Publications
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2014. Using phylogenetically-informed annotation (PIA) to search for light-interacting genes in transcriptomes from non-model organisms. BMC bioinformatics. 15:350.
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2009. Using phylogenetic, functional and trait diversity to understand patterns of plant community productivity. PLoS One. 4:e5695.
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2011. Understanding the dermal light sense in the context of integrative photoreceptor cell biology. Visual neuroscience. 28:265–279.
(297.05 KB)
(297.05 KB).
2008. Type II opsins: evolutionary origin by internal domain duplication? Journal of molecular evolution. 66:417–423. (321.78 KB)
(321.78 KB).
2014. Two new sympatric species of Eusarsiella (Ostracoda: Myodocopida: Sarsiellidae) from the Florida Keys with a morphological phylogeny of Sarsiellinae. Zootaxa. 3802:444–458.
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2015. A Transcriptomic Analysis of Cave, Surface, and Hybrid Isopod Crustaceans of the Species Asellus aquaticus. PloS one. 10:e0140484.
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2007. Today's multiple choice exam:(a) gene duplication;(b) structural mutation;(c) co-option;(d) regulatory mutation;(e) all of the above. Evolution & Development. 9:523–524.
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2005. Testing Trait Evolution Models on Phylogenetic Trees. Computer Science. MS:34. (834.6 KB)
(834.6 KB).
2019. Symbiotic organs shaped by distinct modes of genome evolution in cephalopods. Proceedings of the National Academy of Sciences. :201817322.
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2011. Support for the dimorphic niche hypothesis: Natural selection drives sexual eye dimorphism in ostracods. Ecology Evolution and Marine Biology. MA:42. (625.01 KB)
(625.01 KB).
2015. Species richness, but not phylogenetic diversity, influences community biomass production and temporal stability in a re-examination of 16 grassland biodiversity studies. Functional Ecology.
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2013. Shared ancestry influences community stability by altering competitive interactions: evidence from a laboratory microcosm experiment using freshwater green algae. Proceedings of the Royal Society B: Biological Sciences. 280 (527.51 KB)
(527.51 KB).
2023. Sexual signals persist over deep time: ancient co-option of bioluminescence for courtship displays in cypridinid ostracods. Systematic Biology. 72:264–274.
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1996. Sequence, overproduction and purification of Vibrio proteolyticus ribosomal protein L 18 for in vitro and in vivo studies. Gene. 183:237–242.
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2021. Selection, drift, and constraint in cypridinid luciferases and the diversification of bioluminescent signals in sea fireflies. Molecular Ecology. 30:1864–1879.
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2007. A review of Gene Sharing and Evolution: The Diversity of Protein Functions, by Joram Piatigorsky. Evolution & Development. 9:514–516.
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2006. Repression and loss of gene expression outpaces activation and gain in recently duplicated fly genes. Proceedings of the National Academy of Sciences. 103:11637.
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2008. Reconstructing ancestral genome content based on symmetrical best alignments and Dollo parsimony. Bioinformatics. 24:606. (254.73 KB)
(254.73 KB).
1998. Reconstructing ancestral character states: a critical reappraisal. Trends in Ecology & Evolution. 13:361–366. (136.95 KB)
(136.95 KB).
2018. Prolific origination of eyes in Cnidaria with co-option of non-visual opsins. Current Biology. 28:2413–2419. (2.06 MB)
(2.06 MB).
2014. Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid. Proceedings of the National Academy of Sciences.
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2007. A post-synaptic scaffold at the origin of the animal kingdom. PLoS One. 2:e506.
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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.
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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)
(1.19 MB).
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.