Publications

55. Eakin, R.R., J.T. Eastman, and T.J. Near. In press. A new species and a molecular phylogenetic analysis of the Antarctic fish genus Pogonophryne (Notothenioidei: Artedidraconidae). Copeia.

54. Keck, B.P. and T.J. Near. In press.. Patterns of natural hybridization in darters (Percidae: Etheostomatinae). Copeia.

53. Kuhn, K.L. and T.J. Near. In press. Phylogeny of Trematomus (Notothenioidei: Nototheniidae) inferred from mitochondrial and nuclear gene sequences. Antarctic Science.

52. Ayache, N.C. and T.J. Near. 2009. The utility of morphological data in resolving the phylogenetic relationships of darters as exemplified with Etheostoma (Teleostei: Percidae). Bulletin of the Peabody Museum of Natural History. 50:327-346. [PDF file]

51. Pasachnik, S.A., B.M. Fitzpatrick, T.J. Near, and A. C. Echternacht. 2009. Gene flow between an endangered endemic iguana, and its wide spread relative, on the island of Utila, Honduras: When is hybridization a threat? Conservation Genetics. 10:1247-1254. [PDf file]

50. Near, T.J. 2009. Conflict and resolution between phylogenies inferred from molecular and phenotypic datasets for hagfish, lampreys, and gnathostomes. Journal of Experimental Zoology Part B: Molecular and Developmental Evolution. 312B:749-761. [PDF file]

49. Kazancioglu, E., T.J. Near, R. Hanel, and P.C. Wainwright. 2009. Influence of feeding functional morphology and sexual selection on diversification rate of parrotfishes (Scaridae). Proceedings of the Royal Society B. 276:3449-3446. [PDF file]

48. Heckman, K.L., T.J. Near, and S.H. Alonzo. 2009. Phylogenetic relationships among Boleosoma darter species. Molecular Phylogenetics and Evolution. 53:249-257. [PDF file]

47. Bossu, C.M. and T.J. Near. 2009. Gene trees reveal repeated instances of mitochondrial DNA introgression in orangethroat darters (Percidae: Etheostoma). Systematic Biology. 58:114-129. [PDF file]

46. Collar, D.C, B.C. O’Meara, P.C. Wainwright, and T.J. Near. 2009. Piscivory limits diversification of feeding morphology in centrarchid fishes. Evolution. 63:1557-1573. [PDF file]
This paper was selected for an Editor’s Choice. Evolution: Unable to diversify. Science 325: 12. [PDF file]

45. Carlson, R.C., P.C. Wainwright, and T.J. Near. 2009. Relationship between species co-occurrence and rate of morphological change in Percina darters (Percidae: Etheostomatinae). Evolution. 63:767-778. [PDF file]

44. Kuhn, K.L., T.J. Near, C.D. Jones, and J.T. Eastman. 2009. Aspects of the biology and population genetics of the Antarctic nototheniid fish Trematomus nicolai. Copeia. 2009: 320-327. [PDF file]

43. Near, T.J., C.D. Jones, and J.T. Eastman. 2009. Geographic intraspecific variation in buoyancy within each of four species of Antarctic notothenioid fishes. Antarctic Science. 21:123-129. [PDF file]

42. Hollingsworth, P.R. and T.J. Near.  2009.  Temporal patterns of diversification and microendemism in Eastern Highland endemic barcheek darters (Percidae: Etheostomatinae).  Evolution. 63:228-243. [PDF file]

41. Kawahara, R., M. Miya, K. Mabuchi, T.J. Near, and M. Nishida. 2009. Stickleback phylogenies resolved: Evidence from mitochondrial genomes and 11 nuclear genes. Molecular Phylogenetics and Evolution. 50:401-404. [PDF file]

40. Jones, C.D., M.E. Anderson, A.V. Balushkin, G. Duhamel, R.R. Eaking, J.T. Eastman, K.L. Kuhn, G. Lecointre, T.J. Near, A.W. North, D.L. Stein, M. Vacchi, H.W. Detrich III.  2008.  Abundance, new records and population structure of Antarctic demersal fishes from the northern Scotia Arc islands and Bouvetøya.  Polar Biology. 31:1481-1497. [PDF file]

39. Near, T.J. and C.-H.C. Cheng.  2008. Phylogenetics of notothenioid fishes (Teleostei:  Acanthomorpha):  Inferences from mitochondrial and nuclear gene sequences.  Molecular Phylogenetics and Evolution.  47:832-840. [PDF file]

38. Near, T.J.  2008. Rescued from synonymy:  Percina bimaculata Haldeman, and a molecular phylogenetic analysis of logperch darters (Percidae:  Etheostomatinae).  Bulletin of the Peabody Museum of Natural History.  49:1-18. [PDF file]

37. Bolnick, D.I., M. Turelli, H. López-Fernández, P.C. Wainwright, and T.J. Near.  2008.  Accelerated mitochondrial evolution and ‘Darwin’s corollary’:  Asymmetric viability of reciprocal F1 hybrids in centrarchid fishes. Genetics.  178:1037-1048. [PDF file]

36. Keck, B.P. and T.J. Near.  2008.  Assessing phylogenetic resolution among mitochondrial, nuclear, and morphological datasets in Nothonotus darters (Teleostei: Percidae). Molecular Phylogenetics and Evolution.  46:708-720. [PDF file]

35. Near, T.J., P.A. Meylan, and H.B. Shaffer.  2008.  Caveats on the use of fossil calibrations for molecular dating:  A reply to Parham and Irmis.  American Naturalist.  171:137-140. [PDF file]

34. Iverson, J.B., R.M. Brown, T.S. Akre, T.J. Near, M. Le, R.C. Thompson, and D.E. Starkey.  2007.  In search of the tree of life for turtles.  Chelonian Research Monographs.  4:85-106. [PDF file]

33. Page, L.M. and T.J. Near.  2007.  A new darter from the Upper Tennessee River Drainage related to Percina macrocephala (Percidae; Etheostomatinae).  Copeia.  605-613. [PDF file]

32. Mittelbach, G.G., D. Schemske, H.V. Cornell, A.P. Allen, J.M. Brown, M. Bush, S.P. Harrison, A.H. Hurlbert, N. Knowlton, H.A. Lessios, C.M. McCain, A.R. McCune, L.A. McDade, M.A. McPeek, T.J. Near, T.D. Price, R.E. Ricklefs, K. Roy, D.F. Sax, D. Schluter, J.M. Sobel, M. Turelli. 2007. Evolution and the latitudinal diversity gradient: Speciation, extinction, and biogeography. Ecology Letters. 10:315-331. [PDF file]

31. Near, T.J., B.J. Kendrick, H.W. Detrich, III, and C.D. Jones.  2007.  Confirmation of neutral buoyancy in Aethotaxis mitopteryx DeWitt (Notothenioidei:  Nototheniidae).  Polar Biology. 
30:443-447. [PDF file]

30. Near, T.J., S. Parker, and H.W. Detrich, III.  2006.  A genomic fossil reveals key steps in hemoglobin loss by the Antarctic icefishes. Molecular Biology and Evolution.  23:2008-2016.
[PDF file]

29. Near, T.J. and M. Hardman.  2006.  Phylogenetic relationships of Noturus stanauli and N. crypticus, two imperiled freshwater fish species from the southeastern United States.  Copeia.  2006:378-383. [PDF file]

28. Bolnick, D.I, T.J. Near, D.C. Collar, and P.C. Wainwright.  2006.  Divergence in an ecologically significant trait promotes post-zygotic reproductive isolation. Evolutionary Ecology Research.  8:903-913. [PDF file]

27. Near, T.J. and B.P. Keck.  2005.  Dispersal, vicariance, and timing of diversification in Nothonotus darters.  Molecular Ecology.  14:3485-3469. [PDF file]

26. Collar, D.C., T.J. Near, and P.C. Wainwright.  2005  .  Comparative analysis of morphological diversity:  trophic evolution in centrarchid fishes. Evolution.  59:1783-1794. [PDF file]

25. Near, T.J., D.I. Bolnick, and P.C. Wainwright.  2005.  Fossil calibrations and molecular divergence time estimates in centrarchid fishes (Teleostei:  Centrarchidae).  Evolution.  59:1768-1782.
[PDF file]

24. Bolnick, D.I. and T.J. Near.  2005  Tempo of hybrid inviability in centrarchid fishes (Teleostei:  Centrarchidae).  Evolution.  59:1754-1767. [PDF file]

23. Near, T.J., P.A. Meylan, and H.B. Shaffer.  2005. Assessing concordance of fossil calibration points in molecular clock studies:  an example using turtles.  American Naturalist.  165:137-146. [PDF file]

22. Near, T.J. and M.F. Benard.  2004.  Rapid allopatric speciation in logperch darters.  Evolution.  58:2798-2808. [PDF file]

21. Near, T.J. and M.J. Sanderson.  2004.  Assessing the quality of molecular divergence time estimates by fossil calibrations and fossil-based model selection. Philosophical Transactions of the Royal Society:  Biological Sciences.  359:1477-1483. [PDF file]

20. Near, T. J., J.J. Pesavento, and C.H. Cheng.  2004.  Phylogenetic investigations of Antarctic notothenioid fishes (Perciformes:  Notothenioidei) using complete gene sequences of the mitochondrial encoded 16S rRNA. Molecular Phylogenetics and Evolution.  32:881-891 [PDF file]

19. Near, T.J., D.I. Bolnick, and P.C. Wainwright.  2004.  Investigating phylogenetic relationships of sunfishes and black basses (Actinopterygii:  Centrarchidae) using DNA sequences from mitochondrial and nuclear genes. Molecular Phylogenetics and Evolution.  32:344-357. [PDF file]

18. Hulsey, C.D., F. J. García de León, Y. Sánchez Johnson, D.A. Hendrickson, T.J. Near.  2004.  Temporal diversification of Mesoamerican cichlid fishes across a major biogeographic boundary. Molecular Phylogenetics and Evolution.  31:754-764. [PDF file]

17. Near, T.J. 2004.  Estimating divergence times of notothenioid fishes using a fossil-calibrated molecular clock. Antarctic Science.  16:37-44. [PDF file]

16. Cheng, C. -H. C., L. Chen, T.J. Near, and Y. Jin.  2003. Functional antifreeze glycoprotein genes in temperate-water New Zealand nototheniid fish infer an Antarctic origin of speciation.  Molecular Biology and Evolution. 20:1897-1908. [PDF file]

15. Page, L.M., M. Hardman, and T.J. Near.  2003.  Phylogenetic relationships of barcheek darters (Percidae: Etheostoma, Subgenus Catonotus) with descriptions of two new species.  Copeia.  2003:512-530. [PDF file]

14. Near, T.J., T.W. Kassler, J.B. Koppelman, C.B. Dillman, and D.P. Phillip.  2003.  Speciation in North American black basses, Micropterus (Actinopterygii:  Centrarchidae).  Evolution.  57:1610-1621. [PDF file]

13. Near, T. J., J.J. Pesavento, and C.H. Cheng.  2003.  Mitochondrial DNA, morphology, and the phylogenetic relationships of Antarctic icefishes (Notothenioidei:  Channichthyidae).  Molecular Phylogenetics and Evolution.  28:87-98. [PDF file]

12. Near, T. J., S.E. Russo, C.D. Jones, and A.L. DeVries.  2003.  Ontogenetic shift in buoyancy and habitat in the Antarctic toothfish, Dissostichus mawsoni (Perciformes:  Nototheniidae).  Polar Biology.  26:124-128. [PDF file]

11. T. W. Kassler, J. B. Koppelman, T. J. Near, C. B. Dillman, J. M. Levengood, D. L. Swofford, J. L. VanOrman, J. E. Claussen, and D. P. Philipp.  2002.  Molecular and morphological analyses of the black basses (Micropterus):  Implications for taxonomy and conservation.  D.P. Philipp and M. S. Ridgeway, editors.  American Fisheries Society Symposium.  31: 291-322. [PDF file]

10. Near, T. J.   2002.  Phylogeny of the Acanthocephala and insights into the evolution of parasitism.  Integrative and Comparative Biology (formerly American Zoologist).  42:668-677. [PDF file]

9. Near, T. J.  2002.  Phylogenetic relationships of Percina  (Percidae:  Etheostomatinae).  Copeia.  2002:1-14. [PDF file]

8. Near, T. J., L.M. Page, and R. L. Mayden.  2001.  Intraspecific phylogeography of Percina evides (Percidae:  Etheostomatinae):  An additional test of the Central Highlands pre-Pleistocene vicariance hypothesis.  Molecular Ecology.  10:2235-2240. [PDF file]

7. Near, T. J., J. C. Porterfield, and L. M. Page.  2000.  Evolution of cytochrome b and the molecular systematics of Ammocrypta (Percidae:  Etheostomatinae).  Copeia.  2000:701-711. [PDF file]

6.  Porterfield, J. C., L. M. Page, and T. J. Near.  1999.  Phylogenetic analysis among fantail darters (Percidae:  Etheostoma:  Catonotus):  Total evidence analysis of morphological and molecular data.  Copeia.  1999:551-564. [PDF file]

5.  Garey, J.R., A. Schmidt-Rhaesa, T. J. Near, & S. A. Nadler.  1998.  The evolutionary relationships of rotifers and acanthocephalans. Hydrobiologia.  387/388:83-91. [PDF file]

4. Near, T. J., J. R. Garey, and S. A. Nadler. 1998.  Phylogenetic relationships of the Acanthocephala inferred from 18S ribosomal DNA sequences.  Molecular Phylogenetics and Evolution.  10:287-298. [PDF file]

3.  Song, C. B., T. J. Near, and L. M. Page.  1998.  Phylogenetic relationships among percid fishes as inferred from mitochondrial cytochrome b DNA sequence data.  Molecular Phylogenetics and Evolution.  10:343-353. [PDF file]

2.  Garey, J. R., T. J. Near, M. R. Nonnemacher and S. A. Nadler.  1996.  Molecular evidence for Acanthocephala as a sub-taxon of Rotifera.  Journal of Molecular Evolution.  43:287-292.
[PDF file]

1.  Nadler, S.A., R.L.  Lindquist, and T.J. Near.  1995.  Genetic structure of Midwestern Ascaris suum populations:  A comparison of isozyme and RAPD markers.  Journal of Parasitology.  81:385-394. [PDF file]

Book Chapters and Other Publications

OP4. Warren, M.L. and T.J. Near. In Press. Centrarchidae. In: North American freshwater fishes: ecology, evolution, and behavior. Eds. R.L. Mayden and B.M. Burr. Academic Press.

OP3. Near, T.J. and J. B. Koppelman. 2009. Species diversity, phylogeny, and phylogeography of Centrarchidae. Pp. 1-38. In: Centrarchid fishes: Diversity, biology, and conservation. Eds. S.J. Cooke and D.P. Philipp. Blackwell Science. [PDF file]

OP2. Near, T.J. 2009. Notothenioidei. Pp. 339-343. In: Timetree of Life. Eds. S.B. Hedges and S. Kumar. Oxford University Press. [PDF file]

OP1. Near, T.J. and M. Miya. 2009. Actinopterygii. Pp. 328-331. In: Timetree of Life. Eds. S.B. Hedges and S. Kumar. Oxford University Press. [PDF file]