415.

Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae) cinsinde ITS2'nin karakterizasyonu ve taksonomik kullanımı

Year 2022, Volume: 46 Issue: 1, 13 - 23, 01.03.2022
https://doi.org/10.16970/entoted.1018061

Abstract

Böceklerde ITS2'nin moleküler belirteç olarak kullanılmasının yaygınlaşması, tür düzeyindeki filogeni çalışmalarına hız kazandırmıştır. Bu belirtecin hem hızlı evrime sahip olması hem de ikincil yapı oluşturması gibi özellikler sayesinde güvenilir ve kaliteli veriler elde edilebilir. Bu makalede, Dolerus Panzer, 1801 cinsine ait 2002-2018 yılları arasında toplanmış olan 36 bireyin (Hymenoptera: Tenthredinidae) aralarındaki filogenetik ilişkiyi ve ITS2 ikincil yapı özelliklerine ilişkin ilk verileri sunuyoruz. ITS2'nin hizalanmış verileri, örnekler arasındaki ilişkiyi görmek için maksimum likelihood yöntemi uygulanarak analiz edildi. Aynı zamanda ITS2'nin yapısal özellikleri, uzunluk polimorfizmi ve CBC'lerin olması, yakından ilişkili türlerin tür sınırlarının belirlenmesinde faydalıdır, Dolerus cinsine ait 36 bireyden, 4 tür (Dolerus triplicatus (Klug, 1818), Dolerus germanicus (Fabricus, 1775), Dolerus puncticollis Thomson, 1871 ve Dolerus nigratus (Müller, 1776) ve 2 olası tür (Dolerus spp. 1 ve 2) belirlenmiştir.

Project Number

113Z753

References

  • Aljanabi, S. M. & I. Martinez, 1997. Universal and rapid salt-extraction of high-quality genomic DNA for PCR-based techniques. Nucleic Acids Research, 25 (22): 4692-4693.
  • Ankenbrand, M. J., A. Keller, M. Wolf, J. Schultz & F. Förster, 2015. ITS2 database V: twice as much. Molecular Biology & Evolution, 32 (11): 3030-3032.
  • Barker, A. M., 1998. The identification of larvae of eight graminivorous species of the sawfly genus Dolerus Panzer 1801 (Hymenoptera: Tenthredinidae) regularly found in grass and cereal fields in southern England. Journal of Natural History, 32 (8): 1181-1215.
  • Barker, A. M., N. J., Brown & C. J. M. Reynolds 1999. Do host-plant requirements and mortality from soil cultivation determine the distribution of graminivorous sawflies on farmland? Journal of Applied Ecology, 36 (2): 271-282.
  • Budak, M., M. Güler, E. M. Korkmaz, S. H. Örgen & H. H. Başıbüyük, 2016. The characterisation and taxonomic utility of ITS2 in Tenthredopsis Costa, 1859 (Tenthredinidae: Hymenoptera) with some new records from Turkey. Biochemical Systematics & Ecology, 66: 76-85.
  • Caisová L., B. Marin & M. Melkonian, 2011. A close-up view on ITS2 evolution and speciation-a case study in the Ulvophyceae (Chlorophyta, Viridiplantae). BMC Evolutionary Biology, 11 (1): 1-24.
  • Caisová, L., B. Marin & M. A. Melkonian, 2013. A consensus secondary structure of ITS2 in the Chlorophyta identified by phylogenetic reconstruction. Protist, 164 (4): 482-496.
  • Caisová, L. & M. Melkonian, 2014. Evolution of helix formation in the ribosomal internal transcribed spacer 2 (ITS2) and its significance for RNA secondary structures. Journal of Molecular Evolution, 78 (6): 324-337.
  • Çalmaşur, Ö. & H. Özbek, 2004a. A contribution to the knowledge of the Tenthredinidae (Symphyta, Hymenoptera) Fauna of Turkey Part I: The Subfamily Tenthredininae. Turkish Journal of Zoology, 28 (1): 37-54.
  • Çalmaşur, Ö. & H. Özbek, 2004b. Contribution to the knowledge of Tenthredinidae (Symphyta, Hymenoptera) fauna of Turkey Part II: Subfamilies Blennocampinae, Dolerinae, Nematinae and Selandrinae. Turkish Journal of Zoology, 28 (1): 55-71.
  • Çalmaşur, Ö., 2020. New records and some new distribution data for the Turkish Nematinae (Hymenoptera: Symphyta: Tenthredinidae) fauna. Turkish Journal of Entomology, 44 (3): 413-422.
  • Coleman, A. W., 2003. ITS2 is a double-edged tool for eukaryote evolutionary comparisons. Trends in Genetics, 19 (7): 370-375.
  • Coleman, A. W., 2007. Pan-eukaryote ITS2 homologies revealed by RNA secondary structure. Nucleic Acids Research, 35 (10): 3322-3329.
  • Coleman, A. W., 2009. Is there a molecular key to the level of “biological species” in eukaryotes? A DNA guide. Molecular Phylogenetics & Evolution, 50 (1): 197-203.
  • Coleman, A. W., 2015. Nuclear rRNA transcript processing versus internal transcribed spacer secondary structure. Trends in Genetics, 31 (3): 157-163.
  • Darty, K., A. Denise & Y. Ponty, 2009. VARNA: interactive drawing and editing of the RNA secondary structure. Bioinformatics, 25 (15): 1974-1975.
  • Dover, G., 1982. Molecular drive: a cohesive mode of species evolution. Nature, 299: 111-117.
  • Fagan-Jeffries, E. P., S. J. B. Cooper, T. M. Bradford & A. D. Austin, 2019. Intragenomic internal transcribed spacer 2 variation in a genus of parasitoid wasps (Hymenoptera: Braconidae): implications for accurate species delimitation and phylogenetic analysis, Insect Molecular Biology, 28 (4): 485-498.
  • Goulet, H., 1986. The genera and species of the Nearctic Dolerini (Symphyta: Tenthredinidae: Selandriinae): classification and phylogeny. The Memoirs of the Entomological Society of Canada, 118 (S135): 5-208.
  • Gutell, R. R., N. Larsen & C. R. Woese, 1994. Lessons from an evolving rRNA: 16S and 23S rRNA structures from a comparative perspective. Microbiological Reviews, 58 (1): 10-26.
  • Haris, A., 1995. Further data on the food-choice of wheat-sawflies (Dolerus spp., Hymenoptera, Tenthredinidae). Acta Phytopathologica et Entomologica Hungarica, 30 (1): 255-264.
  • Haris, A., 2000. Study on the Palaearctic Dolerus Panzer, 1801 species (Hymenoptera: Tenthredinidae). Folia Entomologica Hungarica, 61 (1): 95-148.
  • Heidemaa, M., 2004. Systematic Studies on Sawflies of the Genera Dolerus, Empria and Caliroa (Hymenoptera: Tenthredinidae). University of Tartu, Institute of Zoology and Hydrobiology, Faculty of Biology and Geography, (Unpublished) Phd Thesis, Estonia, 162 pp.
  • Hong, J. H., C. S. Oh, M. Seo & D. H. Shin, 2019. Analysis of COI and ITS2 Regions of DNA Obtained from Paragonimus westermani Eggs in Ancient Coprolites on Joseon Dynasty Mummies. Memorias do Instituto Oswaldo Cruz, 114 pp.
  • Ji, Y. J., D. X. Zhang & L. J. He, 2003. Evolutionary conservation and versatility of a new set of primers for amplifying the ribosomal internal transcribed spacer regions in insects and other invertebrates. Molecular Ecology Notes, 3 (4): 581-585.
  • Jørgensen, A., J. R. Stothard, H. Madsen, A. Nalugwa, S. Nyakaana & D. Rollinson, 2013. The ITS2 of the genus Bulinus: novel secondary structure among freshwater snails and potential new taxonomic markers. Acta Tropica, 128 (2): 218-225.
  • Katılmış, Y. & S. Kıyak, 2015. A little-known species Pontania proxima (Serville, 1823) (Hymenoptera: Symphyta: Tenthredinidae) from Turkey. Munis Entomology & Zoology, 10 (1): 196-198.
  • Kearse, M., R. Moir, A. Wilson, S. Stones-Havas, M. Cheung, S. Sturrock, S. Buxton, A. Cooper, S. Markowitz, C. Duran, T. Thierer, B. Ashton, P. Meintjes & A. Drummond, 2012. Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics, 28 (12): 1647-1649.
  • Kitthawee, S., 2003. ITS2 sequence variations among members of Diachasmimorpha longicaudata complex (Hymenoptera: Braconidae) in Thailand. Journal of Asia-Pacific Entomology, 16 (2): 173-179.
  • Kumar, S., G. Stecher & K. Tamura, 2016. Molecular Biology & Evolution, 33 (7): 1870-1874.
  • Larkin, M., G. Blackshields, N. Brown, R. Chenna, P. McGettigan, H. McWilliam, F. Valentin, I. Wallace, A. Wilm, R. Lopez, J. Thompson, T. Gibson & D. Higgins, 2007. ClustalW and ClustalX version2. Bioinformatics, 23 (21): 2947-2948.
  • Leppänen, S. A., E. Altenhofer, A. D. Liston & T. Nyman, 2012. Phylogenetics and evolution of host-plant use in leafmining sawflies (Hymenoptera: Tenthredinidae: Heterarthrinae). Molecular Phylogenetics & Evolution, 64 (2): 331-341.
  • Liao, D., 1999. Concerted evolution: Molecular mechanism and biological implications. American Journal of Human Genetics, 64 (1): 24-30.
  • Malm, T. & T. Nyman, 2015. Phylogeny of the symphytan grade of Hymenoptera: new pieces into the old jigsaw (fly) puzzle. Cladistics, 31 (1): 1-17.
  • Mathews, D. H., J. Sabina, M. Zuker & D. H. Turner, 1999. Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. Journal of Molecular Biology, 28 (5): 911-940.
  • Müller, T., N. Philippi, T. Dandekar, J. Schultz & M. Wolf, 2007. Distinguishing species. Rna, 13 (9): 1469-1472.
  • Mullineux, T. & G. Hausner, 2009. Evolution of rDNA ITS1 and ITS2 sequences and RNA secondary structures within members of the fungal genera Grosmannia and Leptographium. Fungal Genetics Biology, 46 (11): 855-867.
  • Nelson, L. A., J. F. Wallman & M. Dowton, 2008. Identification of forensically important Chrysomya (Diptera: Calliphoridae) species using the second ribosomal internal transcribed spacer (ITS2). Forensic Science International, 177 (2-3): 238-247.
  • Niu, G., S. Jiang, Ö. Doğan, E. M. Korkmaz, M. Budak, D. Wu & M. Wei, 2021. Mitochondrial phylogenomics of Tenthredinidae (Hymenoptera: Tenthredinoidea) supports the monophyly of Megabelesesinae as a Subfamily. Insects, 12 (6): 495: 1-19.
  • Niu, G., E. M. Korkmaz, Ö. Doğan, Y. Zhang, M. N. Aydemir, M. Budak, S. Du, H. H. Başıbüyük & M. Wei, 2019. The first mitogenomes of the superfamily Pamphilioidea (Hymenoptera: Symphyta): Mitogenome architecture and phylogenetic inference. International Journal of Biological Macromolecules, 124: 185-199.
  • Pawłowska, J., G. Walther, M. Wilk, S. de Hoog & M. Wrzosek, 2013. The use of compensatory base change analysis of ITS2 as a tool in the phylogeny of Mucorales, illustrated by the Mucor circinelloides complex. Organisms Diversity & Evolution, 13 (4): 497-502.
  • Poczai, P., I. Varga & J. Hyvönen, 2015. Internal transcribed spacer (ITS) evolution in populations of the hyperparasitic European mistletoe pathogen fungus, Sphaeropsis visci (Botryosphaeriaceae): the utility of ITS2 secondary structures. Gene, 558 (1): 54-64.
  • Ponce-Gordo, F., F. Fonseca-Salamanca & R. A. Martínez-Díaz, 2011. Genetic heterogeneity in internal transcribed spacer genes of Balantidium coli (Litostomatea, Ciliophora), Protist, 162 (5): 774-794.
  • Prous, M., M. Heidemaa, S. Akihiko & V. Soon, 2011. Review of the sawfly genus Empria (Hymenoptera, Tenthredinidae) in Japan. ZooKeys, 150: 347-380.
  • R Core Team, 2014. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07-0, URL (Web page: http://www.R-project.org/)(Date accessed: July 2021).
  • Ruhl, M. W., M. Wolf & T. M. Jenkins, 2010. Compensatory base changes illuminate morphologically difficult taxonomy. Molecular Phylogenetics and Evolution, 54 (2): 664-669.
  • Salvi, D. & P. Mariottini, 2012. Molecular phylogenetics in 2D: ITS2 rRNA evolution and sequence-structure barcode from Veneridae to Bivalvia, Molecular Phylogenetics & Evolution, 65 (2): 792-798.
  • Schill, R. O., F. Förster, T. Dandekar & M. Wolf, 2010. Using compensatory base change analysis of internal transcribed spacer 2 secondary structures to identify three new species in Paramacrobiotus (Tardigrada). Organisms Diversity & Evolution, 10 (4): 287-296.
  • Schliep, K. P., 2011. Phangorn: phylogenetic analysis in R. Bioinformatics, 27 (4): 592-593.
  • Schulmeister, S., 2003. Simultaneous analysis of basal Hymenoptera (Insecta): introducing robust-choice sensitivity analysis. Biological Journal of the Linnean Society, 79 (2): 245-275.
  • Schwarzfeld, M. D. & F. A. Sperling, 2015. Comparison of five methods for delimitating species in Ophion Fabricius, a diverse genus of parasitoid wasps (Hymenoptera, Ichneumonidae). Molecular Phylogenetics & Evolution, 93: 234-248.
  • Seibel, P. N., T. Müller, T. Dandekar, J. Schultz & M. Wolf, 2006. 4SALE-a tool for synchronous RNA sequence and secondary structure alignment and editing. BMC bioinformatics, 7 (1): 1-7.
  • Taeger, A., A. D. Liston, M. Prous, E. K. Groll, T. Gehroldt & S. M. Blank, 2021. ECatSym – Electronic World Catalog of Symphyta (Insecta, Hymenoptera). Program version 5.0 (19 Dec 2018), data version 40 (23 Sep 2018). Senckenberg Deutsches Entomologisches Institut (SDEI). Müncheberg. (Web page: https://sdei.de/ecatsym/) (Date accessed: June 2021). (in Germany).
  • Tang, J., L. Toe & C. Back, 1996. Unnasch T.R., Intra-specific heterogeneity of the rDNA internal transcribed spacer in the Simulium damnosum (Diptera: Simuliidae) complex. Molecular Biology & Evolution, 13 (1): 244-252.
  • Torres-Suárez, O. L., 2014. Gorgonia mariae and Antillogorgia bipinnata populations inferred from compensatory base change analysis of the internal transcribed spacer 2. Molecular Phylogenetics and Evolution, 79: 240-248.
  • Uluar, O. & B. Çıplak, 2020. Evolution, characterization and phylogenetic utility of ITS2 gene in Orthoptera and some Polyneoptera: Highly variable at the order level and highly conserved at the species level. Zootaxa, 4780 (1): 54-76.
  • Vandivier, L. E., S. J. Anderson, S. W. Foley & B. D. Gregory, 2016. The conservation and function of RNA secondary structure in plants. Annual Review of Plant Biology, 67: 463-488.
  • Verma, C. & G. Mishra, 2020. Widespread inspection and comparative analysis of ITS secondary structure conservation and covariation of Coccinellidae. International Journal of Tropical Insect Science, 40 (3): 1-11.
  • Vilhelmsen, L., 2015. Morphological phylogenetics of the Tenthredinidae (Insecta: Hymenoptera). Invertebrate Systematics, 29 (2): 164-190.
  • Wagener, B., A. Reineke, B. Löhr & C. P. Zebitz, 2006. Phylogenetic study of Diadegma species (Hymenoptera: Ichneumonidae) inferred from analysis of mitochondrial and nuclear DNA sequences. Biological Control, 37 (2): 131-140.
  • Wolf, M., C. Koetschan & T. Müller, 2014. ITS2, 18S, 16S or any other RNA d simply aligning sequences and their individual secondary structures simultaneously by an automatic approach. Gene, 546 (3): 145-149.
  • Young, I. & A. W. Coleman, 2004. The advantages of the ITS2 region of the nuclear rDNA cistron for analysis of phylogenetic relationships of insects: A Drosophila example. Molecular Pylogenetics & Evolution, 30 (1): 236-242.
  • Zhao, L. L., S. J. Feng, J. Y. Tian, A. Z. Wei & T. X. Yang, 2018. Internal transcribed spacer 2 (ITS2) barcodes: A useful tool for identifying Chinese Zanthoxylum. Applications in Plant Sciences, 6 (6): 1-8.
  • Zuker, M., 2003. Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Research, 31 (13): 3406-3415.
There are 64 citations in total.

Details

Primary Language English
Journal Section Articles
Authors

Mehmet Gülmez 0000-0001-6547-7190

Mahir Budak 0000-0001-5610-486X

Ertan Mahir Korkmaz 0000-0003-0699-1354

Sevda Hastaoğlu Örgen 0000-0001-8313-2946

Hasan Hüseyin Başıbüyük 0000-0001-6504-6139

Project Number 113Z753
Early Pub Date February 16, 2022
Publication Date March 1, 2022
Submission Date November 2, 2021
Acceptance Date January 31, 2022
Published in Issue Year 2022 Volume: 46 Issue: 1

Cite

APA Gülmez, M., Budak, M., Korkmaz, E. M., Hastaoğlu Örgen, S., et al. (2022). Characterization and taxonomic utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae). Turkish Journal of Entomology, 46(1), 13-23. https://doi.org/10.16970/entoted.1018061
AMA Gülmez M, Budak M, Korkmaz EM, Hastaoğlu Örgen S, Başıbüyük HH. Characterization and taxonomic utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae). TED. March 2022;46(1):13-23. doi:10.16970/entoted.1018061
Chicago Gülmez, Mehmet, Mahir Budak, Ertan Mahir Korkmaz, Sevda Hastaoğlu Örgen, and Hasan Hüseyin Başıbüyük. “Characterization and Taxonomic Utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae)”. Turkish Journal of Entomology 46, no. 1 (March 2022): 13-23. https://doi.org/10.16970/entoted.1018061.
EndNote Gülmez M, Budak M, Korkmaz EM, Hastaoğlu Örgen S, Başıbüyük HH (March 1, 2022) Characterization and taxonomic utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae). Turkish Journal of Entomology 46 1 13–23.
IEEE M. Gülmez, M. Budak, E. M. Korkmaz, S. Hastaoğlu Örgen, and H. H. Başıbüyük, “Characterization and taxonomic utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae)”, TED, vol. 46, no. 1, pp. 13–23, 2022, doi: 10.16970/entoted.1018061.
ISNAD Gülmez, Mehmet et al. “Characterization and Taxonomic Utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae)”. Turkish Journal of Entomology 46/1 (March 2022), 13-23. https://doi.org/10.16970/entoted.1018061.
JAMA Gülmez M, Budak M, Korkmaz EM, Hastaoğlu Örgen S, Başıbüyük HH. Characterization and taxonomic utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae). TED. 2022;46:13–23.
MLA Gülmez, Mehmet et al. “Characterization and Taxonomic Utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae)”. Turkish Journal of Entomology, vol. 46, no. 1, 2022, pp. 13-23, doi:10.16970/entoted.1018061.
Vancouver Gülmez M, Budak M, Korkmaz EM, Hastaoğlu Örgen S, Başıbüyük HH. Characterization and taxonomic utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae). TED. 2022;46(1):13-2.