Livingston, N., Bernatskiy, A., Livingston, K., Smith, M., Schwarz, J.,  Bongard, J., Wallach, D., and J. Long. 2017. Modularity and Sparsity: Evolution of Neural Net Controllers in Physically Embodied Robots. Frontiers in Robotics and AI.

Larson, A., Cappelle, C., Livingston, K., Livingston, N., Long, J., Schwarz, J., Smith, M., and J. Bongard. 2016. Recombination Hotspots Promote the Evolvability of Modular Systems.  Proc. 2016  Genetic and Evolutionary Computation Conference Companion.

Lehnert, E.M., Mouchka, M.E., Burriesci, M.S., Gallo, N.D., Schwarz, J.A., and Pringle, J.R. 2014. Extensive Differences in Gene Expression between Symbiotic and Aposymbiotic Cnidarians. G3 Genes, Genomes, Genetics 4(2): 277–295.

Garrett, T.E., Schmeitzel, J., Klein, J., Hwang, J., and Schwarz, J. 2013. Comparative lipid profiling of the cnidarian Aiptasia pallida and its dinoflagellate symbiont. PLOS One. 8(3): e57975. doi:10.1371/journal.pone.0057975. pdf

Singer, S.R., Schwarz, J.A., et al. 2013. Keeping an Eye on Biology. Science. 339: 408-409.  pdf

Schwarz, J.A., Mitchelmore, C.L, Jones, R., O’Dea, A., Seymour, S. 2013. Exposure to copper induces oxidative and stress responses and DNA damage in the coral Montastraea franksi. Comparative Biochemistry and Physiology C 157: 272–279. Link to article

Banta, L.M., Crespi, E.J., Nehm, R.H.,  Singer, S., Schwarz, J.A., Manduca, C.A. and participants.  2012. Genomics and Bioinformatics Across the Curriculum: Inquiry-based modules for introductory to upper level biology courses. CBE-Life Sciences Education 11:203-208. pdf

Baumler, D.J., Banta, L.M., Hung, K.F., Schwarz, J.A., Cabot, E. L., Glasner, J.D., Perna, N.T. 2012. Using comparative genomics for inquiry-based learning to dissect virulence of Escherichia coli O157:H7 and Yersinia pestisCBE-Life Sciences Education 11:81-93. pdf

Sunagawa, S., Wilson, E., Thaler, M., Smith, M., Medina, M., Weis, V., Pringle, J., Schwarz, J. 2009. Generation and analysis of transcriptomic resources for a model-system on the rise: the sea anemone Aiptasia pallida and its dinoflagellate endosymbiont. BMC Genomics 10:258. pdf.

Voolstra. C., Schwarz, J., Schnetzer, J., Sunagawa, S. DeSalvo, M., Szmant, A., Coffroth, M.A., Medina, M. 2009. The host transcriptome remains unaltered during establishment of coral-algal symbioses. Molecular Ecology 18(9):1823-33. pdf

Schwarz, J.A. 2008. Understanding the intracellular niche in cnidarian-Symbiodinium symbioses: parasites lead the way. Vie et Millieu: Life and the Environment. 58 (2): 141-151. pdf

Ronsheim, M., Pregnall, A.M., Schwarz, J. , Schlessman, M., Susman, K. 2009. Teaching Outside the Can: a new approach to Introductory Biology. Bioscene 35:12. pdf

Voolstra, C., Sunagawa, S., Schwarz, J.A., Coffroth, M.A., Yellowlees, D., Leggat, W., Medina, M. 2008. Evolutionary analysis of orthologous cDNA sequences from cultured and symbiotic dinoflagellate symbionts of reef-building corals (Dinophyceae: Symbiodinium). Comp Biochem Physiol D Genomics and Proteomics. pdf

DeSalvo, M.,Voolstra, C., Sunagawa, S., Schwarz, JA.., Coffroth, M.A., Szmant, A., Stillman, J.H., Medina, M. 2008.Differential gene expression during thermal stress and bleaching in the Caribbean coral Montastraea faveolata. Molecular Ecology 17: 3952-3971. pdf

Schwarz, J.A., Brokstein, P.B., Voolstra, C., Terry, A.Y., Szmant A., Coffroth, M.A., Miller, D.J., and Medina, M. 2008.Coral Life History and Symbiosis: functional genomic resources for two reef building Caribbean corals, Acropora palmata and Montastraea faveolata. BMC Genomics 9:97. pdf

Schwarz, J.A., Brokstein, P., Manohar, C., Szmant, A., Coffroth, M.A., and M. Medina. 2006. Coral Reef Genomics: Developing tools for functional genomics of coral symbiosis. Proc 10th ICRS

Schwarz, J.A., Fouts, A.E., Cummings, C., Ferguson, D. and J.C. Boothroyd. 2005. A novel rhoptry protein in Toxoplasma gondii bradyzoites and merozoites. Molecular and Biochemical Parasitology 44:159-66.

Schwarz, J.A. and V.M. Weis. 2003. Localization of a symbiosis-related protein, sym32, in the Anthopleura elegantissima-Symbiodinium muscatinei association. Biological Bulletin 205: 339-350.

Schwarz, J.A., V.M. Weis, and D. Potts. 2002. Feeding behavior and acquisition of symbiotic dinoflagellates by larvae of the sea anemone Anthopleura elegantissima. Marine Biology 140: 471-478.

Mitchelmore, C.L., J.A. Schwarz, and V.M. Weis. 2002. Development of symbiosis-specific genes as biomarkers for the early detection of cnidarian-algal symbiosis breakdown. Marine Environmental Research 54: 345-349.

Weis, V.M., Verde, E.A., Pribyl, A., and J.A. Schwarz. 2002. Aspects of the larval biology of the sea anemonesAnthopleura elegantissima and A. artemesia. Invertebrate Biology 121(3):190-201.

Reynolds, W.S., J.A. Schwarz, and V.M. Weis. 2000. Symbosis-enhanced gene expression in cnidarian-algal associations: cloning and characterization of a cDNA, sym 32, encoding a possible cell adhesion protein. Comparative and Biochemical Physiology, A:126. 33-39.

Schwarz, J.A., D.A. Krupp, and V.M. Weis. 1999. Late larval development and onset of symbiosis in the scleractinian coral Fungia scutaria. Biological Bulletin 196: 70-79.

Coral Symbiosis and Genomics