Publications

Found 42 results
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2019
Belcaid M, Casaburi G, McAnulty SJ, Schmidbaur H, Suria AM, Moriano-Gutierrez S, M Pankey S, Oakley TH, Kremer N, Koch EJ et al..  2019.  Symbiotic organs shaped by distinct modes of genome evolution in cephalopods. Proceedings of the National Academy of Sciences. :201817322.
2018
Picciani N, Kerlin JR, Sierra N, Swafford AJM, M Ramirez D, Roberts NG, Cannon JT, Daly M, Oakley TH.  2018.  Prolific origination of eyes in Cnidaria with co-option of non-visual opsins. Current Biology. 28:2413–2419. (2.06 MB)
2017
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.
2016
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.
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.
2015
Alexandrou MA, Cardinale BJ, Hall JD, Delwiche CF, Fritschie K, Narwani A, Venail PA, Bentlage B, M Pankey S, Oakley TH.  2015.  Evolutionary relatedness does not predict competition and co-occurrence in natural or experimental communities of green algae. Proceedings of the Royal Society B: Biological Sciences. 282:20141745.
Stahl BA, Gross JB, Speiser DI, Oakley TH, Patel NH, Gould DB, Protas ME.  2015.  A Transcriptomic Analysis of Cave, Surface, and Hybrid Isopod Crustaceans of the Species Asellus aquaticus. PloS one. 10:e0140484.
Stahl BA, Gross JB, Speiser DI, Oakley TH, Patel NH, Gould DB, Protas ME.  2015.  A Transcriptomic Analysis of Cave, Surface, and Hybrid Isopod Crustaceans of the Species Asellus aquaticus. PloS one. 10:e0140484.
2014
Feuda R, Rota-Stabelli O, Oakley TH, Pisani D.  2014.  The comb jelly opsins and the origins of animal phototransduction. Genome biology and evolution. 6:1964–1971.
Peyer SM, M Pankey S, Oakley TH, McFall-Ngai MJ.  2014.  Eye-specification genes in the bacterial light organ of the bobtail squid Euprymna scolopes and their expression in response to symbiont cues. Mechanisms of development. 131:111-126. (3.54 MB)
Peyer SM, M Pankey S, Oakley TH, McFall-Ngai MJ.  2014.  Eye-specification genes in the bacterial light organ of the bobtail squid Euprymna scolopes and their expression in response to symbiont cues. Mechanisms of development. 131:111-126. (3.54 MB)
Marxen JC, Pick C, Oakley TH, Burmester T.  2014.  Occurrence of Hemocyanin in Ostracod Crustaceans. Journal of Molecular Evolution. :1–9. (1.42 MB)
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.
M. Pankey S, Minin VN, Imholte GC, Suchard MA, Oakley TH.  2014.  Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid. Proceedings of the National Academy of Sciences.
CHURCHILL CELIAKC, Ellis EA, Pique A, Oakley TH.  2014.  Two new sympatric species of Eusarsiella (Ostracoda: Myodocopida: Sarsiellidae) from the Florida Keys with a morphological phylogeny of Sarsiellinae. Zootaxa. 3802:444–458.
Speiser DI, M Pankey S, Zaharoff AK, Battelle BA, Bracken-Grissom HD, Breinholt JW, Bybee SM, Cronin TW, Garm A, Lindgren AR et al..  2014.  Using phylogenetically-informed annotation (PIA) to search for light-interacting genes in transcriptomes from non-model organisms. BMC bioinformatics. 15:350.
2013
Porter ML, Speiser DI, Zaharoff AK, Caldwell RL, Cronin TW, Oakley TH.  2013.  DATA FROM The evolution of complexity in the visual systems of stomatopods: insights from transcriptomics.
Porter ML, Speiser DI, Zaharoff AK, Caldwell RL, Cronin TW, Oakley TH.  2013.  The Evolution of Complexity in the Visual Systems of Stomatopods: Insights from Transcriptomics. Integrative and comparative biology. 53:39–49.
2012
Rivera AS, Ozturk N, Fahey B, Plachetzki DC, Degnan BM, Sancar A, Oakley TH.  2012.  Blue-light-receptive cryptochrome is expressed in a sponge eye lacking neurons and opsin. The Journal of experimental biology. 215:1278–1286. (1.07 MB)
Plachetzki DC, Fong CR, Oakley TH.  2012.  Cnidocyte discharge is regulated by light and opsin-mediated phototransduction. BMC biology. 10:17.
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.
2011
Colbourne JK, Pfrender ME, Gilbert D, W Thomas K, Tucker A, Oakley TH, Tokishita S, Aerts A, Arnold GJ, Basu MKumar et al..  2011.  The ecoresponsive genome of Daphnia pulex. Science. 331:555.
M Ramirez D, Speiser DI, M Pankey S, Oakley TH.  2011.  Understanding the dermal light sense in the context of integrative photoreceptor cell biology. Visual neuroscience. 28:265–279. (297.05 KB)
2010
Plachetzki DC, Fong CR, Oakley TH.  2010.  The evolution of phototransduction from an ancestral cyclic nucleotide gated pathway. Proceedings of the Royal Society B: Biological Sciences. 277:1963.
Rivera A, M Pankey S, Plachetzki D, Villacorta C, Syme A, Serb J, Omilian A, Oakley T.  2010.  Gene duplication and the origins of morphological complexity in pancrustacean eyes, a genomic approach. BMC evolutionary biology. 10:123.

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