Recommended Papers
FALL 2009
Bridgham, J.T., E.A. Ortlund, and
J.W. Thornton, 2009. An epistatic ratchet constrains the direction of
glucocorticoid receptor evolution. Nature 461: 515-519. 
Calsbeek, R., and C. Bonneaud,
2008. Postcopulatory fertilization bias as a form of cryptic sexual
selection. Evolution 62(5): 1137-1148.
Chang,
A.S., and M.A.F. Noor, 2009. Epistasis modifies the dominance of loci
causing hybrid male sterility in the Drosophila pseudoobscura species
group. Evolution: doi:10.111/j.1558-5646.2009.00823.x.
Church, D.M., L. Goodstadt, L.W.
Hillier, M.C. Zody, S. Goldstein, et. al., 2009. Lineage-specific biology
revealed by a finished genome assembly of the mouse. PLoS Biology 7(5):
e1000112.
Forster,
D.W., I. Gunduz, A.C. Nunes, S. Gabriel, M.G. Ramalhinho, M.L. Mathias,
J. Britton-Davidian, and J.B. Searle, 2009. Molecular insights into
the colonization and chromosomal diversification of Madeiran house
mice. Molecular Ecology 18: 4477-4494.
Hughes,
A.L., 2007. Looking for Darwin in all the wrong places: The misguided
quest for positive selection at the nucleotide sequence level. Heredity
99: 364-373.
Kelleher, E.S., T.D. Watts, B.A.
LaFlamme, P.A. Haynes, and T.A. Markow, 2009. Proteomic analysis of Drosophila
mojavensis male accessory glands suggest novel classes of seminal fluid
proteins. Insect Biochemistry and Molecular Biology 39: 366-371.
Moyle,
L.C., and B.A. Payseur, 2009. Reproductive isolation grows on trees.
Trends in Ecology and Evolution 1140: 1-8.
Parker, H.G., B.M. VonHoldt, P.,
Quignon, E.H. Margulies, S. Shao, D.S. Mosher, T.C. Spady, A. Elkahloun,
M. Cargill, P.G. Jones, C.L. Maslen, G.M. Acland, N.B. Sutter, K. Kuroki,
C.D. Bustamante, R.K. Wayne, and E.A. Ostrander, 2009. An expressed Fgf4
retrogene is associated with breed-defining Chondrodyspasia in domestic
dogs. Science 325: 995-998.
Petit, R.J., and L. Excoffier,
2009. Gene flow and species delimitation. Trend in Ecology and Evolution
24(7): 386-393.
Phadnis, N., and H.A. Orr, 2009.
A single gene causes both male sterility and segregation distortion in
Drosophila hybrids. Science 323: 376-379.
Sella,
G., D.A. Petrov, M. Przeworski, and P. Andolfatto, 2009. Pervasive
natural selection in the Drosophila genome? PLoS Genetics 5(6): e1000495.
Torgerson, D.G., A.R. Boyko, R.D.
Hernandez, A. Indap, X. Hu, T.J. White, J.J. Sninsky, M. Cargill, M.D.
Adams, C.D. Bustamante, and A.G. Clark, 2009. Evolutionary processes
acting on candidate cis-regulatory regions in humans inferred from patterns
of polymorphism and divergence. PLoS Genetics 5(8): e1000592.
SPRING 2009
Akey, J.M., 2009. Constructing
genomic maps of positive selection in humans: Where do we go from here?
Genome Research 19: 711-722.
Galtier, N., L. Duret, S.
Glemin, and V. Ranwez, 2008. GC-biased gene conversion promotes the
fixation of deleterious amino acid changes in primates. Trends in
Genetics 25(1): 1-5.
Gross, J.B., R. Borowsky,
and C.J. Tabin, 2009. A novel role for Mc1r in the parallel evolution
of depigmentation in independent populations of the cavefish Astyanax
mexicanus. PLoS Genetics
5(1): e1000326.
Pool, J.E. and R. Nielsen,
2008. Inference of historical changes in migration rate from the lengths
of migrant tracts. Genetics 10.1534/genetics.108.098095.
Wang, Z and J. Zhang, 2009.
Why is the correlation between gene importance and gene evolutionary
rate so weak? PLoS Genetics 5(1): e1000329.
FALL 2008
Des Marais, D.L. and M.D. Rausher,
2008. Escape from adaptive conflict after duplication in an anthocyanin
pathway gene. Nature 454: 762-765.
Fernandez, A.A. and M.R. Morris,
2008. Mate choice for more melanin as a mechanism to maintain a functional
oncogene. PNAS 105(36): 13503-13507.
Findlay, G.D. Y. Xianhua, M.J.
MacCross, and W.J. Swanson, 2008. Proteomics reveals novel Drosophila
seminal fluid proteins transferred at mating. PLoS Biology 6(7): 1417-1426.
Hammer,
M.F., F.L. Mendez, M.P. Cox, A.E. Woerner, and J.D. Wall, 2008. Sex-biased
evolutionary forces shape genomic patterns of human diversity. PLoS
Genetics 4(9): e1000202.
Long,
Y., L. Zhao, B. Niu, J. Su, H. Wu, Y. Chen, Q. Zhang, J. Guo, C. Zhuang,
M. Mei, J. Xia, L. Wang, H. Wu, and Y-G. Liu, 2008. Hybrid male sterility
in rice controlled by interaction between divergent alleles of two
adjacent genes. PNAS 105(48): 18871-18876.
Mancera, E., R. Bourgon, A. Brozzi,
W. Huber, and L.M. Steinmetz, 2008. High-resolution mapping of meiotic
crossovers and non-crossovers in yeast. Nature 454: 479-485.
Mihola,
O., Z. Trachtulec, C. Vlcek, J.C. Schimenti, and J. Forejt, 2008. A
mouse speciation gene encodes a meiotic histone H3 methyltransferase.
Science 10.1126/science.1163601.
Novembre,
J., T. Johnson, K. Bryc, Z. Kutalik, A.R. Boyko, A. Auton, A. Indap,
K.S. King, S. Bergmann, M.R. Nelson, M. Stephens, and C.D. Bustamante,
2008. Genes mirror geography within Europe. Nature doi: 10.1038/nature07331.
Palopoli, M.F., M.V. Rockman, A.
TinMaung, C. Ramsay, S. Curwen, A. Aduna, J. Laurita, and L. Kruglyak,
2008. Molecular basis of the copulatory plug polymorphism in Caenorhabditis
elegans. Nature 454: 1019-1022.
Phadnis,
N. and H.A. Orr, 2008. A single gene causes both male sterility and
segregation distortion in Drosophila hybrids. Science 10.1126/science.1163934.
Price,
T.A.R., D.J. Hodgson, Z. Lewis, G.D.D. Hurst, and N. Wedell, 2008.
Selfish genetic elements promote polyandry in a fly. Science 322: 1241-1243.
Schmidt,
P.S., C-T. Zhu, J. Das, M. Batavia, L. Yang, and W.F. Eanes, 2008.
An amino acid polymorphism in the couch potato gene forms the basis
for climatic adaptation in Drosophila melanogaster. PNAS 105(42): 16207-16211.
Smadja,
C. and G. Ganem, 2007. Divergence of odorant signals within and between
the two European subspecies of the house mouse. Behavioral Ecology
19(1): 223-231.
Storz, J.F., M. Baze, J.L. Waite,
F.G. Hoffmann, J.C. Opazo, and J.P. Hayes, 2007. Complex signatures of
selection and gene conversion in the duplicated globin genes of house
mice. Genetics 177: 481-500.
Sultan, M., M.H. Schultz, H. Richard,
A. Magen, A. Klingenhoff, M. Scherf, M. Seifert, T. Borodina, A. Soldatov,
D. Parkhomchuk, D. Schmidt, S. O'Keeffe, S. Haas, M. Vingron, H. Lehrach,
and M-L. Yaspo, 2008. A global view of gene activity and alternative
splicing by deep sequencing of the human transcriptome. Science 321:
956-960.
SPRING 2008
Bolnick, D.I., M. Turelli, H. Lopez-Fernandez,
P.C. Wainwright, and T.J. Near, 2008. Accelerated Mitochondrial Evolution
and "Darwin's
Corollary": Asymmetric Viability of Reciprocal F1 Hybrids in Centrarchid
Fishes. Genetics 178: 1037-1048.
Coyne,
J.A., E.H. Kay, and S. Pruett-Jones, 2007. The Genetics Basis
of Sexual Dimorphism in Birds. Evolution 62-1: 214-219.
Chaine,
A.S. and B.E. Lyon, 2008. Adaptive Plasticity in Female Mate Choice
Dampens Sexual Selection on Male Ornaments in the Lark Bunting. Science
319: 459-462.
Gratten,
J., A.J., Wilson, A.F. McRae, D. Beraldi, P.M., Visscer, J.M. Pemberton,
and J. Slate, 2008. A Localized Negative Genetic Correlation Constrains
Microevolution of Coat Color in Wild Sheep. Science 319: 318-320.
Grim,
T., 2008. A Possible Role of Social Activity to Explain Differences
in Publication Output Among Ecologists. Oikos: doi: 10.1111/j.2008.0030-1299.16551.x.
Lohmueller,
K.E., A.R. Indap, S. Schmidt, A.R. Boyko, R.D. Hernandez, M.J. Hubisz,
J.J. Sninsky, T.J. White, S.R. Sunyaev, R. Nielsen, A.G. Clark, and
C.D. Bustamante, 2008. Proportionally More Deleterious Genetic Variation
in European than in African Populations. Nature 451: 994-998.
Hill,
W.G., M.E. Goddard, and P.M. Visscher, 2008. Data and Theory Point
to Mainly Additive Genetic Variance for Complex Traits. PLoS Genetics
doi:10.1371/journal.pgen.1000008.eor.
Malone,
J.H. and P. Michalak, 2008. Physiological Sex Predicts Hybrid Sterility
Regardless of Genotype. Science 319: 59.
FALL 2007
Chen, S-T., H-C. Cheng, D.A. Barbash,
and H-P. Yang, 2007. Evolution of hydra, a Recently Evolved
Testis-Expressed Gene with Nine Alternative First Exons in Drosophila
melanogaster. PLoS Genetics 3(7): 1131-1143.
Frazer, K.A., E. Eskin, H.M. Kang,
M.A. Brogue, D.A. Hinds, E.J. Beilharz, R.V. Gupta, J. Montgomery,
M.M. Morenzoni, G.B. Nilsen, C.L. Pethiyagoda, L.L. Stuve, F.M. Johnson,
M.J. Daly, C.M. Wade and D.R. Cox, 2007. A Sequence-Based Variation
Map of 8.27 Million SNPs in Inbred Mouse Strains. Nature doi:10.1038/nature06067.
Levy, S., G. Sutton, P.C. Ng, L.
Feuk, A.L. Halpern, et. al., 2007. The diploid genome sequence of an
individual human. PLoS Biology 5(10): e254.
Qin, J., P. Calabrese, I. Tiemann-Boege,
D. Narendra Shinde, S-R. Yoon, D. Gelfand, K. Bauer, and N. Arnheim,
2007. The molecular anatomy of spontaneous germline mutations in human
testes. PLoS Biology 5(9): e224.
Yang,
H., T.A. Bell, G.A. Churchill, and F. Pardo-Manuel de Villena, 2007.
On the subspecific origin of the laboratory mouse. Nature Genetics
doi:10.1038/np2087.
SPRING 2007
Anderson, W.W., Y-K. Kim, and P.A. Gowaty, 2007. Experimental Constraints on Mate Preferences in Drosophila pseudoobscura Decrease Offspring Viability and Fitness of Mated Pairs. PNAS 104(11): 4484-4488.
Armakolas,
A., and A.J.S. Klar, 2007. Left-Right Dynein Motor Implicated in
Selective Chromatid Segregation in Mouse Cells. Science 315: 100-101.
Bininda-Emonds,
O.R.P., M. Cardillo, K.E. Jones, R.D.E. MacPhee, R.M.D. Beck, R. Grenyer,
S.A. Price, R.A. Vos, J.L. Gittleman, and A. Purvis, 2007. The Delayed
Rise of Present-Day Mammals. Nature 446: 507-512.
Di Rienzo, A., and R.R. Hudson, 2006. An
Evolutionary Framework for Common Diseases: the Ancestral-Susceptibility
Model. Trends in Genetics 21(11): 596-601.
Greig,
D., 2007. A Screen for Recessive Speciation Genes Expressed in the
Gametes of F1 Hybrid Yeast. PLoS Genetics 3(2): 281-286.
Immler,
S., H.D.M. Moore, W.G. Breed, and T.R. Birkhead, 2007. By Hook or by
Crook? Morphometry, Competition, and Cooperation in Rodent Sperm. PLoS
One 2(1): e170 doi:10.1371/journal.pone.0000170.
Libert,
S., J. Zwiener, X. Chu, W. VanVoorhies, G. Roman, and S.D. Pletcher,
2007. Regulation of Drosophila Life Span by Olfaction and
Food-Derived Odors. Science 315: 1133-1137.
Parera,
M., G. Fernandez, B. Clotet, and M.A. Martinez, 2007. HIV-1 Protease
Catalytic Efficiency Effects Caused by Random Single Amino Acid Substitutions.
Mol. Biol. Evol. 24(2): 382-387.
Slotman,
M.A., L.J. Reimer, T. Thiemann, G. Dolo, E. Fondjo, and G.C. Lanzaro,
2006. Reduced Recombination Rate and Genetic Differentiation Between
the M and S Forms of Anopheles gambiae s.s.
Genetics 174: 2081-2093.
FALL 2006
Brideau,
N.J., H.A. Flores, J. Wang, S. Maheshwari, X. Wang, and D.A. Barbash,
2006. Two Dobzhansky-Muller Genes Interact to Cause
Hybrid Lethality in Drosophila.
Science 314: 1292 -1295.
Counterman,
B.A., and M.A.F. Noor, 2006. Multilocus Test for
Introgression between the Cactophilic Species Drosophila mojavensis and Drosophila
arizonae. The American Naturalist 168 (5): 682-696.
Pattarini,
J.M., W.T. Starmer, A. Bjork, and S. Pitnick, 2006.
Mechanisms Underlying the Sperm Quality Advantage in Drosophila melanogaster.
Evolution 60 (10): 2064-2080.
Tang,
T., J. Lu, J. Huang, J. He, S.R. McCouch, Y. Shen, Z. Kai, M.D.
Purugganan, S. Shi, and C-I. Wu, 2006.
Genomic Variation in Rice: Genesis of Highly Polymorphic Linkage
Blocks during Domestication. PLoS Genetics 2 (11): 1824 -1833.