Linnen, C.R. 2018. Predicting evolutionary predictability. Molecular Ecology 27: 2647-2650. PDF.


Linnen, C.R., C.T. O'Quin, T. Shackleford, C. Sears, and C. Lindstedt. 2018. Genetic basis of body color and spotting pattern in the redheaded pine sawfly (Neodiprion lecontei). Genetics 209: 291-305. PDF.


Pfeifer, S.P.*, S. Laurent*, V. Sousa*, C.R. Linnen*, M. Foll, L. Excoffier, H.E. Hoekstra, and J.D. Jensen. 2018. The evolutionary history of Nebraska deer mice: local adaptation in the face of strong gene flow. Molecular Biology and Evolution 35: 792-806. (*authors contributed equally). PDF.


Terbot, J.W., R.L. Gaynor, and C.R. Linnen. 2017. Gregariousness does not vary with geography, developmental stage, or group relatedness in feeding redheaded pine sawfly larvae. Ecology and Evolution 7: 3689-3702. PDF.


Glastad, K., S. Arsenault, K. Vertacnik, S. Geib, S. Kay, B. Danforth, S. Rehan, C. Linnen, S. Kocher, and B. Hunt. 2017. Variation in DNA methylation is not consistently reflected by CpG depletion or sociality in Hymenoptera. Genome Biology and Evolution 9: 1687-1698. PDF.


Vertacnik, K.L. and C.R. Linnen. 2017. Evolutionary genetics of host shifts in herbivorous insects: insights from the age of genomics. Annals of the New York Academy of Sciences 1389: 186-212. PDF.


Bendall, E.E., K.L. Vertacnik, and C.R. Linnen. 2017. Oviposition traits generate extrinsic postzygotic isolation between two pine sawfly species. BMC Evolutionary Biology 17: 26PDF.


Bagley, R.K., V.C. Sousa, M.L. Niemiller, and C.R. Linnen. 2017. History, geography, and host use shape genome-wide patterns of genetic differentiation in the redheaded pine sawfly (Neodiprion lecontei). Molecular Ecology. 26: 1022-1024PDF.


Mallarino, R., T.A. Linden, C.R. Linnen, and H.E. Hoekstra. 2017. The role of isoforms in the evolution of cryptic coloration in Peromyscus mice. Molecular Ecology. 26: 245-258. PDF.


Thompson, K.L., C.R. Linnen, and L. Kubatko. 2016Tree-based quantitative trait mapping the the presence of external covariates. Statistical Applications in Genetics and Molecular Biology 15: 473-490. PDF.


Harper, K.E., R.K. Bagley, K.L. Thompson, and C.R. Linnen. 2016Single-locus complementary sex determination, inbreeding depression, and inbreeding avoidance in a gregarious sawfly. Heredity 117: 326-335. PDF.


Patten, M.M., S.A. Carioscia, and C.R. Linnen. 2015Biased introgression of mitochondrial and nuclear genes: a comparison of diploid and haplodiploid systems. Molecular Ecology 24: 5200-5210. PDF.


Brady, C.M., M.K. Asplen, N. Desneux, G.E. Heimpel, K.R. Hopper, C.R. Linnen, K.M. Oliver, J.A. Wulff, and J.A. White. 2014. Worldwide populations of the aphid Aphis craccivora are infected with diverse facultative bacterial symbionts. Microbial Ecology 67: 195-204. PDF.


Thompson, K.L., R. Charnigo, and C.R. Linnen. 2013. Using ancestral information to inform analyses of complex data sets. Journal of Biostatistics and Biometrics 4: e126. PDF. 


*Linnen, C.R., Y.-P. Poh, B.K. Peterson, R.D.H. Barrett, J.G. Larson, J. Jensen, and H.E. Hoekstra. 2013. Adaptive evolution of multiple traits through multiple mutations at a single gene. Science 339: 1312-1316. (*Selected by Faculty of 1000). PDF.


Linnen, C.R. and D.R. Smith. 2012. Recognition of two additional pine-feeding Neodiprion species (Hymenoptera: Diprionidae) in the eastern United States. Proceedings of the Entomological Society of Washington. 114: 492-500. PDF.


Linnen, C.R. 2010. Species-tree estimation for complex divergence histories: a case study in Neodiprion sawflies. In Estimating species trees: in practice and theory (L.L. Knowles and L.S. Kubatko, eds.). Wiley-Blackwell, Hoboken, NJ. PDF.


Linnen, C.R. and B.D. Farrell. 2010. A test of the sympatric host race formation hypothesis in Neodiprion (Hymenoptera: Diprionidae). Proceedings of the Royal Society of London B. 277: 3131-3138. PDF.


Manceau, M.*, V.S. Domingues*, C.R. Linnen*, E.B. Rosenblum and H.E. Hoekstra. 2010. Convergence in pigmentation at multiple levels: mutation, genes, and function. Philosophical Transactions of the Royal Society B 365: 2439-2450. (*authors contributed equally). PDF.


Weber, J.N., M.B. Peters, O.V. Tsyusko, C.R. Linnen, C. Hagen, N.A. Schable, T.D. Tuberville, A.M. McKee, S.L. Lance, K.L. Jones, H.S. Fisher, M.J. Dewey, H.E. Hoekstra and T.C. Glenn. 2010. Five hundred microsatellite loci for Peromyscus. Conservation Genetics. 11: 1243-1246. PDF.


Linnen, C.R. and H.E. Hoekstra. 2009. Measuring natural selection on genotypes and phenotypes in the wild. Cold Spring Harbor Symposia on Quantitative Biology 74:155-168. PDF.


*Linnen, C.R., E.P. Kingsley, J.D. Jensen and H.E. Hoekstra. 2009. On the origin and spread of an adaptive allele in deer mice. Science 325(5944): 1095-1098. (*selected by Faculty of 1000). PDF.


*Linnen, C.R. and B.D. Farrell. 2008. Comparison of methods for species-tree inference in the sawfly genus Neodiprion (Hymenoptera: Diprionidae). Systematic Biology 57: 876-890. (*Cover). PDF.


Linnen, C.R. and B.D. Farrell. 2008. Phylogenetic analysis of nuclear and mitochondrial genes reveals mitochondrial introgression and evolutionary relationships in the Sertifer species group of Neodiprion (Hymenoptera: Diprionidae). Molecular Phylogenetics and Evolution 48: 240-257. PDF.


Linnen, C.R. and B.D. Farrell. 2007. Mito-nuclear discordance is caused by rampant 

mitochondrial introgression in Neodiprion (Hymenoptera: Diprionidae) sawflies.

Evolution 61(6): 1417-1438. PDF.


Hunter, M.D., C.R. Linnen and B.C. Reynolds. 2003. Effects of endemic densities of canopy herbivores on soil processes along a gradient in elevation in the southern Appalachians. Pedobiologia 47(3): 231-244. PDF.


Linnen, C.R., M. Tatar and D.E.L. Promislow. 2001. Cultural artifacts: A comparison of senescence in natural, laboratory, and artificially selected lines of Drosophila melanogasterEvolutionary Ecology Research 3: 877-888. PDF.