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Type: Article
Published: 2024-02-20
Page range: 77-105
Abstract views: 34
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Taxonomic revision of the Pirate Perches, Aphredoderus, (Percopsiformes: Aphredoderidae) with descriptions of two new species

Conservation Sciences Graduate Program; University of Minnesota; St. Paul; MN; USA 55108; Bell Museum of Natural History; St. Paul; MN; USA 55108
Department of Fisheries; Wildlife; and Conservation Biology; St. Paul; MN; USA 55108; Bell Museum of Natural History; St. Paul; MN; USA 55108
Pisces Ichthyology taxonomy lowland fishes ddRADseq systematics Southeastern United States


Pirate Perches, Aphredoderus, are a widespread lowland freshwater fish native to the Eastern half of the United States. Aphredoderus was thought to contain a single species divided into an Eastern and Western subspecies on either side of the Appalachian Mountains with a widespread intergrade zone through much of the Eastern Gulf of Mexico and Southern Atlantic drainages. We use morphology and genetic data from specimens spanning the entire range of the genus to determine species limits within Aphredoderus. We find evidence of five species, four of which exhibit widespread sympatry in the Southeastern United States. We elevate A. sayanus sayanus and A. sayanus gibbosus to species, redescribe A. mesotrema, supplement previous descriptions, and describe two new species, A. retrodorsalis, and A. ornatus.



  1. Abbott, C.C. (1871) Further notes on New Jersey fishes. The American Naturalist, 4, 717–720.
  2. April, J., Mayden, R.L., Hanner, R.H. & Bernatchez, L. (2011) Genetic calibration of species diversity among North America’s freshwater fishes. Proceedings of the National Academy of Sciences, 108, 10602–10607.
  3. Armbruster, J.W., Niemiller, M.L. & Hart, P.B. (2016) Morphological evolution of the Cave-, Spring-, and Swampfishes of the Amblyopsidae (Percopsiformes). Copeia, 104, 763–777.
  4. Bermingham, E. & Avise, J.C. (1986) Molecular zoogeography of freshwater fishes in the southeastern United States. Genetics, 113, 939–965.
  5. Blatchley, W.S. (1885) On the genus Aphredoderus. Proceedings of the Academy of Natural Sciences of Philadelphia, 1885, 136–137.
  6. Boltz, J.M. & Stauffer, J.R. (1993) Systematics of Aphredoderus sayanus (Teleostei: Aphredoderidae). Copeia, 1993, 81.
  7. Brownstein, C.D., Kim, D., Orr, O.D., Hogue, G.M., Tracy, B.H., Pugh, M.W., Singer, R., Myles-McBurney, C., Mollish, J.M., Simmons, J.W., David, S.R., Watkins-Colwell, G., Hoffman, E.A. & Near, T.J. (2022) Hidden species diversity in an iconic living fossil vertebrate. Biology Letters, 18, 20220395.
  8. Cronquist, A. (1978) Once again, what is a species? Biosystematics in agriculture. In: Beltsville Symposia in Agricultural Research. No. 2. Wiley, New York, New York, pp. 3–20.
  9. Crossman, E.J. (1966) A taxonomic study of Esox americanus and its subspecies in Eastern North America. Copeia, 1, 1–20.
  10. Darriba, D., Posada, D., Kozlov, A.M., Stamatakis, A., Morel, B. & Flouri, T. (2020) ModelTest-NG: A new and scalable tool for the selection of DNA and protein evolutionary models. In: Crandall, K. (Ed.), Molecular Biology and Evolution, 37 (1), pp. 291–294.
  12. De Kay, J.E. (1842) Zoology of New York; or, The New York Fauna; comprising detailed descriptions of all the animals hitherto observed within the state of New York, with brief notices of those occasionally found near its borders, and accompanied by appropriate illustrations. Natural History of New York Series 1. Carroll and Cook, printers to the Assembly. W. & A. White & J. Visscher, Albany. [unknown pagination]
  13. De Queiroz, K. (2007) Species concepts and species delimitation. Systematic biology, 56, 879–886.
  14. Eaton, D.A.R. & Overcast, I. (2020) ipyrad: Interactive assembly and analysis of RADseq datasets R. Schwartz (Ed). Bioinformatics, 36, 2592–2594.
  15. Gilbert, C.R. & Bailey, R.M. (1972) Systematics and zoogeography of the American cyprinid fish Notropis (Opsopoeodus) emiliae. Occasional papers of the Museum of Zoology, University of Michigan 664. University of Michigan Museum of Zoology, Ann Arbor, Michigan, 35 pp.
  16. Gilliams, J. (1824) Description of a new species of fish of the Linnean genus Perca. Journal of the Academy of Natural Sciences, 4 (Pt 1), 80–82.
  17. Goudet, J. (2005) Hierfstat, a package for R to compute and test hierarchical F‐statistics. Molecular Ecology Notes, 5, 184–186
  18. Hubbs, C.L. & Lagler, E.F. (1947) Fishes of the Great Lakes Region. 1st Edition. Bulletin of the Cranbrook Institute of Sciences 26. Cranbrook Institute of Science, Bloomfield Hills, Michigan, 186 pp.
  19. Hunt, E.P., Conway, K.W., Hamilton, K., Hilton, E.J., Piller, K.R., Wright, J.J. & Portnoy, D.S. (2021) Molecular phylogenetics of the Chub Suckers (Teleostei: Catostomidae: Erimyzon) inferred from nuclear and mitochondrial loci. Ichthyology & Herpetology, 109 (2), 626–635.
  20. Johnston, C.E. & Ramsey, J.S. (1990) Redescription of Semotilus thoreauianus Jordan, 1877, a cyprinid fish of the southeastern United States. Copeia, 1990 (1), 119–130.
  21. Jordan, D. (1877a) Contributions to North American ichthyology. II. Cottidae, Etheostomatidae, Percidae, Centrarchidae, Aphredoderidae, Umbridae, Esocidae, Dorysomatidae, and Cyprinidae with revisions of genera and descriptions of new or little known species. Bulletin of the United States National Museum. No. 10. Government Printing Office, Washington, 120 pp., 45 pls.
  22. Jordan, D.S. (1877b) On the fishes of northern Indiana. Proceedings of the Academy of Natural Sciences of Philadelphia, 1877, 42–82.
  23. Jordan, D.S. (1878) A catalogue of the fishes of Illinois. The Natural History of Illinois Bulletin, 1, 48–49.
  24. Jordan, D.S. & Brayton, A.W. (1878) On the distribution of the fishes of the Alleghany region of South Carolina, Georgia, and Tennessee, with descriptions of new or little known species. Contributions to North American Ichthyology. Vol. 3. Government Printing Office, Washington, 237S.
  25. Jordan, D.S. & Evermann, B.W. (1896) The fishes of North and Middle America: a descriptive catalogue of the species of fish-like vertebrates found in the waters of North America, north of the Isthmus of Panama. Bulletin of the United States Fish Commission, 1, 787–787.
  26. Josse, J. & Husson, F. (2016) missMDA: A package for handling missing values in multivariate data analysis. Journal of Statistical Software, 70 (1), 1–31.
  27. Kim, D., Taylor, A.T. & Near, T.J. (2022) Phylogenomics and species delimitation of the economically important Black Basses (Micropterus). Scientific Reports, 12, 9113.
  28. Lachner, E.A. & Wiley, M.L. (1971) Populations of the polytypic species Nocomis Leptocephalus (Girard) with a description of a new subspecies. Smithsonian Contributions to Zoology, 92, 44.
  29. Lesueur (1833) Histoire naturelle des poissons. Tome neuvième. Suite du livre neuvième. Des Scombéroïdes V. Cuvier (Ed). Histoire naturelle des poisons, 9, 1–512. pls. 246–279.
  30. Letunic, I. & Bork, P. (2021) Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation. Nucleic Acids Research, 49, W293–W296.
  31. Mansueti, A.J. (1963) Some changes in morphology during ontogeny in the pirateperch, Aphredoderus s. sayanus. Copeia, 1963 (No. 3), 546–557.
  32. Moore, G.A. & Burris, W.E. (1956) Description of the lateral-line system of the pirate perch, Aphredoderus sayanus. Copeia, 1956, 18–20.
  34. Nagle, B.C. & Simons, A.M. (2012) Rapid diversification in the North American minnow genus Nocomis. Molecular Phylogenetics and Evolution, 63, 639–649.
  35. Nelson, E. (1876) Partial catalogue of the fishes of Illinois. Illinois Natural History Survey Bulletin, 1, 33–52.
  36. Niemiller, M.L., Fitzpatrick, B.M., Shah, P., Schmitz, L. & Near, T.J. (2013) Evidence for repeated loss of selective constraint in rhodopsin of Amblyopsid cavefishes (Teleostei: Amblyopsidae): loss of function in rhodopsin of cavefishes. Evolution, 67, 732–748.
  37. Page, L.M. & Burr, B.M. (2011) Peterson field guide to freshwater fishes of North America north of Mexico. Houghton Mifflin Harcourt, Boston, Massachusetts, 663 pp.
  38. Peterson, B.K., Weber, J.N., Kay, E.H., Fisher, H.S. & Hoekstra, H.E. (2012) Double Digest RADseq: An inexpensive method for de novo SNP discovery and genotyping in model and non-model species In: Orlando, L. (Ed.), PLoS ONE, 7, e37135.
  39. Pina-Martins, F., Silva, D.N., Fino, J. & Paulo, O.S. (2017) Structure_threader : An improved method for automation and parallelization of programs structure , fastStructure and MavericK on multicore CPU systems. Molecular Ecology Resources, 17, e268–e274.
  40. Poly, W.J. (2004) Family Aphredoderidae Bonaparte 1846—pirate perches. California Academy of Sciences Annotated Checklists of Fishes, 24, 1–5.
  41. Pritchard, J.K., Stephens, M. & Donnelly, P. (2000) Inference of population structure using multilocus genotype data. Genetics, 155, 945–959.
  42. Sabaj, M.H. (2020) Codes for Natural History Collections in Ichthyology and Herpetology. Copeia, 108, 108 (3), 593–669.
  44. Stamatakis, A. (2014) RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics, 30, 1312–1313.
  45. Suttkus, R.D. & Mettee, M.F. (2001) Analysis of four species of Notropis included in the subgenus Pteronotropis fowler, with comments on relationships, origins, and dispersion. Geological Survey of Alabama Bulletin, 170, 1–50.
  46. Warren, M.L. (1992) Variation of the Spotted Sunfish, Lepomis punctatus complex (Centrarchidae): meristies, morphometries, pigmentation and species limits. Bulletin of the Alabama Museum of Natural History, 12, 1–57.
  47. Weir, B.S. & Cockerham, C.C. (1984) Estimating F-statistics for the analysis of population structure. evolution, 1984, 1358–1370.