SEARCH

SEARCH BY CITATION

LITERATURE CITED

  • Alfaro, M. E., F. Santini, C. Brock, H. Alamillo, A. Dornburg, D. L. Rabosky, G. Carnevale, and L. J. Harmon. 2009. Nine exceptional radiations plus high turnover explain species diversity in jawed vertebrates. Proc. Nat. Acad. Sci. USA 106:1341013414.
  • Benton, M. J., A. M. Dunhill, G. T. Lloyd, and F. G. Marx. 2011. Assessing the quality of the fossil record: insights from vertebrates. Geol. Soc. Lond. Spec. Publ. 358:6394.
  • Betancur-R, R., R. E. Broughton, E. O. Wiley, K. Carpenter, J. A. López, C. Li, N. I. Holcroft, D. Arcila, M. Sanciangco, J. C. Cureton II, et al. 2013. The tree of life and a new classification of bony fishes. PLOS Cur. Tree of Life Apr 18. Edition 1. doi: 10.1371/currents.tol.53ba26640df0ccaee75bb165c8c26288.
  • Boisserie, J. R., R. E. Fisher, F. Lihoreau, and E. M. Weston. 2011. Evolving between land and water: key questions on the emergence and history of the Hippopotamidae (Hippopotamoidea, Cetancodonta, Cetartiodactyla). Biol. Rev. 86:601625.
  • Boreske, J. R. Jr. 1974. A review of the North American fossil amiid fishes. Bull. Mus. Comp. Zool. 146:187.
  • Boulenger, G. A. 1909. Catalogue of the freshwater fishes of Africa in the British Museum (Natural History). Vol. I. British Museum of Natural History, London.
  • Brandley, M. C., A. Schmitz, and T. W. Reeder. 2005. Partitioned Bayesian analyses, partition choice, and the phylogenetic relationships of scincid lizards. Syst. Biol. 54:373390.
  • Britz, R. 2004. Polypterus teugelsi, a new species of bichir from the Upper Cross River system in Cameroon (Actinopterygii: Cladistia: Polypteridae). Ichthyol. Explor. Fres. 15:179189.
  • Britz, R., and P. Bartsch. 2003. The myth of dorsal ribs in gnathostome vertebrates. Proc. R. Soc. Lond. B Bio. 270:S1-S4.
  • Britz, R., and G. D. Johnson. 2003. On the homology of the posteriormost gill arch in polypterids (Cladistia, Actinopterygii). Zool. J. Linn. Soc. 138:495503.
  • Broughton, R. E., R. R. Betancur, C. Li, G. Arratia, and G. Orti. 2013. Multi-locus phylogenetic analysis reveals the pattern and tempo of bony fish evolution. PLOS Cur. Tree of Life Apr 16. Edition 1. doi: 10.1371/currents.tol.2ca8041495ffafd0c92756e75247483e.
  • Casane, D., and P. Laurenti. 2013. Why coelacanths are not “living fossils” A review of molecular and morphological data. Bioessays 35:332338.
  • Cavin, L. 2008. Palaeobiogeography of Cretaceous bony fishes (Actinistia, Dipnoi and Actinopterygii). Geol. Soc. Spec. Publ. 295:165183.
  • Cavin, L., H. Tong, L. Boudad, C. Meister, A. Piuz, J. Tabouelle, M. Aarab, R. Amoit, E. Buffetaut, G. Dyke, et al. 2010. Vertebrate assemblages from the early Late Cretaceous of southeastern Morocco: an overview. J. Afr. Earth Sci. 57:391412.
  • Coates, M. I. 1999. Endocranial preservation of a Carboniferous actinopterygian from Lancashire, UK, and the interrelationships of primitive actinopterygians. Phil. Trans. R. Soc. B 354:435462.
  • Darwin, C. 1859. On the origin of species. John Murray, London.
  • Drummond, A. J., S. Y. W. Ho, M. J. Phillips, and A. Rambaut. 2006. Relaxed phylogenetics and dating with confidence. PLOS Biol. 4:699710.
  • Drummond, A. J., and A. Rambaut. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 7:214.
  • Dutheil, D. B. 1999. An overview of the freshwater fish fauna from the Kem Kem beds (Late Cretaceous: Cenomanian) of southeastern Morocco. Pp. 553563 in G. Arratia and H.-P. Schultze, eds. Mesozoic fishes 2—systematics and fossil record. Verlag Dr. Friedrich Pfeil, Munich, Germany.
  • Eldredge, N., and S. J. Gould. 1972. Punctuated equilibria: an alternative to phyletic gradualism. Pp. 82115 in T. J. M. Schopf, ed. Models in paleobiology. Freeman, Cooper and Co., San Francisco, CA.
  • Eschmeyer, W. N., and R. Fricke. 2012. Catalog of Fishes electronic version (12 Jan 2012). California Academy of Sciences, San Francisco. Available at http://research.calacademy.org/research/ichthyology/catalog/fishcatmain.asp.
  • Fernández-Javlo, Y., C. Denys, P. Andrews, T. Williams, Y. Dauphin, and L. Humphrey. 1998. Taphonomy and palaeoecology of Olduvai Bed-I (Pleistocene, Tanzania). J. Hum. Evol. 34:137172.
  • Fisher, D. C. 1990. Rate of evolution—living fossils. Pp. 152159 in D. E. G. Briggs and P. R. Crowther, eds. Palaeobiology: a synthesis. Blackwell Scientific, Oxford, U.K.
  • Friedman, M., and L. C. Sallan. 2012. Five hundred million years of extinction and recovery: a Phanerozoic survey of large-scale diversity patterns in fishes. Palaeontology 55:707742.
  • Friedman, M., B. P. Keck, A. Dornburg, R. I. Eytan, C. H. Martin, C. D. Hulsey, P. C. Wainwright, and T. J. Near. 2013. Molecular and fossil evidence place the origin of cichlid fishes long after Gondwanan rifting. Proc. R. Soc. B Biol. Sci. 280:20131733.
  • Gardiner, B. G. 1984. Sturgeons as living fossils. Pp. 148152 in N. Eldredge and S. M. Stanley, eds. Living fossils. Springer-Verlag, New York.
  • Gardiner, B. G., and B. Schaeffer. 1989. Interrelationships of lower actinopterygian fishes. Zool. J. Linn. Soc. 97:135187.
  • Gayet, M., F. J. Meunier, and C. Werner. 2002. Diversification in Polypteriformes and special comparison with the Lepisosteiformes. Palaeontology 45:361376.
  • Goodrich, E. S. 1928. Polypterus a palaeoniscid? Palaeobiologica 1:8792.
  • Gould, S. J. 2002. The structure of evolutionary theory. Harvard Univ. Press, Cambridge, U.K.
  • Gould, S. J., and N. Eldredge. 1977. Punctuated equilibria: the tempo and mode of evolution reconsidered. Paleobiology 3:115151.
  • Grande, L. 2010. An empirical and synthetic pattern study of gars (Lepisosteiformes) and closely related species, based mostly on skeletal anatomy. The resurrection of Holostei. Am. Soc. Ich. Herp. Spec. Pub. 6:1871.
  • Grande, L., and W. E. Bemis. 1998. A comprehensive phylogenetic study of amiid fishes (Amiidae) based on comparative skeletal anatomy. An empirical search for interconnected patterns of natural history. J. Vert. Paleo. 18 (Memoir 4):1690.
  • Grandstaff, B. S., J. B. Smith, M. C. Lamanna, K. J. Lacovara, and M. S. Abdel-Ghani. 2012. Bawitius, Gen. Nov., a giant polypterid (Osteichthyes, Actinopterygii) from the Upper Cretaceous Bahariya Formation of Egypt. J. Vert. Paleo. 32:1726.
  • Greenwood, P. H. 1984. Polypterus and Erpetoichthys: anachronistic osteichthyans. Pp. 143147 in N. Eldredge, and S. M. Stanley, eds. Living fossils. Springer-Verlag, New York.
  • Hanssens, M. M., G. G. Teugels, and D. F. E. Thys Van DenAudenaerde. 1995. Subspecies in the Polypterus palmas complex (Brachiopterygii: Polypteridae) from west and central Africa. Copeia 1995:694705.
  • Heled, J., and A. J. Drummond. 2010. Bayesian inference of species trees from multilocus data. Mol. Biol. Evol. 27:570580.
  • Jessen, H. L. 1973. Interrelationships of actinopterygians and brachiopterygians: evidence from pectoral anatomy. Pp. 227232 in P. H. Greenwood, R. S. Miles, and C. Patterson, eds. Interrelationships of fishes. Academic Press, London.
  • Kass, R. E., and A. E. Raftery. 1995. Bayes factors. J. Am. Stat. Assoc. 90:773795.
  • Kikugawa, K., K. Katoh, S. Kuraku, H. Sakurai, O. Ishida, N. Iwabe, and T. Miyata. 2004. Basal jawed vertebrate phylogeny inferred from multiple nuclear DNA-coded genes. BMC Biol. 2:111.
  • Li, C. H., G. Ortí, G. Zhang, and G. Q. Lu. 2007. A practical approach to phylogenomics: the phylogeny of ray-finned fish (Actinopterygii) as a case study. BMC Evol. Biol. 7:44.
  • Lloyd, G. T. 2012. A refined modelling approach to assess the influence of sampling on palaeobiodiversity curves: new support for declining Cretaceous dinosaur richness. Biol. Lett. 8:123126.
  • Lloyd, G. T., and M. Friedman. 2013. A survey of palaeontological sampling biases in fishes based on the Phanerozoic record of Great Britain. Palaeogeogr. Palaeoclimat. Palaecol. 372:517.
  • Long, J. A., and K. Trinajstic. 2010. The late Devonian gogo formation lagerstatte of western Australia: exceptional early vertebrate preservation and diversity. Annu. Rev. Earth Planet. Sci. 38:255279.
  • Lopez, J. A., W. J. Chen, and G. Ortí. 2004. Esociform phylogeny. Copeia 2004:449464.
  • Mathers, T. C., R. L. Hammond, R. A. Jenner, B. Hänfling, and A. Gómez. 2013. Multiple global radiations in tadpole shirmps challenge the concept of “living fossils”. PeerJ 1:e62. Doi:10.7717/peerj.62.
  • McKinney, M. L. 1990. Classifying and analysing evolutionary trends. Pp. 2858 in K. J. McNamara, ed. Evolutionary trends. Bellhaven, London.
  • Morlon, H., T. L. Parsons, and J. B. Plotkin. 2011. Reconciling molecular phylogenies with the fossil record. Proc. Nat. Acad. Sci. USA 108:1632716332.
  • Murray, A. M. 2000. The Palaeozoic, Mesozoic and early Cenozoic fishes of Africa. Fish Fish. 1:111145.
  • Nagalingum, N. S., C. R. Marshall, T. B. Quental, H. S. Rai, D. P. Little, and S. Mathews. 2011. Recent synchronous radiation of a living fossil. Science 334:796799.
  • Near, T. J., A. Dornburg, K. L. Kuhn, J. T. Eastman, J. N. Pennington, T. Patarnello, L. Zane, D. A. Fernandez, and C. D. Jones. 2012a. Ancient climate change, antifreeze, and the evolutionary diversification of Antarctic fishes. Proc. Nat. Acad. Sci. USA 109:34343439.
  • Near, T. J., R. I. Eytan, A. Dornburg, K. L. Kuhn, J. A. Moore, M. P. Davis, P. C. Wainwright, M. Friedman, and W. L. Smith. 2012b. Resolution of ray-finned fish phylogeny and timing of diversification. Proc. Nat. Acad. Sci. USA 109:1369813703.
  • Near, T. J., A. Dornburg, R. I. Eytan, B. P. Keck, W. L. Smith, K. L. Kuhn, J. A. Moore, S. A. Price, F. T. Burbrink, M. Friedman, et al. 2013. Phylogeny and tempo of diversification in the super radiation of spiny-rayed fishes. Proc. Nat. Acad. Sci. USA 110:1273812743.
  • Otero, O., A. Likius, P. Vignaud, and M. Brunet. 2006. A new polypterid fish: Polypterus faraou sp nov (Cladistia, Polypteridae) from the Late Miocene, Toros-Menalla, Chad. Zool. J. Linn. Soc. 146:227237.
  • Otero, O., A. Pinton, H. T. Mackaye, A. Likius, P. Vignaud, and M. Brunet. 2009. Fishes and palaeogeography of the African drainage basins: relationships between Chad and neighbouring basins throughout the Mio-Pliocene. Palaeogeogr. Palaeoclimat. Palaecol. 274:134139.
  • Patterson, C. 1982. Morphology and interrelationships of primitive actinopterygian fishes. Am. Zool. 22:241259.
  • Peters, S. E., and M. Foote. 2001. Biodiversity in the Phanerozoic: A reinterpretation. Paleobiology 27:583601.
  • Pobiner, B. L., M. J. Rogers, C. M. Monahan, and J. W. K. Harris. 2008. New evidence for hominin carcass processing strategies at 1.5 Ma, Koobi For a, Kenya. J. Hum. Evol. 55:103130.
  • Rabosky, D. L., F. Santini, J. Eastman, S. A. Smith, B. Sidlauskas, J. Chang, and M. E. Alfaro. 2013. Rates of speciation and morphological evolution are correlated across the largest vertebrate radiation. Nat. Commun. 4:1958.
  • Raup, D. M. 1972. Taxonomic diversity during the Phanerozoic. Science 177:10651071.
  • Ronquist, F., M. Teslenko, P. van der Mark, D. L. Ayres, A. Darling, S. Hohna, B. Larget, L. Liu, M. A. Suchard, and J. P. Huelsenbeck. 2012. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst. Biol. 61:539542.
  • Santini, F., L. J. Harmon, G. Carnevale, and M. E. Alfaro. 2009. Did genome duplication drive the origin of teleosts? A comparative study of diversification in ray-finned fishes. BMC Evol. Biol. 9:164.
  • Schopf, T. J. M. 1984. Rates of evolution and the notion of living fossils. Annu. Rev. Earth Planet. Sci. 12:245292.
  • Schultze, H. P., and E. O. Wiley. 1984. The neopterygian Amia as a living fossil. Pp. 153159 in N. Eldredge and S. M. Stanley, eds. Living fossils. Springer-Verlag, New York.
  • Sepulchre, P., G. Ramstein, F. Fluteau, M. Schuster, J. J. Tiercelin, and M. Brunet. 2006. Tectonic uplift and Eastern Africa aridification. Science 313:14191423.
  • Simpson, G. G. 1953. The major features of evolution. Columbia Univ. Press, New York.
  • Slater, G. J., L. J. Harmon, and M. E. Alfaro. 2012. Integrating fossils with molecular phylogenies improves inference of trait evolution. Evolution 66:39313944.
  • Smith, A. B., and A. McGowan. 2007. The shape of the Phanerozoic marine paleobiodiveristy curve: how much can be predicted from the sedimentary rock record of western Europe? Palaeontology 50:765774.
  • Stadler, T. 2011. Mammalian phylogeny reveals recent diversification rate shifts. Proc. Nat. Acad. Sci. USA 108:61876192.
  • Stanley, S. M. 1975. A theory of evolution above the species level. Proc. Nat. Acad. Sci. USA 72:646650.
  • Stanley, S. M. 1979. Macroevolution, pattern and process. W. H. Freeman, San Francisco, CA.
  • Sullivan, J. P., J. G. Lundberg, and M. Hardman. 2006. A phylogenetic analysis of the major groups of catfishes (Teleostei: Siluriformes) using rag1 and rag2 nuclear gene sequences. Mol. Phylogenet. Evol. 41:636662.
  • Suzuki, D., M. C. Brandley, and M. Tokita. 2010a. The mitochondrial phylogeny of an ancient lineage of ray-finned fishes (Polypteridae) with implications for the evolution of body elongation, pelvic fin loss, and craniofacial morphology in Osteichthyes. BMC Evol. Biol. 10:209.
  • Suzuki, D., M. C. Brandley, and M. Tokita. 2010b. The mitochondrial phylogeny of an ancient lineage of ray-finned fishes (Polypteridae) with implications for the evolution of body elongation, pelvic fin loss, and craniofacial morphology in Osteichthyes. BMC Evol. Biol. 10:21.
  • Vignaud, P., P. Duringer, H. T. Mackaye, A. Likius, C. Blondel, J. R. Boisserie, L. de Bonis, V. Eisenmann, M. E. Etienne, D. Geraads, et al. 2002. Geology and palaeontology of the Upper Miocene Toros-Menalla hominid locality, Chad. Nature 418:152155.
  • Wagner, C. E., L. J. Harmon, and O. Seehausen. 2012. Ecological opportunity and sexual selection together predict adaptive radiation. Nature 487:366369.
  • Wagner, G. P., and L. Altenberg. 1996. Complex adaptations and the evolution of evolvability. Evolution 50:967976.
  • Werner, C., and M. Gayet. 1997. New fossil Polypteridae from the Cenomanian of Sudan. An evidence of their high diversity in the early Late Cretaceous. Cybium 21:6781.
  • Wiley, E. O., and H.-P. Schultze. 1984. Family Lepisosteidae (gars) as living fossils. Pp. 160165 in N. Eldredge and S. M. Stanley, eds. Living fossils. Springer-Verlag, New York.
  • Wright, J. J., S. R. David, and T. J. Near. 2012. Gene trees, species trees, and morphology converge on a similar phylogeny of living gars (Actinopterygii: Holostei: Lepisosteidae), an ancient clade of ray-finned fishes. Mol. Phylogenet. Evol. 63:848856.

Associate Editor: R. Brumfield