Phylogenetics and Molecular Evolution

Year	Title	Format
2024	Why Do Some Lineages Radiate While Others Do Not? Perspectives for Future Research on Adaptive Radiations. De-Kayne R., et al. Cold Spring Harbor Perspectives in Biology.	PDF
2023	Phylogenomic analyses provide insights into primate evolution. Shao Y., et al. Science.	PDF
2022	The Mutationathon highlights the importance of reaching standardization in estimates of pedigree-based germline mutation rates. Bergeron L.A., Besenbacher S., Turner T., Versoza C.J., Wang R.J., Price A.L., Armstrong E., Riera M., Carlson J., Chen H.Y., Hahn M.W., Harris K., Kleppe A.S., López-Nandam E.H., Moorjani P., Pfeifer S.P., Tiley G.P., Yoder A.D., Zhang G., and M.H. Schierup. Elife.	PDF
2021	Molecular adaptation to folivory and the conservation implications for Madagascar’s lemurs. Guevara E.E., Greene L.K., Blanco M.B., Farmer C., Ranaivonasy J., Ratsirarson J., Mahefarisoa K.L., Rajaonarivelo T., Rakotondrainibe H.H., Junge R.E., Williams C.V., Rambeloson E., Rasoanaivo H.A., Rahalinarivo V., Andrianandrianina L.H., Clayton J.B., Rothman R.S., Lawler R.R., Bradley B.J., and A.D. Yoder. Frontiers in Ecology and Evolution.	PDF
2021	Pedigree-based and phylogenetic methods support surprising patterns of mutation rate and spectrum in the gray mouse lemur. Campbell C.R., Tiley G.P., Poelstra J.W., Hunnicutt K.E., Larsen P.A., Lee H.J., Thorne J.L., Dos Reis M., and A.D. Yoder. Heredity.	PDF
2021	Evolutionary and phylogenetic insights from a nuclear genome sequence of the extinct, giant, “subfossil” koala lemur Megaladapis edwardsi. Marciniak S., Mughal M.R., Godfrey L.R., Bankoff R.J., Randrianatoandro H., Crowley B.E., Bergey C.M., Muldoon K.M., Randrianasy J., Raharivololona B.M., and S.C. Schuster. PNAS.	PDF
2021	The challenge and promise of estimating the de novo mutation rate from whole‐genome comparisons among closely related individuals. Yoder A.D. and G.P. Tiley. Molecular Ecology.	PDF
2021	Genetic confirmation of the Anjiamangirana sportive lemur in the Anjajavy Forest. Rambeloson E., Rasoanaivo H.A., Guevara E.E., Schopler R., Greene L.K., Blanco M.B., and A.D. Yoder. Lemur News.	PDF
2018	Neutral Theory Is the Foundation of Conservation Genetics. Yoder A.D., Poelstra J.W., Tiley G.P., and R.C. Williams. Molecular Biology and Evolution.	PDF
2012	Concatenation and Concordance in the Reconstruction of Mouse Lemur Phylogeny: An Empirical Demonstration of the Effect of Allele Sampling in Phylogenetics. Weisrock, D.W., S.D. Smith, L.M. Chan, K. Biebouw, P.M. Kappler, and A.D. Yoder. Molecular Biology and Evolution, 29(6):1615-1630.	PDF
2003	The phylogenetic position of genus Tarsius: whose side are you on? In: Tarsiers: Past, Present, and Future (P.C. Wright, E.L. Simons and S. Gursky, eds.) Yoder, A.D. Rutgers University Press, pp. 161-175.
2002	Using secondary structure to identify ribosomal numts: cautionary examples from the human genome. Olson, L.E. and A.D. Yoder. Molecular Biology and Evolution, 19(1): 93-100.	PDF
2001	Failure of the ILD to determine data combinability for slow loris phylogeny. Yoder, A.D., Irwin, J.A., and B. Payseur. Systematic Biology, 50: 408-424.	PDF
1999	Phylogeny of the Lemuridae: effects of taxon and character sampling on resolution of species relationships within Eulemur. Yoder, A.D. and J.A. Irwin. Cladistics, 15:351-361.	PDF
1999	Estimation of the transition/transversion rate bias and species sampling. Yang, Z. and A.D. Yoder. Journal of Molecular Evolution, 48(3): 274-283.	PDF Dataset
1996	Molecular evolutionary dynamics of cytochrome b in strepsirrhine primates: the phylogenetic significance of third position transversions. Yoder, A.D., Vilgalys, R., and M. Ruvolo. Molecular Biology and Evolution, 13(10):1339-1350.
1994	The relative position of the Cheirogaleidae in strepsirhine phylogeny: a comparison of morphological and molecular methods and results. Yoder, A.D. American Journal of Physical Anthropology, 94(1):25-46.
1994	Molecules and Morphology in Primate Systematics: An Introduction. Cartmill, M. and A.D. Yoder. American Journal of Physical Anthropology, 94(1):1.
1992	Applications and limitations of ontogenetic comparisons for phylogeny reconstruction: the case of the strepsirhine internal carotid artery. Yoder, A.D. Journal of Human Evolution, 23:183-195.