A DNA Barcode Reference Library for Trichoptera of Jingpo Lake: Taxonomic Diversity and Molecular Identification Basics
Simple Summary
Abstract
1. Introduction
2. Materials and Methods
2.1. Sample Collection and Morphological Identification
2.2. Molecular Experiments
2.3. Sequence Processing and DNA Barcode Analyses
3. Results
3.1. Taxonomic Diversity
3.2. Sequence Information
3.3. Phylogenetic Analysis
3.4. Genetic Differentiation and Barcode Gap Analysis
3.5. Sampling Sufficiency and Accumulation Curves
4. Discussion
4.1. Trichoptera Diversity and Biogeographic Significance in Northern China
4.2. COI Barcode for Species Identification
5. Conclusions
Author Contributions
Funding
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
- Dudgeon, D.; Arthington, A.H.; Gessner, M.O.; Kawabata, Z.I.; Knowler, D.J.; Lévêque, C.; Naiman, R.J.; Prieur-Richard, A.H.; Soto, D.; Stiassny, M.L.J.; et al. Freshwater biodiversity: Importance, threats, status and conservation challenges. Biol. Rev. 2006, 81, 163–182. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Dijkstra, K.-D.B.; Monaghan, M.T.; Pauls, S.U. Freshwater Biodiversity and Aquatic Insect Diversification. Annu. Rev. Entomol. 2014, 59, 143–163. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Balian, E.V.; Segers, H.; Lévêque, C.; Martens, K. The Freshwater Animal Diversity Assessment: An overview of the results. Hydrobiologia 2008, 595, 627–637. [Google Scholar] [CrossRef] [Scilit]
- Harrison, I.; Abell, R.; Darwall, W.; Thieme, M.L.; Tickner, D.; Timboe, I. The freshwater biodiversity crisis. Science 2018, 362, 1369. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Brondizio, E.S.; Settele, J.; Díaz, S.; Ngo, H.T. Global Assessment Report on Biodiversity and Ecosystem Services of the Intergovernmental Science-Policy Platform on Biodiversity and Ecosystem Services; IPBES Secretariat: Bonn, Germany, 2019; pp. 1–1148. [Google Scholar] [CrossRef]
- Basooma, A.; Nakiyende, H.; Olokotum, M.; Balirwa, J.S.; Nkalubo, W.; Musinguzi, L.; Natugonza, V. A novel index to aid in prioritizing habitats for site-based conservation. Ecol. Evol. 2022, 12, e8762. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Strayer, D.L.; Dudgeon, D. Freshwater biodiversity conservation: Recent progress and future challenges. J. N. Am. Benthol. Soc. 2010, 29, 344–358. [Google Scholar] [CrossRef] [Scilit]
- Lake, P.S. Drought and Aquatic Ecosystems: Effects and Responses; Wiley-Blackwell: Chichester, UK, 2011; pp. 1–381. [Google Scholar] [CrossRef] [Scilit]
- Gómez-Gener, L.; Lupon, A.; Laudon, H.; Sponseller, R.A. Drought alters the biogeochemistry of boreal stream networks. Nat. Commun. 2020, 11, 1795. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Ma, R.; Yang, G.; Duan, H.; Jiang, J.; Wang, S.; Feng, X.; Li, A.; Kong, F.; Xue, B.; Wu, J.; et al. China’s lakes at present: Number, area and spatial distribution. Sci. China Earth Sci. 2011, 54, 283–289. [Google Scholar] [CrossRef] [Scilit]
- Wang, K. The quality status of eco-environment of lakes in China and relevant countermeasures and suggestions. World Environ. 2018, 2, 14–18. (In Chinese) [Google Scholar]
- Qin, Z.; He, Z.; Wu, G.; Tang, G.; Wang, Q. Developing Water-Quality Model for Jingpo Lake Based on EFDC. Water 2022, 14, 2596. [Google Scholar] [CrossRef] [Scilit]
- Cai, Y.; Qi, L.; Shan, T.; Liu, Y.; Zhang, N.; Lu, X.; Fan, Y. Application of Phytoplankton Taxonomic α-Diversity Indices to Assess Trophic States in Barrier Lake: A Case of Jingpo Lake. Diversity 2022, 14, 1003. [Google Scholar] [CrossRef] [Scilit]
- Xie, Z.; Wei, W.W.; Li, C.; Yu, C.; Wang, H. Classification of littoral zone and buffer zone in a typical mountain barrier lake and the scheme of ecological restoration: A case study of Jingpo Lake. J. Environ. Eng. Technol. 2021, 11, 1147–1153. (In Chinese) [Google Scholar] [CrossRef]
- Ministry of Ecology and Environment of the People’s Republic of China. 2024 Report on the State of the Ecology and Environment in China. 2025. Available online: https://english.mee.gov.cn/Resources/Reports/soe/SOEE2019/202509/P020250930547851046686.pdf (accessed on 11 June 2026).
- Oliver, T.H.; Heard, M.S.; Isaac, N.J.B.; Roy, D.B.; Procter, D.; Eigenbrod, F.; Freckleton, R.; Hector, A.; Orme, C.D.L.; Petchey, O.L.; et al. Biodiversity and Resilience of Ecosystem Functions. Trends Ecol. Evol. 2015, 30, 673–684. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Ge, X.; Peng, Z.; Peng, L.; Jia, X.; Chen, K.; Sun, C.; Wang, B. A Checklist of the Caddisflies (Insecta: Trichoptera) From the Middle and Lower Basins of Jinsha River, Southwestern China; Including One New Species and Nine New Records in China. Diversity 2023, 15, 181. [Google Scholar] [CrossRef] [Scilit]
- Ge, X.; Peng, L.; Morse, J.C.; Wang, J.; Zang, H.; Yang, L.; Sun, C.; Wang, B. Phylogenomics resolves a 100-year-old debate regarding the evolutionary history of caddisflies (Insecta: Trichoptera). Mol. Phylogenet. Evol. 2024, 201, 108196. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Morse, J.C.; Frandsen, P.B.; Graf, W.; Thomas, J.A. Diversity and Ecosystem Services of Trichoptera. Insects 2019, 10, 125. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Hebert, P.D.N.; Cywinska, A.; Ball, S.L.; deWaard, J.R. Biological identifications through DNA barcodes. Proc. R. Soc. B Biol. Sci. 2003, 270, 313–321. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Ge, X.; Zang, H.; Ye, X.; Peng, L.; Wang, B.; Lian, G.; Sun, C. Comparative Mitogenomic Analyses of Hydropsychidae Revealing the Novel Rearrangement of Protein-Coding Gene and tRNA (Trichoptera: Annulipalpia). Insects 2022, 13, 759. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Ge, X.; Wang, Y.; Wang, B.; Sun, C. Descriptions of larvae of three species of Hydropsyche Pictet 1834 (Trichoptera, Hydropsychidae) from China. Zootaxa 2020, 4858, 358–374. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Ge, X.; Wang, J.; Chai, L.; Yan, C. Descriptions of hitherto unknown larvae of the genus Hydropsyche Pictet, 1834 from China (Trichoptera, Hydropsychidae). Biodivers. Data J. 2025, 13, e151321. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Jones, K.S.; Pilliod, D.S.; Aunins, A.W. Metabarcoding Analysis of Arthropod Pollinator Diversity: A Methodological Comparison of eDNA Derived From Flowers and DNA Derived From Bulk Samples of Insects. Mol. Ecol. 2025, 34, e70003. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Surmacz, B.; Vecchi, M.; Fontaneto, D.; Budzik, K.; Godziek, J.; Matsko, Y.; Stec, D. COI Metabarcoding with a Curated Reference Database and Optimized Protocol Provides a Reliable Species-Level Diversity Assessment of Tardigrades. Integr. Zool. 2026, 21, 275–290. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Macher, J.N.; Martínez, A.; Çakir, S.; Cholley, P.E.; Christoforou, E.; Galletti, M.C.; van Galen, L.; García-Cobo, M.; Jondelius, U.; de Jong, D.; et al. Enhancing metabarcoding efficiency and ecological insights through integrated taxonomy and DNA reference barcoding: A case study on beach meiofauna. Mol. Ecol. Resour. 2024, 24, e13997. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Chen, K.; Fang, C.C.; Wu, Z.G.; Xiong, F.; Yang, D.; Chen, Y.D.; Zhang, Q.; Wang, B.Q.; Jiang, C.Q.; Shi, L.R.; et al. AeDNA: Aquatic Environmental DNA Database. Acta Hydrobiol. Sin. 2022, 46, 1741–1747. [Google Scholar] [CrossRef]
- Laini, A.; Fenoglio, S.; Bo, T. DNA barcoding reference libraries of Italian Plecoptera: A gap analysis. Eur. Zool. J. 2024, 91, 162–171. [Google Scholar] [CrossRef] [Scilit]
- Baena-Bejarano, N.; Reina, C.; Martínez-Revelo, D.E.; Medina, C.A.; Tovar, E.; Uribe-Soto, S.; Neita-Moreno, J.C.; Gonzalez, M.A. Taxonomic identification accuracy from BOLD and GenBank databases using over a thousand insect DNA barcodes from Colombia. PLoS ONE 2023, 18, e0277379. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Zhou, X.; Frandsen, P.B.; Holzenthal, R.W.; Beet, C.R.; Bennett, K.R.; Blahnik, R.J.; Bonada, N.; Cartwright, D.; Chuluunbat, S.; Cocks, G.V.; et al. The Trichoptera barcode initiative: A strategy for generating a species-level Tree of Life. Philos. Trans. R. Soc. B Biol. Sci. 2016, 371, 20160025. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Specchia, V.; Tzafesta, E.; Marini, G.; Scarcella, S.; D’Attis, S.; Pinna, M. Gap Analysis for DNA Barcode Reference Libraries for Aquatic Macroinvertebrate Species in the Apulia Region (Southeast of Italy). J. Mar. Sci. Eng. 2020, 8, 538. [Google Scholar] [CrossRef] [Scilit]
- Chang, H.; Ye, T.; Xie, Z.; Liu, X. Application of Environmental DNA in Aquatic Ecosystem Monitoring: Opportunities, Challenges and Prospects. Water 2025, 17, 661. [Google Scholar] [CrossRef] [Scilit]
- Elías-Gutiérrez, M.; Valdez-Moreno, M.; Topan, J.; Young, M.R.; Cohuo-Colli, J.A. Improved protocols to accelerate the assembly of DNA barcode reference libraries for freshwater zooplankton. Ecol. Evol. 2018, 8, 3002–3018. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Calor, A.R.; Mariano, R. UV light pan traps for collecting aquatic insects. EntomoBrasilis 2012, 5, 164–166. [Google Scholar] [CrossRef] [Scilit]
- Peng, L.; Ge, X.-Y.; Sun, C.-H.; Wang, B.-X. Five new species of Tinodes (Trichoptera: Psychomyiidae) from China. Zootaxa 2022, 5196, 280–290. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Oláh, J. On the Trichoptera of Vietnam, with description of 52 new species. Ann. Hist.-Nat. Mus. Natl. Hung. 2013, 105, 55–134. [Google Scholar]
- Yang, L.-F.; Sun, C.-H.; Morse, J.C. An amended checklist of the caddisflies of China (Insecta, Trichoptera). Zoosymposia 2016, 10, 451–479. [Google Scholar] [CrossRef] [Scilit]
- Folmer, O.; Black, M.; Hoeh, W.; Lutz, R.; Vrijenhoek, R. DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Mol. Mar. Biol. Biotechnol. 1994, 3, 294–299. [Google Scholar] [PubMed]
- Kearse, M.; Moir, R.; Wilson, A.; Stones-Havas, S.; Cheung, M.; Sturrock, S.; Buxton, S.; Cooper, A.; Markowitz, S.; Duran, C.; et al. Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 2012, 28, 1647–1649. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Edgar, R.C. MUSCLE: Multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 2004, 32, 1792–1797. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Saitou, N.; Nei, M. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 1987, 4, 406–425. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Kimura, M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 1980, 16, 111–120. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Letunic, I.; Bork, P. Interactive Tree of Life (iTOL) v6: Recent updates to the phylogenetic tree display and annotation tool. Nucleic Acids Res. 2024, 52, W78–W82. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Ratnasingham, S.; Hebert, P.D.N. BOLD: The Barcode of Life Data System (www.barcodinglife.org). Mol. Ecol. Notes 2007, 7, 355–364. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Kawase, N.; Morita, H.; Takeda, S.; Uenishi, M. Caddisfly (Insecta: Trichoptera) fauna of the Lake Biwa Basin in Shiga Prefecture, central Japan. Biol. Inl. Wat. 2017, 31, 21–44. (In Japanese) [Google Scholar]
- Chuluunbat, S.; Morse, J.C.; Boldbaatar, S. Caddisflies of Mongolia: Distribution and diversity. Zoosymposia 2016, 10, 96–116. [Google Scholar] [CrossRef] [Scilit]
- Oláh, J.; Johanson, K.A.; Li, W.; Park, S.J. On the Trichoptera of Korea with Eastern Palaearctic relatives. Opusc. Zool. Bp. 2018, 49, 99–139. [Google Scholar] [CrossRef] [Scilit]
- Uy, C.J.C.; Kuhara, N.; Bae, Y.J. Taxonomic review of the Northeast Asian species of Kisaura (Philopotamidae) with description of a new species. Zoosymposia 2019, 14, 289–299. [Google Scholar] [CrossRef] [Scilit]
- Park, S.J.; Bae, Y.J.; Yang, L.F. New records of the Leptoceridae (Trichoptera) from Korea. Insecta Koreana 1999, 16, 155–162. (In Korean) [Google Scholar]
- Potikha, E.; Vshivkova, T. The caddisfly faunas (Insecta, Trichoptera) of Protected Natural Areas in southern Far East Russia. Zoosymposia 2016, 10, 357–383. [Google Scholar] [CrossRef] [Scilit]
- Chuluunbat, S.; Morse, J.C. Caddisflies (Insecta: Trichoptera) of Selenge River Basin, Mongolia. In Proceedings of the XIIth International Symposium on Trichoptera; Bueno-Soria, J., Barba-Álvarez, R., Armitage, B., Eds.; The Caddis Press: Columbus, OH, USA, 2007; pp. 51–57. [Google Scholar]
- Hohmann, M. Bemerkenswerte Köcherfliegen-Fänge (Insecta, Trichoptera) im Tiefland Sachsen-Anhalts [Remarkable caddisfly records (Insecta, Trichoptera) in the lowlands of Saxony-Anhalt]. Lauterbornia 1999, 36, 33–40. (In German) [Google Scholar]
- Pan’kov, N.N.; Krasheninnikov, A.B. Current state of knowledge of a faunal inventory of Trichoptera (Hexapoda, Trichoptera) from the Ural Mountains and neighboring regions. Zoosymposia 2016, 10, 331–339. [Google Scholar] [CrossRef] [Scilit]
- Coppa, G.; Manach, A.; Le Doaré, J. Additions and corrections to the caddisfly fauna of France: 5. Four species new to this country. Ephemera 2004, 5, 19–22. (In French) [Google Scholar]
- Szczęsny, B.; Godunko, R. Checklist of Ukrainian Trichoptera. Braueria 2008, 35, 11–20. [Google Scholar]
- Chvojka, P.; Komzák, P. The history and present state of Trichoptera research in the Czech Republic. Ferrantia 2008, 55, 11–21. [Google Scholar]
- Gombeer, S.C.; Knapen, D.; Bervoets, L. The influence of different spatial-scale variables on caddisfly assemblages in Flemish lowland streams. Ecol. Entomol. 2011, 36, 355–368. [Google Scholar] [CrossRef] [Scilit]
- Kendrick, M.R.; Huryn, A.D. The Plecoptera and Trichoptera of the Arctic North Slope of Alaska. West. N. Am. Nat. 2014, 74, 275–285. [Google Scholar] [CrossRef] [Scilit]
- Smirnova, D.; Kushnikova, L.; Evseeva, A.; Grishaeva, O.; Kraynyuk, V.; Pilin, D.; Sklyarova, O.; Epova, J.; Baymukanova, Z.; Timirkhanov, S. The Trichoptera of Kazakhstan: A review. Zoosymposia 2016, 10, 398–408. [Google Scholar] [CrossRef] [Scilit]
- Andersen, T.; Hansen, L.O.; Johanson, K.A.; Solhøy, T.; Søli, G. Faunistical records of caddis flies (Trichoptera) from Aust-Agder and Vest-Agder, South Norway. Fauna Norv. Ser. B 1990, 37, 23–32. [Google Scholar]
- Salokannel, J.; Mattila, K. Suomen vesiperhoset—Trichoptera of Finland; Hyönteistarvike Tibiale Oy: Helsinki, Finland, 2018; pp. 1–448. (In Finnish) [Google Scholar]
- Park, S.J.; Bae, Y.J. New records of the Limnephiloidea (Insecta: Trichoptera) from Korea. Anim. Syst. Evol. Divers. 1998, 14, 361–370. [Google Scholar]
- Wallace, J.B.; Merritt, R.W. Filter-Feeding Ecology of Aquatic Insects. Annu. Rev. Entomol. 1980, 25, 103–132. [Google Scholar] [CrossRef] [Scilit]
- Wiggins, G.B. Larvae of the North American Caddisfly Genera (Trichoptera), 2nd ed.; University of Toronto Press: Toronto, ON, Canada, 1996; pp. 1–457. [Google Scholar] [CrossRef] [Scilit]
- Wiggins, G.B. Caddisflies: The Underwater Architects; University of Toronto Press: Toronto, ON, Canada, 2004; pp. 1–304. [Google Scholar] [CrossRef] [Scilit]
- Avise, J.C. Phylogeography: The History and Formation of Species; Harvard University Press: Cambridge, MA, USA, 2000; pp. 1–460. [Google Scholar] [CrossRef] [Scilit]
- Phillips, J.D.; Gillis, D.J.; Hanner, R.H. Incomplete estimates of genetic diversity within species: Implications for DNA barcoding. Ecol. Evol. 2019, 9, 2996–3010. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Excoffier, L.; Foll, M.; Petit, R.J. Genetic consequences of range expansions. Annu. Rev. Ecol. Evol. Syst. 2009, 40, 481–501. [Google Scholar] [CrossRef] [Scilit]
- Hebert, P.D.N.; Penton, E.H.; Burns, J.M.; Janzen, D.H.; Hallwachs, W. Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator. Proc. Natl. Acad. Sci. USA 2004, 101, 14812–14817. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Ballard, J.W.O.; Whitlock, M.C. The incomplete natural history of mitochondria. Mol. Ecol. 2004, 13, 729–744. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Takahashi, M.; Saccò, M.; Kestel, J.H.; Nester, G.; Campbell, M.A.; van der Heyde, M.; Heydenrych, M.J.; Juszkiewicz, D.J.; Nevill, P.; Dawkins, K.L.; et al. Aquatic environmental DNA: A review of the macro-organismal biomonitoring revolution. Sci. Total Environ. 2023, 873, 162322. [Google Scholar] [CrossRef] [Scilit] [PubMed]





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Xie, T.; Chai, L.; Zhang, N.; Wang, N.; Ge, X.; Yan, C. A DNA Barcode Reference Library for Trichoptera of Jingpo Lake: Taxonomic Diversity and Molecular Identification Basics. Insects 2026, 17, 857. https://doi.org/10.3390/insects17080857
Xie T, Chai L, Zhang N, Wang N, Ge X, Yan C. A DNA Barcode Reference Library for Trichoptera of Jingpo Lake: Taxonomic Diversity and Molecular Identification Basics. Insects. 2026; 17(8):857. https://doi.org/10.3390/insects17080857
Chicago/Turabian StyleXie, Tongyin, Lu Chai, Ni Zhang, Na Wang, Xinyu Ge, and Chuncai Yan. 2026. "A DNA Barcode Reference Library for Trichoptera of Jingpo Lake: Taxonomic Diversity and Molecular Identification Basics" Insects 17, no. 8: 857. https://doi.org/10.3390/insects17080857
APA StyleXie, T., Chai, L., Zhang, N., Wang, N., Ge, X., & Yan, C. (2026). A DNA Barcode Reference Library for Trichoptera of Jingpo Lake: Taxonomic Diversity and Molecular Identification Basics. Insects, 17(8), 857. https://doi.org/10.3390/insects17080857

