Álvarez-Romero, Jorge G., Wilkinson, Scott N., Pressey, Robert L., Ban, Natalie C., Kool, Johnathan, and Brodie, Jon (2014) Modeling catchment nutrients and sediment loads to inform regional management of water quality in coastal-marine ecosystems: a comparison of two approaches. Journal of Environmental Management, 146. pp. 164-178.

Alvarez-Romero, Jorge G., Devlin, Michelle, da Silva, Eduardo Teixeira, Petus, Caroline, Ban, Natalie C., Pressey, Robert L., Kool, Johnathan, Roberts, Jason J., Cerdeira-Estrada, Sergio, Wenger, Amelia S., and Brodie, Jon (2013) A novel approach to model exposure of coastal-marine ecosystems to riverine flood plumes based on remote sensing techniques. Journal of Environmental Management, 119. pp. 194-207.

Kool, Johnathan T., Moilanen, Atte, and Treml, Eric A. (2013) Population connectivity: recent advances and new perspectives. Landscape Ecology, 28 (2). pp. 165-185.

Foster, Nicola L., Paris, Claire B., Kool, Johnathan T., Baums, Iliana B., Stevens, Jamie R., Sanchez, Juan A., Bastidas, Carolina, Agudelo, Claudia, Bush, Phillippe, Day, Owen, Ferrari, Renata, Gonzalez, Patricia, Gore, Shannon, Guppy, Reia, McCartney, Michael A., McCoy, Croy, Mendes, Judith, Srinivasan, Ashwanth, Steiner, Sascha, Vermeij, Mark J.A., Weil, Ernesto, and Mumby, Peter J. (2012) Connectivity of Caribbean coral populations: complementary insights from empirical and modelled gene flow. Molecular Ecology, 21 (5). pp. 1143-1157.

Januchowski-Hartley, S.R., Hermos, V., Pressey, R.L., Linke, S., Kool, J., Pearson, R.G., Pusey, B.J., and VanDerWal, J. (2011) Coarse-filter surrogates do not represent freshwater fish diversity at a regional scale in Queensland, Australia. Biological Conservation, 144 (10). pp. 2499-2511.

Kool, Johnathan T., Paris, Claire B., Barber, Paul H., and Cowen, Robert K. (2011) Connectivity and the development of population genetic structure in Indo-West Pacific coral reef communities. Global Ecology and Biogeography, 20 (5). pp. 695-706.

Bay, Line Kolind, Cumbo, Vivian Ruth, Abrego, David, Kool, Johnathan Travis, Ainsworth, Tracy Danielle, and Willis, Bette Lynn (2011) Infection dynamics vary between Symbiodinium types and cell surface treatments during establishment of endosymbiosis with coral larvae. Diversity, 3 (3). pp. 356-374.

Graham, N.A.J., Nash, K.L., and Kool, J.T. (2011) Coral reef recovery dynamics in a changing world. Coral Reefs, 30 (2). pp. 283-294.

Graham, Nicholas A.J., Ainsworth, Tracy D., Baird, Andrew H., Ban, Natalie C., Bay, Line K., Cinner, Joshua E., De Freitas, Debora M., Diaz-Pulido, Guillermo, Dornelas, Maria, Dunn, Simon R., Fidelman, Pedro I.J., Foret, Sylvain, Good, Tatjana C., Kool, Johnathan, Mallela, Jennie, Penin, Lucie, Pratchett, Morgan S., and Williamson, David H. (2011) From microbes to people: tractable benefits of no-take areas for coral reefs. Oceanography and Marine Biology, 49. pp. 105-136.

Kool, Johnathan, Brewer, Tom, Mills, Morena, and Pressey, Robert (2010) Ridges to Reefs Conservation for Solomon Islands. Report. ARC Centre of Excellence for Coral Reef Studies, Townsville, QLD, Australia.

Kool, Johnathan T., Paris, Claire B., Andréfouët, Serge , and Cowen, Robert K. (2010) Complex migration and the development of genetic structure in subdivided populations: an example from Caribbean coral reef ecosystems. Ecography, 33 (3). pp. 597-606.

Kool, Johnathan T. (2009) An object-oriented, individual-based approach for simulating the dynamics of genes in subdivided populations. Ecological Informatics, 4 (3). pp. 136-146.

Paris, C.B., Aldana-Aranda, D., Perez-Perez, M., and Kool, J. (2009) Connectivity of Queen conch, Strombus gigas, populations from Mexico. In: Proceedings of the 11th International Coral Reef Symposium. pp. 439-443. From: 11th International Coral Reef Symposium, 7-11 July 2008, Fort Lauderdale, Florida, USA.