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• Genung, M.A., J.P Lessard, C.B. Brown, W.A. Bunn, M.A. Cregger, E. Felker-Quinn, A.S. Hartley, Wm.N. Reynolds, M.L. Stevenson, G.M. Crutsinger, J.A. Schweitzer and J.K. Bailey. Non-Additive Effects of Genotypic Diversity Shape Pollinator Communities of Solidago altissima.
• Pregitzer, C., J.A. Schweitzer, S.C. Hart, J.K. Bailey. Soils as Agents of Selection: Feedbacks between plants and soils alter seedling survival and performance.
• Keith, A.R., J.K. Bailey, T.G. Whitham. Plant Genotype Determines Arthropod Communities in a Foundation Riparian Species.
• Stritar, M., J.A. Schweitzer, S.C. Hart, and J.K. Bailey. Introduced Mammalian Herbivore Disrupts Ecosystem Function in Aspen Forests Along a Fire Chronosequence. (in review).
• O'Reilly-Wapstra, J.M., J.K. Bailey, C. McArthur, B.M. Potts. Variation in selection on the evolution of plant-mammalian herbivore interactions. (in review).
• Schweitzer, J.A., M. D. Madritch, J. K. Bailey, C.J. LeRoy, D.G. Fischer, B.J. Rehill, R.L. Lindroth, T.G. Whitham. Review - Ecological impacts of foliar condensed tannins: a genes-to-ecosystem approach.

2008

• Whitham, T.G. S.P. DiFazio, J.A. Schweitzer, S.M. Shuster, G.J. Allen, J.K. Bailey, S.A. Woolbright. 2008. Extending Genomics to Natural Communities and Ecosystems. Science 320: 492-495.
• Schweitzer, J.A., J.K. Bailey, D.G. Fischer, C.J. LeRoy, E.V. Lonsdorf, T.G. Whitham, and S.C. Hart. Soil Microorganism-Plant Interactions; Heritable relationship between plant genotype and associated microorgansims. Ecology 89:773-781.
• Crutsinger, G.M., Habenicht, M.N., Classen, A.T., Schweitzer, J.A., N.J. Sanders. (2008) Galling by Rhopalomyia solidaginis alters Solidago altissima architecture and litter nutrient dynamics in an old-field ecosystem. Plant and Soil. DOI 10.1007/s11104-007-9490-3
• Bangert, R.K., E.V. Lonsdorf, G.M. Wimp, S.M. Shuster, D. Fischer, J.A. Schweitzer, G.J. Allan, J.K. Bailey, and T.G. Whitham. (2008) Genetic structure of a foundation species: scaling community phenotypes from the individual to the region.  Heredity 1-11.

2007

• Schweitzer, J.A., J.K. Bailey, R.K. Bangert, S.C. Hart and T.G. Whitham. 2007. The role of plant genetic variation in determining above- and belowground microbial communities. In M.J. Bailey, A.K. Lilley, T.M. Timms-Wilson & P.T.N. Spencer-Phillips. Microbial Ecology of aerial plant surfaces. CABI Publishing.
• Irschick, D., J. K. Bailey, J. A. Schweitzer, J. F. Husak, and J. Meyers. 2007. New directions for studying selection in nature; studies of performance and communities. Physiological and Biochemical Zoology (in press). see Cover Photo.
• Bailey, J.K., D.J. Irschick, J.A. Schweitzer, B.J. Rehill, R.L. Lindroth, and T.G. Whitham. 2007. Selective herbivory by elk results in rapid shifts in the chemical composition of aspen forests. Biological Invasions 9:715-722. see Cover Photo.

2006

• Bailey, J.K. and T.G. Whitham.  2006.  Biodiversity is related to indirect interactions among species of large effect.  In Indirect Interaction Webs: Nontrophic Linkages Through Induced Plant Traits (T. Ohgushi, T. Craig, and P.W. Price, eds.).  Cambridge University Press, UK (pdf).
• Bangert, R.K., R.J. Turek, B. Rehill, G.J. Allan, G.M. Wimp, J.A. Schweitzer, J.K. Bailey, G.D. Martinsen, P. Keim, R.L. Lindroth, and T.G. Whitham.  2006.  A genetic similarity rule determines arthropod community structure.  Molecular Ecology 15:1379-1392.
• Gitlin, A.R., Sthultz, C.M., Bowker, M. A. et al. 2006. Mortality gradients within and among dominant plant populations as barometers of ecosystem change during extreme drought. Conservation Biology 20: 1477-1486.
• Rehill, B., T.G. Whitham, G.D. Martinsen, J.A. Schweitzer, J.K. Bailey, and R.L. Lindroth.  Developmental trajectories in cottonwood phytochemistry.  Journal Of Chemical Ecology 32:2269-2285.
• Shuster, S.M., E.V. Lonsdorf, G.M. Wimp, J.K. Bailey, and, T.G. Whitham. 2006. Community heritability measures the evolutionary consequences of indirect genetic effects on community structure. Evolution 60:991-1003.
• Whitham, T.G., J.K. Bailey, J.A. Schweitzer, S.M. Shuster, R.K. Bangert, C.J. LeRoy, E. Lonsdorf, G.J. Allan, S.P. DiFazio, B.M. Potts, D.G. Fischer, C.A.Gehring, R.L. Lindroth, J. Marks, S.C. Hart, G.M. Wimp and S.C. Wooley. 2006. A framework for community and ecosystem genetics: From genes to ecosystems. Nature Reviews Genetics 7:510-523.
• Bailey, J. K., Wooley, S. C., Lindroth, R. L. & Whitham, T. G. 2006. Importance of species interactions to community heritability: A genetic basis to trophic-level interactions. Ecology Letters 9:78-85.
• Bailey, J.K. and T.G. Whitham. 2006. Indirect trait-mediated interactions between cottonwoods and beavers positively affect sawfly abundance. Ecological Entomology 31:294-297.
• Chapman, S.C., J.A. Schweitzer and T.G. Whitham. 2006. Herbivory differentially alters plant litter dynamics of evergreen and deciduous trees: the importance of “afterlife” effects. Oikos 114:566-574.

2005

• Schweitzer, J.A., J.K. Bailey, S.C. Hart and T.G. Whitham. 2005. Non-additive effects of mixing cottonwood genotypes on litter decomposition and nutrient dynamics. Ecology 86:2834-2840.
• Schweitzer, J.A., J.K. Bailey, S.C. Hart, G.M. Wimp, S.C. Chapman and T.G. Whitham. 2005. The interaction of plant genotype and herbivory decelerate leaf litter decomposition and alters nutrient dynamics. Oikos 110:133-145.
• Whitham, T.G., E. Lonsdorf, J. A. Schweitzer, J. K. Bailey, D. G. Fischer, S. M. Shuster, R. L. Lindroth, S. C. Hart, G. J. Allan, C. A. Gehring, P. Keim, B. M. Potts, J. Marks, B. J. Rehill, S. P. DiFazio, C. J. LeRoy, G. M. Wimp, and S. Woolbright. 2005. “All effects of a gene on the world”: extended phenotypes, feedbacks and multi-level selection. Ecoscience 12:5-7. Forum
• Bailey, J. K., R. Deckert, J. A. Schweitzer, B. J. Rehill, R. L. Lindroth, C. Gehring, and T. G. Whitham. 2005. Host plant genetics affect hidden ecological players: Links among Populus, condensed tannins and fungal endophyte infection. Canadian Journal of Botany 83, 356-361.
• Bangert, R.K., R.J. Turek, G.D. Martinsen, G.M. Wimp, J.K. Bailey, and T.G. Whitham.  2005.  Benefits of conservation of plant genetic diversity on arthropod diversity.  Conservation Biology 19:379-390.

2004

• Bailey, J.K., R.K. Bangert, J.A. Schweitzer, R.T. Trotter III, S.M. Shuster, and T.G. Whitham. 2004. Fractal geometry is heritable in trees. Evolution 58:2100-2102.
• Bailey, J.K., J.A. Schweitzer, B.J. Rehill, R.L. Lindroth, G.D. Martinsen, and T.G. Whitham. 2004. Beavers as molecular geneticists: A genetic basis to the foraging of an ecosystem engineer. Ecology 85:603-608.
• Schweitzer, J.A., J.K. Bailey, B.J. Rehill, S.C. Hart, R.L. Lindroth, P. Keim and T.G. Whitham. Genetically based trait in dominant tree affects ecosystem processes. 2004. Ecology Letters 7:127-134.

2003

• Bailey, J.K. and T.G. Whitham. 2003. Interactions among fire, elk, aspen, galling sawflies and insectivorous birds. Oikos 101: 127-134.
• Whitham, T.G., W.P. Young, G.D. Martinsen, C.A. Gehring, J.A. Schweitzer, S.M. Shuster, G.M. Wimp, D.G. Fischer, J.K. Bailey, R.L. Lindroth, S. Woolbright, and C.R. Kuske.  2003.  Community and ecosystem genetics:  A consequence of the extended phenotype.  Ecology 84:559-573.

2002

• Bailey, J.K., J.A. Schweitzer, M.M. Howe, D.G. Martinsen, and T.G. Whitham.  2002.  Interactions among beaver, exotic tree species, and aquatic macroinvertebrates:  Links between terrestrial and aquatic systems.  Pages 180-188 in Proceedings of the 11th International Conference on Aquatic Invasive Species, 25-28 February 2002, Alexandria, VA. The Professional Edge, Pembroke, ON.
• Whitham, T.G., and J.A. Schweitzer.  2002.  Leaves as islands of spatial and temporal variation: consequences for plant herbivores, pathogens, communities and ecosystems.  Pages 279-298 in Phyllosphere Microbiology (S.E. Lindow, E.I. Hecht-Poinar, and V.J. Elliott, eds.).  APS Press, St. Paul, Minnesota.
• Schweitzer, J.A., G.D. Martinsen and T.G. Whitham. 2002. Cottonwood hybrids gain fitness traits of both parents: a mechanism for their long-term persistence? Am. Journal of Bot. 89:981-990.
• Bailey, J.K., and T.G. Whitham. 2002. Interactions among fire, aspen and elk affect insect biodiversity: Reversal of a community response Ecology 83:1701-1712.

2001

• Bailey, J.K., J.A. Schweitzer, and T.G. Whitham. 2001. Invasion by salt cedar in the southwestern U.S.A. negatively affects biodiversity of aquatic macroinvertebrate community. Wetlands 21:442-447.

1999

• Schweitzer, J.A. and K.C. Larson. 1999. Greater morphological plasticity of exotic honeysuckle species may make them better invaders than native species. J. Torrey Bot. Soc. 21: 15-23.