Publications

Found 104 results
Author Title [ Type(Asc)] Year
Journal Article
Moran P, Reed KM, Pérez J, Oakley TH, Phillips RB, Garcia-Vazquez E, Pendas AM.  1997.  Physical localization and characterization of the BglI element in the genomes of Atlantic salmon (Salmo salar L.) and brown trout (S. trutta L.). Gene. 194:9–18.
Oakley TH, Wolfe JM, Lindgren AR, Zaharoff AK.  2013.  Phylotranscriptomics to Bring the Understudied into the Fold: Monophyletic Ostracoda, Fossil Placement, and Pancrustacean Phylogeny. Molecular biology and evolution. 30:215–233. (1.19 MB)
Oakley TH, Phillips RB.  1999.  Phylogeny of salmonine fishes based on growth hormone introns: Atlantic (Salmo) and Pacific (Oncorhynchus) salmon are not sister taxa. Molecular Phylogenetics and Evolution. 11:381–393.
Cadotte MW, T Davies J, Regetz J, Kembel SW, Cleland E, Oakley TH.  2010.  Phylogenetic diversity metrics for ecological communities: integrating species richness, abundance and evolutionary history. Ecology letters. 13:96–105.
Naughton HR, Alexandrou MA, Oakley TH, Cardinale BJ.  2015.  Phylogenetic distance does not predict competition in green algal communities. Ecosphere. 6:art116.
Domanico MJ, Phillips RB, Oakley TH.  1997.  Phylogenetic analysis of Pacific salmon (genus Oncorhynchus) using nuclear and mitochondrial DNA sequences. Canadian Journal of Fisheries and Aquatic Sciences. 54:1865–1872.
Hensley NM, Ellis EA, Gerrish GA, Torres E, Frawley JP, Oakley TH, Rivers TJ.  2019.  Phenotypic evolution shaped by current enzyme function in the bioluminescent courtship signals of sea fireflies. Proceedings of the Royal Society B. 286:20182621.
Oakley T, Alexandrou M, Ngo R, Pankey M, Churchill C, Chen W, Lopker K.  2014.  Osiris: accessible and reproducible phylogenetic and phylogenomic analyses within the Galaxy workflow management system. BMC Bioinformatics. 15:230.
Plachetzki DC, Degnan BM, Oakley TH.  2007.  The origins of novel protein interactions during animal opsin evolution. PLoS One. 2:e1054.
Battelle B-A, Kempler K, Saraf SR, Marten CE, Dugger DR, Spiser DI, Oakley TH.  2014.  Opsins in Limulus eyes: Characterization of three visible light-sensitive opsins unique to and co-expressed in median eye photoreceptors and a peropsin/RGR that is expressed in all eyes. The Journal of experimental biology. :jeb–116087.
Oakley TH, M Pankey S.  2008.  Opening the “black box”: the genetic and biochemical basis of eye evolution. Evolution: Education and Outreach. 1:390–402. (342.38 KB)
Rivera AS, Oakley TH.  2009.  Ontogeny of sexual dimorphism via tissue duplication in an ostracod (Crustacea). Evolution & Development. 11:233–243.
Bielecki J, Zaharoff AK, Leung NY, Garm A, Oakley TH.  2014.  Ocular and Extraocular Expression of Opsins in the Rhopalium of Tripedalia cystophora (Cnidaria: Cubozoa)). Plos One. 9(6)
Marxen JC, Pick C, Oakley TH, Burmester T.  2014.  Occurrence of Hemocyanin in Ostracod Crustaceans. Journal of Molecular Evolution. :1–9. (1.42 MB)
Plachetzki DC, Serb JM, Oakley TH.  2005.  New insights into the evolutionary history of photoreceptor cells. Trends in ecology & evolution. 20:465–467.
Rose MR, Oakley TH, .  2007.  The new biology: beyond the Modern Synthesis. Biology direct. 2:30.
Oakley TH.  2005.  Myodocopa (Crustacea: Ostracoda) as models for evolutionary studies of light and vision: multiple origins of bioluminescence and extreme sexual dimorphism. Hydrobiologia. 538:179–192.
Gould RM, Oakley T, Goldstone JV, Dugas JC, Brady ST, Gow A.  2008.  Myelin sheaths are formed with proteins that originated in vertebrate lineages. Neuron Glia Biology. 4:137–152.
Swafford AJM, Oakley TH.  2018.  Multimodal sensorimotor system in unicellular zoospores of a fungus. Journal of Experimental Biology. 221
Lindgren A, Pankey M, Hochberg F, Oakley T.  2012.  A multi-gene phylogeny of Cephalopoda supports convergent morphological evolution in association with multiple habitat shifts in the marine environment. BMC Evolutionary Biology. 12:129.
Oakley TH, Cunningham CW.  2002.  Molecular phylogenetic evidence for the independent evolutionary origin of an arthropod compound eye. Proceedings of the National Academy of Sciences. 99:1426.
Wang D, Oakley T, Mower J, Shimmin LC, Yim S, Honeycutt RL, Tsao H, Li W-H.  2004.  Molecular evolution of bat color vision genes. Molecular biology and evolution. 21:295–302.
Tanner AR, Fuchs D, Winkelmann IE, M Gilbert TP, M Pankey S, Ribeiro ÂM, Kocot KM, Halanych KM, Oakley TH, da Fonseca RR et al..  2017.  Molecular clocks indicate turnover and diversification of modern coleoid cephalopods during the Mesozoic Marine Revolution. Proc. R. Soc. B.
Oakley TH.  2003.  Maximum likelihood models of trait evolution. Comments on Theoretical Biology. 8:609–625.
M Ramirez D, Pairett AN, M Pankey S, Serb JM, Speiser DI, Swafford AJ, Oakley TH.  2016.  The last common ancestor of most bilaterian animals possessed at least 9 opsins. Genome biology and evolution. :evw248.

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