Allendorf, F.W.,and J.J. Hard. 2009. Human-induced evolution caused by unnatural selection through harvest of wild animals. Proceedings National Academy of Sciences, USA 106:9987-9994.
Muhlfeld, C. C., Kalinowski, S.T., McMahon, T.E., Taper, M.L., Painter, S., Leary, R.F., and Allendorf, F. W. 2009. Hybridization rapidly reduces fitness of a native trout in the wild. Biology Letters 5:328-331.
Mitchell, N.J., Allendorf, F.W., Keall, S.N., Daugherty, C.H. and Nelson, N.J. 2009. Demographic effects of temperature-dependent sex determination: Will tuatara survive global warming? Global Change Biology.
Allendorf, F.W., P.R. England, G. Luikart, P.A. Ritchie, and N. Ryman. 2008. Genetic effects of harvest on wild animal populations. Trends in Ecol. Evol. 23:327-337.
Allendorf, F.W., and G. Luikart. 2007. Conservation and the Genetics of Populations. Wiley-Blackwell Publishing. 442 pp.
Palsbøll, P.J., Bérubé, M., and F. W. Allendorf. 2007. Defining management units among natural populations from genetic markers. Trends in Ecol. Evol. 22:11-16.
Ramstad, K.M., N.J. Nelson, G. Paine, D. Beech, A. Paul, P. Paul, F.W. Allendorf, and C.H. Daugherty. 2007. Species and cultural conservation in New Zealand: Maori traditional ecological knowledge of tuatara. Conservation Biology 21:455-464.
Whiteley, A.R., P. Spruell, and F.W. Allendorf. 2006. Can common species provide valuable information for conservation? Molec. Ecol. 15:2767-2786.
Funk, W.C., A.E. Greene, P.S. Corn, and F.W. Allendorf. 2005. High dispersal in a frog suggests that it is vulnerable to habitat fragmentation. Biology Letters 1:13-16.
Funk, W.C., M.S. Blouin, P.S. Corn, B.A. Maxell, D.S. Pilliod, S. Amish, and F.W. Allendorf. 2005. Population structure of Columbia spotted frogs (Rana luteiventris) is strongly affected by the landscape. Molec. Ecol. 14:483-496.
Ramstad, K.M., C.A. Woody, C.A., G. K. Sage, and F. W. Allendorf. 2004. Founding events influence genetic population structure of sockeye salmon (Oncorhynchus nerka) in Lake Clark, Alaska. Molec. Ecol. 13:277-290.
Marshall, A., K.L. Knudsen, and F.W. Allendorf. 2004. Linkage disequilibrium between the pseudoautosomal PEPB-1 locus and the sex determining region in chinook salmon. Heredity 92:85-97.
Gemmell, N.J., V. Metcalf, and F.W. Allendorf. 2004. Mother’s curse: The role of mtDNA in population viability. Trends in Ecol. Evol. 19:238-244.
Whiteley, A.R., P. Spruell, and F.W. Allendorf. 2004. Ecological and life history characteristics predict population genetic divergence of two salmonids in the same landscape. Molec. Ecol. 13:3665-3688.
Allendorf, F.W., and L.L. Lundquist. 2003. Population biology, evolution, and control of invasive species. Conservation Biology 17:24-30.
Schwartz, M.K., L.S. Mills, K.S. McKelvey, L.F. Ruggiero, and F.W. Allendorf. 2002. DNA reveals high dispersal synchronizing the population dynamics of Canada lynx. Nature 415:520-522.
Allendorf, F.W., R.F. Leary, P. Spruell, and J.K. Wenburg. 2001. The problems with hybrids: Setting conservation guidelines. Trends Ecol. Evol. 16:613-622.
Allendorf, F.W. 1997. The conservation biologist as Zen student. Conservation Biology 11:1045-1046.