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| Open Access | Integrative Taxonomy and Species Delimitation in the Era of Molecular Ecology: Theoretical Foundations, Methodological Convergence, and Implications for Biodiversity Science
Dr. Alejandro M. Ríos , Department of Biological Sciences, Universidad Nacional de Córdoba, ArgentinaAbstract
Biodiversity science is fundamentally structured around the concept of species, yet the definition, delimitation, and recognition of species remain among the most contested issues in biology. Over recent decades, advances in molecular biology, phylogenetics, ecology, and computational modeling have profoundly reshaped taxonomic practice, giving rise to integrative taxonomy as a dominant paradigm. This article presents a comprehensive and theoretically grounded examination of integrative taxonomy and species delimitation, synthesizing insights from molecular systematics, morphological analysis, ecological differentiation, biogeography, and scenario-based biodiversity modeling. Drawing exclusively on established literature, this study explores how different species concepts influence biodiversity assessments, how molecular techniques have transformed evolutionary inference, and how integrative approaches mitigate the limitations of single-data frameworks. Particular emphasis is placed on plant, fungal, algal, cyanobacterial, and animal case studies that demonstrate the practical consequences of species delimitation choices for conservation planning, ecosystem service modeling, and global biodiversity assessments. The article further interrogates the epistemological status of species as hypotheses, the role of coalescent theory and multilocus data in resolving complex evolutionary histories, and the implications of taxonomic uncertainty for large-scale biodiversity scenarios such as those developed by IPBES. By providing an exhaustive theoretical elaboration and critical analysis, this work positions integrative taxonomy not merely as a methodological toolkit but as a conceptual synthesis essential for robust biodiversity science in the Anthropocene.
Keywords
Integrative taxonomy, species delimitation, molecular systematics
References
Agapow, P.M.; Bininda-Emonds, O.R.P.; Crandall, K.A.; Gittleman, J.L.; Mace, G.M.; Marshall, J.C.; Purvis, A. The impact of species concept on biodiversity studies. Quarterly Review of Biology 2004, 79, 161–179.
Ahrens, D.; Monaghan, M.T.; Vogler, A.P. DNA-based taxonomy for associating adults and larvae in multi-species assemblages of chafers. Molecular Phylogenetics and Evolution 2007, 44, 436–449.
Ane, C.; Larget, B.; Baum, D.A.; Smith, S.D.; Rokas, A. Bayesian estimation of concordance among gene trees. Molecular Biology and Evolution 2007, 24, 412–426.
Baker, R.H.; DeSalle, R. Multiple sources of character information and the phylogeny of Hawaiian Drosophilids. Systematic Biology 1997, 46, 654–673.
Banaev, E.V.; Tomoshevich, M.A.; Khozyaykina, S.A.; Erst, A.A.; Erst, A.S. Integrative taxonomy of Nitraria, description of a new enigmatic species and key to all currently known species. Plants 2023, 12, 593.
Belfiore, N.M.; Liu, L.; Moritz, C. Multilocus phylogenetics of a rapid radiation in the genus Thomomys. Systematic Biology 2008, 57, 294–310.
Cardoso, A.; Serrano, A.; Vogler, A.P. Morphological and molecular variation in tiger beetles of the Cicindela hybrida complex. Molecular Ecology 2009, 18, 648–664.
Carew, M.E.; Pettigrove, V.; Hoffman, A.A. The utility of DNA markers in classical taxonomy. Annals of the Entomological Society of America 2005, 98, 587–594.
Carstens, B.C.; Dewey, T.A. Species delimitation using a combined coalescent and information-theoretic approach. Systematic Biology 2010, 59, 400–414.
Cheng, S.; Zeng, W.; Wang, J.; Liu, L.; Liang, H.; Kou, Y.; Wang, H.; Fan, D.; Zhang, Z. Species delimitation of Asteropyrum based on morphological, molecular, and ecological variation. Frontiers in Plant Science 2021, 12, 681864.
Erst, A.S.; Sukhorukov, A.P.; Mitrenina, E.Y.; Skaptsov, M.V.; Kostikova, V.A.; Chernisheva, O.A.; Troshkina, V.; Kushunina, M.; Krivenko, D.A.; Ikeda, H. An integrative taxonomic approach reveals a new species of Eranthis in North Asia. PhytoKeys 2020, 140, 75–100.
Erst, A.S.; Nikulin, A.Y.; Nikulin, V.Y.; Ebel, A.L.; Zibzeev, E.V.; Sharples, M.T.; Baasanmunkh, S.; Choi, H.J.; Olonova, M.V.; Pyak, A.I. Distribution analysis and DNA barcodes of the endemic vascular flora of the Altai mountains. Systematic Biodiversity 2022, 20, 1–30.
Ferrier, S.; Ninan, K.N.; Leadley, P.; Alkemade, R.; Acosta, L.A.; Akçakaya, H.R.; Brotons, L.; Cheung, W.; Christensen, V.; Harhash, K.A. IPBES Methodological Assessment of Scenarios and Models of Biodiversity and Ecosystem Services. IPBES Secretariat, Bonn, 2016.
Gaysina, L.A.; Johansen, J.R.; Saraf, A.; Allaguvatova, R.Z.; Pal, S.; Singh, P. Roholtiella volcanica, a new species of Cyanobacteria from volcanic soils. Diversity 2022, 14, 620.
Kulikovskiy, M.; Genkal, S.; Maltsev, Y.; Glushchenko, A.; Kuznetsova, I.; Kapustin, D.; Gusev, E.; Martynenko, N.; Kociolek, J.P. Resurrection of the diatom genus Stephanocyclus based on an integrated molecular and morphological approach. Fottea 2022, 22, 181–191.
Maltsev, Y.; Maltseva, S.; Kociolek, J.P.; Jahn, R.; Kulikovskiy, M. Biogeography of the cosmopolitan diatom Hantzschia amphioxys sensu lato. Scientific Reports 2021, 11, 4266.
Maltseva, S.; Bachura, Y.; Erst, T.; Kulikovskiy, M.; Maltsev, Y. Description of Desmonostoc caucasicum using an integrative taxonomic approach. Phycologia 2022, 61, 514–527.
Pante, E.; Puillandre, N.; Viricel, A.; Arnaud-Haond, S.; Aurelle, D.; Castelin, M.; Chenuil, A.; Destombe, C.; Forcioli, D.; Valero, M. Species are hypotheses. Molecular Ecology 2015, 24, 525–544.
Pinheiro, F.; Dantas-Queiroz, M.V.; Palma-Silva, C. Plant species complexes as models to understand speciation and evolution. Critical Reviews in Plant Sciences 2018, 37, 54–80.
Yang, Z.L. Molecular techniques revolutionize knowledge of basidiomycete evolution. Fungal Diversity 2011, 50, 47–58.
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