Publications

In 2013, KU Ichthyology published 17 papers in peer-reviewed journals.


Many in KU Ichthyology teamed up to publish a study demonstrating that specialized light-producing organs in lanternfishes facilitate speciation in the deep sea.

http://link.springer.com/article/10.1007%2Fs00227-014-2406-x

Davis, M.P., Holcroft, N.I., Wiley, E.O., Sparks, J.S., and Smith, W.L. 2014. Species-specific bioluminescence facilitates speciation in the deep sea. Marine Biology 161: 1139-1148.


Curator-in-charge Leo Smith and research affiliate Matthew Davis co-authored a study demonstrating that biofluorescence was actually widespread in fishes and highly variable among species and between sexes.

http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0083259

Sparks, J.S., Schelly, R.C., Smith, W.L., Davis, M.P., Tchernov, D., Pieribone, V.A., and Gruber, D.F. 2014. The covert world of fish biofluorescence: A phylogenetically widespread and phenotypically variable phenomenon. PLoS ONE 9: e83259.


Research Afflilate Gloria Arratia published the first explicit review of the early teleostean group, Pholidiformes, in a special issue of the Journal of Vertebrate Paleontology

http://www.bioone.org/doi/abs/10.1080/02724634.2013.835642

Arratia, G. 2013. Morphology, taxonomy, and phylogeny of Triassic pholidophorid fishes (Actinopterygii, Teleostei). Journal of Vertebrate Paleontology, Memoir 13, 1-138.


Currator-in-charge Leo Smith co-authored a study on that explored the timing and diversification of spiny-rayed fishes, a group that includes nearly 1/3 of all vertebrates. 

http://www.pnas.org/content/early/2013/07/10/1304661110.abstract

Near, T.J., Dornburg, A., Eytan, R.I., Keck, B.P., Smith, W.L., Kuhn, K.L, Moore, J.A., Price, S.A., Burbrink, F.T., Friedman, M., and Wainwright, P.C. 2013. Phylogeny and tempo of diversification in the superradiation of spiny-rayed fishes. Proceedings of the National Academy of Sciences 110:12738-12743. 


Curator emeritus Ed Wiley, research associate Nancy Holcroft, and research affiliate Gloria Arratia were part of a national team of researchers that proposed a new taxonomy of bony fishes based on DNA sequence data.

http://currents.plos.org/treeoflife/article/the-tree-of-life-and-a-new-classification-of-bony-fishes/

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, 10.1371.


Research affiliate Matthew Davis co-authored a monograph and phylogeny of the North American Topminnow Family Fundulidae, including a new subgenus named after Curator Emeritus Ed Wiley. 

http://www.bioone.org/toc/flae//7

Ghedotti, M.J., and Davis, M.P. 2013. Phylogeny, classification, and evolution of salinity tolerance of the North American topminnows and killifishes, Family Fundulidae (Teleostei: Cyprinodontiformes).  Fieldiana: Life and Earth Sciences. 7:1-65.

Publications:

2014

Davis, M.P., Holcroft, N.I., Wiley, E.O., Sparks, J.S., and Smith, W.L. 2014. Species-specific bioluminescence facilitates speciation in the deep sea. Marine Biology 161: 1139-1148.

Price, S.A., Schmitz, L., Oufiero, C.E., Eytan, R.I., Dornburg, A., Smith, W.L., Friedman, M., Near, T.J., and Wainwright, P.C. 2014. Two waves of colonization straddling the K–Pg boundary formed the modern reef fish fauna. Proceedings of the Royal Society of London, B 281: 20140321

Sparks, J.S., Schelly, R.C., Smith, W.L., Davis, M.P., Tchernov, D., Pieribone, V.A., and Gruber, D.F. 2014. The covert world of fish biofluoresence: A phylogenetically widespread and phenotypically variable phenomenon. PLoS ONE 9: e83259. 

Stewart, T.A., Smith, W.L., and Coates, M.I. 2014. The origins of adipose fins: An analysis of homoplasy and the serial homology of vertebrate appendages. Proceedings of the Royal Society of London, B 281: 20133120.

2013

Arratia, G. 2013. Morphology, taxonomy, and phylogeny of Triassic pholidophorid fishes. Memoir 13, Journal of Vertebrate Paleontology 23, Supplement to 6: 1-138.

Arratia, G., and Schultze, H.-P. 2013. Outstanding features of a new Late Jurassic pachycormiform fish from the Kimmeridgian of Brunn, Germany and comments on current understanding of pachycormiforms. Pages 87-120, In: Mesozoic Fishes 5–Global Diversity and Evolution. Arratia, G., Schultze, H.-P., and Wilson, M.V.H. (eds.). Verlag Dr. Friedrich Pfeil, München, Germany.

Betancur-R., R., Broughton, R.E. , Wiley, E.O., Carpenter, K., López, J.A., Li, C., Holcroft, N.I., Arcila, D., Sanciangco, M., Cureton, J., Zhang, F., Buser, T., Campbell, M., Rowley, T., Ballesteros, J.A., Lu, G., Grande, T., Arratia, G., and Ortí, G. 2013. The tree of life and a new classification of bony fishes. PLoSONE Currents Tree of Life. (doi:10.1371/currents.tol.53ba26640df0ccaee75bb165c8c26288)

Borden, W.C., Grande, T., and Smith, W.L. 2013. Comparative osteology and myology of the caudal fin in the Paracanthopterygii (Teleostei: Acanthomorpha). Pages 419-455, In: Mesozoic Fishes 5–Global Diversity and Evolution. Arratia, G., Schultze, H.-P., and Wilson, M.V.H. (eds.). Verlag Dr. Friedrich Pfeil, München, Germany.

Broughton, R.E., Betancur-R., R.,Li, C., Arratia, G., and Ortí, G. 2013. Multi-locus phylogenetic analysis reveals the pattern and tempo of bony fish evolution. PLoSONE Currents Tree of Life 2013, Apr 13. (doi:10.1371/currents.tol.2ca8041495ffafd0c92756e75247483e) 

Davis, M.P., Arratia, G., and Kaiser, T.M. 2013. The first Fossil Shellear (Gonorynchiformes: Kneriidae) from the Eocene lake of Mahenge (Tanzania). Pages 325-362, In: Mesozoic Fishes 5–Global Diversity and Evolution. Arratia, G., Schultze, H.-P., and Wilson, M.V.H. (eds.). Verlag Dr. Friedrich Pfeil, München, Germany.

Davis, M.P., Midford, P.E., and Maddison, W. 2013. Exploring power and parameter estimation of the BiSSE method for analyzing species diversification. BMC Evolutionary Biology. 13:38. 

Dikow, R.B. and Smith, W.L. 2013. Complete genome sequences provide a case study for the evaluation of gene-tree thinking. Cladistics 29:672-682.

Dikow, R.B. and Smith, W.L. 2013. Genome-level homology and phylogeny of Vibrionaceae (Gammaproteobacteria: Vibrionales) with three new complete genome sequences. BMC Microbiology 13:80.

Ghedotti, M.J., and Davis, M.P. 2013. Phylogeny, classification, and evolution of salinity tolerance of the North American topminnows and killifishes, Family Fundulidae (Teleostei: Cyprinodontiformes).  Fieldiana: Life and Earth Sciences. 7:1-65.

González-Rodríguez, K. A., Schultze, H.-P., and Arratia, G. 2013. Miniature armored teleosts from the Albian-Cenomanian (Cretaceous) of Mexico. Pages 457-487, In: Mesozoic Fishes 5–Global Diversity and Evolution. Arratia, G., Schultze, H.-P., and Wilson, M.V.H. (eds.). Verlag Dr. Friedrich Pfeil, München, Germany.

Grande, T., Borden, W.C., and Smith, W.L. 2013. Limits and relationships of Paracanthopterygii: A molecular framework for evaluating past morphological hypotheses. Pages 385-418, In: Mesozoic Fishes 5–Global Diversity and Evolution. Arratia, G., Schultze, H.-P., and Wilson, M.V.H. (eds.). Verlag Dr. Friedrich Pfeil, München, Germany.

McMahan, C.D., Chakrabarty, P., Sparks, J.S., Smith, W.L., and Davis, M.P. 2013. Temporal patterns of diversification across global cichlid biodiversity (Acanthomorpha: Cichlidae). PLoS ONE 8: e71162.

Near, T.J., Dornburg, A., Eytan, R.I., Keck, B.P., Smith, W.L., Kuhn, K.L, Moore, J.A., Price, S.A., Burbrink, F.T., Friedman, M., and Wainwright, P.C. 2013. Phylogeny and tempo of diversification in the superradiation of spiny-rayed fishes. Proceedings of the National Academy of Sciences 110:12738-12743.

Owens, H.L., Campbell, L.P., Dornak, L.L., Saupe, E.E., Barve, N., Soberon, J., Ingenloff, K., Lira-Noriega, A., Hensz, C.M., Myers, C.E., and Peterson, A.T. 2013. Constraints on interpretation of ecological niche models by limited environmental ranges on calibration areas. Ecological Modeling 263: 10-18.

Schultze, H.-P., and  Arratia, G. 2013. The caudal skeleton of basal teleosts, its conventions, and some of its major evolutionary novelties in a temporal dimension. Pages 187-246, In: Mesozoic Fishes 5–Global Diversity and Evolution. Arratia, G., Schultze, H.-P., and Wilson, M.V.H. (eds.). Verlag Dr. Friedrich Pfeil, München, Germany.

Tischlinger, H., and Arratia, G. 2013. Ultraviolet light as a tool of investigating Mesozoic fishes with a focus on the ichthyofauna of the Solnhofen Limestone. Pages 549-560, In: Mesozoic Fishes 5–Global Diversity and Evolution. Arratia, G., Schultze, H.-P., and Wilson, M.V.H. (eds.). Verlag Dr. Friedrich Pfeil, München, Germany.