PUBLICATIONS – D. Arcila

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**Featured in the journal list of the Nature Index (top 82 scientific journals)

25. Atta, C., H. Yuan, C. Li, D. Arcila, R. Betancur-R., L. Hughes, G. Orti & L. Tornabene. Under review. Exon-capture dataset highlights genome-wide phylogenetic uncertainty in Pleuronectoidei. Molecular Phylogenetics and Evolution. Under review.


24. Santaquiteria, A., A. C. Siqueira, E. Duarte-Ribeiro, G. Carnevale, W. White, J. Pogonoski, C. C. Baldwin, G. Ortí, D. Arcila & R. Betancur-R. In press. Phylogenomics and Historical Biogeography of Seahorses, Dragonets, Goatfishes, and Allies (Teleostei: Syngnatharia): Assessing Factors Driving Uncertainty in Biogeographic Inferences.


23. Arcila D. & G. Ortí. Accepted. Phylogenetic Systematics of Fishes. In Midway S., C. Hasler, & P. Chakrabarty, editors. Methods for Fish Biology, Second edition. American Fisheries Society, Bethesda, Maryland, USA.


22. Arcila, D*., L. C Hughes*, F. Melendez, C. C. Baldwin, W. White, K. Carpenter, J. T. Williams, D. M. Santos, J. Pogonoski, M. Miya, G. Ortí & R. Betancur-R. Accepted. Testing the utility of alternative metrics of branch support to resolve the ancient evolutionary radiation of tunas, stromateoids, and allies (Teleostei: Pelagiaria). Systematic Biology. *Equal contribution. PDF.

21. **Rincon-Sandoval, M.*, E. Duarte-Ribeiro*, A. M. Davis, A. Santaquiteria, L. C. Hughes, C. C. Baldwin, L. Soto-Torres, A. Acero P., H. J. Walker, K. E. Carpenter, M. Sheaves, G. Ortí, D. Arcila & R. Betancur-R.* 2020. Evolutionary determinism and convergence associated with water-column transitions in marine fishes. Proceedings of the National Academy of Sciences 117 (52) 33396-33403. *Equal contribution. PDF. Press releases: Eureka Alert, OU, GWU.

20. Hughes, L.C. , G. Ortí, H. Saad, C. Li , W.T. White, C. Baldwin, D. Arcila & R. Betancur-R. 2020. Exon probe sets and bioinformatics pipelines for all levels of fish phylogenomics. Molecular Ecology Resources 21(3): 816-833.


19. Kolmann, M., L. Hughes, P. Hernandez, D. Arcila, R. Betancur-R., M.H. Sabaj, H. Lopez-Fernandez & G. Ortí. 2020. Phylogenomics of piranhas and pacus (Serrasalmidae) uncovers how dietary convergence and parallelism obfuscate traditional morphological taxonomy. Systematic Biology. PDF


18. Meléndez-Vazquez, F., M. Olmeda-Saldaña, J. Cruz, D. Arcila & R. Betancur-R. 2019. Effects of Hurricane Maria in hamlet (Serranidae: Hypoplectrus) communities in Puerto Rico. Ecological Indicators 107 (2019) 105591. PDF


17. Arcila, D. & Cartwright S. 2019. Ichthyology Collection of The Sam Noble Oklahoma Museum of Natural History. Boletim Sociedade Brasileira de Ictiologia 2019(129): 113-116. PDF


16. Bemis, K.E. Tyler, J.C. & D. Arcila. 2019. Life history, distribution, and molecular phylogenetics of the Upward-Mouth Spikefishes, Atrophacanthus japonicus (Teleostei: Tetraodontiformes: Triacanthodidae). Journal of Fish Biology 2019: 1-7. PDF



15. Betancur-R., R.*, D. Arcila*, R. Vari, L. Hughes, C. Oliveira, M. Sabaj & G. Ortí. 2019. Phylogenomic incongruence, hypothesis testing, and taxonomic sampling: the monophyly of characiform fishes. *Equal contribution. PDF. Evolution Digest article on the study by Montero-Mendieta and Dheer (2019) here. Also featured in ANSP news.


14. Arcila D., P. Petry & G. Ortí. 2018. Phylogenetic relationships of the family Tarumaniidae (Characiformes) based on nuclear and mitochondrial data. Neotropical Ichthyology 16(3): e180016. PDF


13. **Hughes, L.C., G. Ortí, Y. Huang, Y. Sun, C.C. Baldwin, A.W. Thompson, D. Arcila, R. Betancur-R., C. Li, L. Becker et al. 2018. Comprehensive phylogeny of ray-finned fishes (Actinopterygii) based on transcriptomic and genomic data. Proceedings of the National Academy of Sciences, 201719358. PDF, Supplement. PNAS comment by M. Alfaro.


12. **Arcila, D. & J. Tyler. 2017. Mass extinction in tetraodontiform fishes linked to the Palaeocene–Eocene thermal maximum. Proceedings of the Royal Society of London B 284 (1866): 20171771. PDF


11. Lavoue, S., M. Arnegard, D. Rabosky, P. McIntyre, D. Arcila, R. Vari & M. Nishida. 2017. Trophic evolution in African citharinoid fishes (Teleostei: Characiformes) and the origin of intraordinal pterygophagy. Molecular Phylogenetics and Evolution 113, 23-32. PDF



10. Arcila, D., G. Ortí, R. Vari, J. W. Armbruster, M. Stiassny, K. D. Ko, M. H. Sabaj, J. Lundberg, L. J. Revell & R. Betancur-R. 2017. Genome-wide interrogation advances resolution of recalcitrant groups in the Tree of Life. Nature Ecology & Evolution 1: 0020. PDF & Supplement. Featured in "News and Views" about the paper by S. Mirarab, news outlet, in Spanish, El Tiempo, Ciencia PR, and "Behind the Paper" post. For a GGI tutorial see here.

9. Bannikov, A.F., G. Carnevale, D. Arcila & J.C. Tyler. 2016. A new family of gymnodont fish (Tetraodontiformes) from the earliest Eocene of the Peri-Tethys (Kabardino-Balkaria, northern Caucasus, Russia). Journal of Systematic Palaeontology 15, 1-18. PDF. Featured in NatGeo.

8. Thomaz, A*., D. Arcila*, G. Ortí & L.R. Malabarba. 2015. Molecular phylogeny of the subfamily Stevardiinae Gill, 1858 (Characiformes: Characidae): classification and the evolution of reproductive traits. BMC Evolutionary Biology 15, 146. PDF. *Equal contribution.

7. Arcila, D.*, A. Pyron, J. Tyler, G. Ortí & R. Betancur-R. 2015. An evaluation of fossil tip-dating versus node-age calibrations in tetraodontiform fishes. Molecular Phylogenetics and Evolution 82(2015): 131-145. *Equal contribution. PDF

6. Betancur-R., R., R.E. Broughton, E.O. Wiley, K. Carpenter, J.A. Lopez, C. Li, N.I. Holcroft, D. Arcila, M. Sanciangco, J. Cureton, F. Zhang, T. Buser, M. Campbell, T. Rowley, J.A. Ballesteros, G. Lu, T. Grande, G. Arratia & G. Ortí. 2013. The tree of life and a new classification of bony fishes. PLoS Currents Tree of Life. Pub Med Version. Press releases: Science Daily, e! Science News, GWU, PLoS Blogs.

5. Arcila, D., R.P. Vari & N. Menezes. 2013. Revision of the neotropical genus Acrobrycon (Ostariophysi: Characiformes) with description of two new species. Copeia 4, 604-611. PDF

4. Román-Valencia, C. & D. Arcila*. 2010. Five new species Hemibrycon (Characiformes: Characidae) from the Rio Magdalena basin, Colombia. Revista de Biología Tropical 58, 339-356. *Undergraduate student. PDF

3. Román-Valencia, C., D. Arcila* & R. Ruiz-C. 2009. Two new species of Hemibrycon (Characiformes: Characidae) from the Magdalena river, Colombia. Animal Biodiversity and Conservation 32.2, 77-87. *Undergraduate student. PDF

2. Román-Valencia, C., D. Arcila*, H. Hurtado. 2009. Variación morfológica de las poblaciones de Hemibrycon boquiae y H. rafaelense (Characiformes: Characidae) en el río Cauca, Colombia. Revista de Biología Tropical 57, 541-556. *Undergraduate student. PDF

1. Román-Valencia, C. & D. Arcila*. 2008 Hemibrycon rafaelense n. sp. (Characiformes: Characidae), a new species from the upper Cauca River, with keys to Colombian species. Animal Biodiversity and Conservation 31.1, 67-75. *Undergraduate student. PDF