Michael Nachman

Nachman Lab


Research Overview

My main research interests are in empirical population genetics and genomics. I am interested in understanding how genetic variation in natural populations is shaped by the interplay of migration, mutation, selection, recombination, drift, and changes in population size. My lab studies the genetic details of how new species arise as well as the genetics of adaptation. Most of our work is on mammals with a particular emphasis on humans and mice. Major current projects include: (1) environmental adaptation in introduced populations of house mice across the Americas, (2) the genetic basis of reproductive isolation between closely related lineages, and (3) the genetic basis of color variation in desert rodents. We use a variety of approaches including field work, controlled crosses in the laboratory, genomic tools, molecular biological approaches, and computational analysis of large datasets.

Selected publications

Good, J.M., M.A. Handel, and M.W. Nachman, 2008. Asymmetry and polymorphism of hybrid male sterility during the early stages of speciation in house mice. Evolution 62: 50-65.

Teeter, K.C., B.A. Payseur, L.W. Harris, M.A. Bakewell, L.M. Thibodeau, J.E. O’Brien, J.G. Krenz, M. Sans-Fuentes, M.W. Nachman, and P.K. Tucker, 2008. Genome-wide patterns of gene flow across a house mouse hybrid zone. Genome Research 18: 67-76.

Dean, M.D., J.M. Good, and M.W. Nachman, 2008. Adaptive evolution of proteins secreted during sperm maturation: an analysis of the mouse epididymal transcriptome. Mol. Biol. Evol. 25: 383-392.

Good, J.M., M.D. Dean, and M.W. Nachman, 2008. A complex genetic basis to X-linked hybrid male sterility between two species of house mice. Genetics 179: 2213-2228.

Geraldes, A., M. Carneiro, M. Delibes-Mateos, R. Villafuerte, M.W. Nachman, and N. Ferrand, 2008. Reduced introgression of the Y chromosome between subspecies of the European rabbit (Oryctolgaus cuniculus) in the Iberian peninsula. Molecular Ecology 17: 4489-4499.

Geraldes, A., P. Basset, B. Gibson, K. L. Smith, B. Harr, H-T. Yu, N. Bulatova, Y. Ziv, and M. W. Nachman, 2008. Inferring the history of speciation in house mice from autosomal, X-linked, Y-linked and mitochondrial genes. Molecular Ecology 17: 5349-5363.

Dean, M.D. and M.W. Nachman, 2009. Faster fertilization rate in conspecific versus heterospecific matings in house mice. Evolution 63: 20-28.

Careniro, M., N. Ferrand, and M.W. Nachman, 2009. Recombination and speciation: centromeric loci are more differentiated than telomeric loci between subspecies of the European rabbit (Oryctolagus cuniculus). Genetics 181: 593-606.

Wlasiuk, G., S. Khan, W.M. Switzer, and M.W. Nachman, 2009. A history of recurrent positive selection at the Toll-like receptor 5 in primates. Mol. Biol. Evol. 26: 937-949.

Dean, M.D, N.L. Clark, G.D. Findlay, R.C. Karn, X. Yi, W.J. Swanson, M.J. MacCoss, and M.W. Nachman, 2009. Proteomics and comparative genomic investigations reveal heterogeneity in evolutionary rate of male reproductive proteins in mice (Mus domesticus). Mol. Biol. Evol. 26: 1733-1743.

Storchova, R., J. Reif, and M.W. Nachman, 2010. Female heterogamety and speciation: Reduced introgression of the Z chromosome between two species of nightingales. Evolution 64: 456-471.

Teeter, K.C., L.M. Thibodeau, Z. Gompert, C.A. Buerkle, M.W. Nachman, and P.K. Tucker, 2010. The variable genomic architecture of isolation between hybridizing species of house mice. Evolution 64: 472-485.

Wlasiuk, G, and M.W. Nachman, 2010. Promiscuity and the rate of molecular evolution at primate immunity genes. Evolution 64: 2204-2220.

Wlasiuk, G., and M.W. Nachman, 2010. Adaptation and constraint at toll-like receptors in primates. Mol. Biol. Evol. 27: 2172-2186.

Geraldes, A, T. Rambo, R. Wing, N. Ferrand and M.W. Nachman, 2010. Extensive gene conversion drives the concerted evolution of paralogous copies of the SRY gene in European rabbits, Mol. Biol. Evol. 27: 2437-40.

Good, J.M., T. Giger, M.D. Dean, and M.W. Nachman, 2010. Widespread over-expression of the X chromosome in sterile F1 hybrid mice. PLoS Genetics, 6(9): e1001148.

Carneiro, M., J.A. Blanco-Aguiar, R. Villafuerte, N. Ferrand, and M.W. Nachman, 2010. Speciation in the European rabbit (Oryctolagus cuniculus): islands of differentiation on the X-chromosome and autosomes. Evolution 64: 3443-3460.

Good, J.M., D. Vanderpool, K.L. Smith, and M.W. Nachman, 2011. Extraordinary sequence divergence at Tsga8, an X-linked gene involved in mouse spermiogenesis. Mol. Biol. Evol. 28: 1675-1686.

Carneiro, M., S. Afonso, A. Geraldes, H. Garreau, G. Bolet, S. Boucher, G. Queney, M.W. Nachman, N. Ferrand, 2011. The genetic structure of domestic rabbits. Mol. Biol. Evol. 28: 1801-1816.

Yang, H., J..R Wang, J.P. Didion, R.J. Buus, T.A. Bell, C.E. Welsh, F. Bonhomme, H.T. Yu, M.W. Nachman, J. Pialek, P.K. Tucker, P. Boursot, L. McMillan, G.A. Churchill and F. Pardo-Manuel de Villena, 2011. Subspecific origin and haplotype diversity in the laboratory mouse. Nature Genetics 43: 648-655.

Dean, M.D., G.D. Findlay, M.R. Hoopman, C.C. Wu, M.J. MacCoss, W.J. Swanson, and M.W. Nachman, 2011. Identification of ejaculated proteins in the house mouse (Mus domesticus) via isotopic labeling. BMC Genomics 12: 306.

Wang, L., K. Luzynski, J. Pool, V. Janoušek, P. Dufková, M. Vyskocilová, K.C. Teeter, M.W. Nachman, P. Munclinger, M. Macholán, J. Piálek, and P.K. Tucker, 2011. Measures of linkage disequilibrium among neighboring SNPs indicate asymmetries across the house mouse hybrid zone. Mol. Ecol. 20: 2985-3000.

Reifova, R., J. Reif, M. Antczak, and M.W. Nachman, 2011. Ecological character displacement in the face of gene flow: evidence from two species of nightingales. BMC Evolutionary Biology 11: 138.

Song, Y., S. Endepols, N. Klemann, D. Richter, F.R. Matuschka, C.H. Shih, M.W. Nachman and M. H. Kohn, 2011. Adaptive introgression of anticoagulant rodent poison resistance by hybridization between Old World mice. Current Biology 21: 1-6.

Geraldes, A., P. Basset, K.L. Smith, and M.W. Nachman, 2011. Higher differentiation among subspecies of the house mouse (Mus musculus) in genomic regions with low recombination. Mol. Ecology 20: 4722-4736.

Nachman, M.W., and B.A. Payseur, 2012. Recombination rate variation and speciation: theoretical predictions and empirical results from rabbits and mice. Philosophical Transactions of the Royal Society B, 367: 409-421.

Carneiro, M., F.W. Albert, J. Melo-Ferreira, N. Galtier, P. Gayral, J.A. Blanco-Aguiar, R. Villafuerte, M.W. Nachman, and N. Ferrand, 2012. Evidence for widespread positive and purifying selection across the European Rabbit (Oryctolagus cuniculus) genome. Mol. Biol. Evol. 29: 1837-1849.

Phifer-Rixey, M., F. Bonhomme, P. Boursot, G.A. Churchill, J. Piálek, P.K. Tucker, and M.W. Nachman, 2012. Adaptive evolution and effective population size in wild house mice. Mol. Biol. Evol 29: 2949-2955.

Janousek, V., L. Wang, K. Luzynski, P. Dufkova, M. Vyskocilova, M. W. Nachman, P. Munclinger, M. Macholan, J. Pialek, and P.K. Tucker, 2012. Genome-wide architecture of reproductive isolation in a naturally occurring hybrid zone between Mus musculus musculus and M. m. domesticus. Molecular Ecology 21: 3032-3047.

Campbell, P., J.M. Good, M.D. Dean, P.K. Tucker, and M.W. Nachman, 2012. The contribution of the Y chromosome to hybrid male sterility in house mice. Genetics 191: 1271-1281.

Campbell, P., J.M. Good and M.W. Nachman, 2013. Meiotic sex chromosome inactivation is disrupted in sterile hybrid male house mice. Genetics 193: 819–828.

Carneiro, M., S.J.E. Baird, S. Alfonso, E. Ramirez, P. Tarroso, H. Teotonio, R. Villafuerte, M.W. Nachman, and N. Ferrand, 2013. Steep clines within a highly permeable genome across a hybrid zone between two subspecies of the European rabbit. Molecular Ecology 22: 2511-2525.

Carneiro, M., F.W. Albert, S. Afonso, R. J. Pereira, H. Burbano, R. Campos, J. Melo-Ferreira, J. A. Blanco-Aguiar, R. Villafuerte, M. W. Nachman, J. M. Good, and N. Ferrand, 2013. The genomic architecture of population divergence between subspecies of the European rabbit. PloS Genetics, in press.