Damgaard, J. and A. I. Cognato, 2003. Sources of character conflict in a clade of water striders (Heteroptera: Gerridae). Cladistics 19: 512–526 Full-text PDF, ClustalX guide tree, Nexus file
Foster et al. 2004. DNA-Based identification of the eastern subterranean termite, Reticulitermes flavipes (Isoptera: Rhinotermitidae). 97: 95–101. Journal of Economic Entomology.
Gillespie, J.J., Cannone, J.J., Gutell, R.R., & Cognato, A.I. 2004. A Secondary Structural Model of the 28S rRNA Expansion Segments D2 and D3 from Rootworms and Related Leaf Beetles (Coleoptera: Chrysomelidae; Galerucinae). Insect Molecular Biology. Alignment file: HTML or text
Usener, J.L. and A.I. Cognato. 2006. Phylogenetic review of desert firefly taxonomic characters (Coleoptera: Lampyridae: Microphotus ). Insect Systematics and Evolution 37: 71-80. Nexus files: morphology, morphology and molecular.
Hulcr J., Beaver R., Dole S., Cognato A. 2007: Cladistic review of xyleborine generic taxonomic characters (Coleoptera: Curculionidae: Scolytinae). Systematic Entomology. (doi: 10.1111/j.1365-3113.2007.00386.x) Full text Figures
Dole, S.A., B.H. Jordal, and A.I. Cognato. 2009. Polyphyly of Xylosandrus Reitter inferred from nuclear and mitochondrial genes. Molecular Phylogenetics and Evolution, in review. Data Sets (.zip).