Darwin, C. (1859) On the Origin of Species. London: Murray. Darwin, C. (1872) Origin of Species. New York: The Modern Library.

Daubin, V., and H. Ochman. (2004) Bacterial Genomes As New Gene Homes: The Genealogy of Orfans in E. Coli. Genome Res 14: 1,036—1,042.

Davidov, Y., and E. Jurkevitch. (2009) Predation Between Prokaryotes and the Origin of Eukaryotes. Bioessays 31: 748–757.

Daviter, T., K. B. Gromadski, and M. V. Rodnina. (2006) The Ribosome’s Response to Codon-Anticodon Mismatches. Biochimie 88: 1,001—1,011.

Dawkins, R. (1996) The Blind Watchmaker: Why the Evidence of Evolution Reveals a Universe Without Design. London: W.W. Norton & Co.

Dawkins, R. (2006) The Selfish Gene: 30th Anniversary Edition – with a New Introduction by the Author. Oxford: Oxford University Press.

Dayhoff, M. O., W. C. Barker, and L. T. Hunt. (1983) Establishing Homologies in Protein Sequences. Methods Enzymol 91: 524–545.

de Nooijer, S., B. R. Holland, and D. Penny. (2009) The Emergence of Predators in Early Life: There Was No Garden of Eden. PLoS ONE 4: e5507.

de Souza, S. J., M. Long, R. J. Klein, S. Roy, S. Lin, and W. Gilbert. (1998) Toward a Resolution of the Introns Early/Late Debate: Only Phase Zero Introns Are Correlated with the Structure of Ancient Proteins. Proc Natl Acad Sci USA 95: 5,094—5,099.

de Visser, J. A., and S. F. Elena. (2007) The Evolution of Sex: Empirical Insights into the Roles of Epistasis and Drift. Nat Rev Genet 8: 139–149.

Deckert, G., P. V. Warren, T. Gaasterland, W. G. Young, A. L. Lenox, D. E. Graham, R. Overbeek, M. A. Snead, M. Keller, M. Aujay, R. Huber, R. A. Feldman, J. M. Short, G. J. Olsen, and R. V. Swanson. (1998) The Complete Genome of the Hyperthermophilic Bacterium Aquifex Aeolicus. Nature 392: 353–358.

Delarue, M., O. Poch, N. Tordo, D. Moras, and P. Argos. (1990) An Attempt to Unify the Structure of Polymerases. Protein Eng 3: 461–467.

Delaye, L., and A. Moya. (2010) Evolution of Reduced Prokaryotic Genomes and the Minimal Cell Concept: Variations on a Theme. Bioessays 32: 281–287.

Deleuze, G., and F. Guattari. (1987) Thousand Plateaus: Capitalism and Schizophrenia. Minneapolis, MN: University of Minnesota Press.

Denamur E. and I. Matic. (2006) Evolution of Mutation Rates in Bacteria. Mol Microbiol 60: 820–827.

Dennett, D. C. (1996) Darwin‘s Dangerous Idea: Evolution and the Meanings of Life. New York: Simon & Schuster.

Deppenmeier, U., A. Johann, T. Hartsch, R. Merkl, R. A. Schmitz, R. Martinez-Arias, A. Henne, A. Wiezer, S. Baumer, C. Jacobi, H. Bruggemann, T. Lienard, A. Christmann, M. Bomeke, S. Steckel, A. Bhattacharyya, A. Lykidis, R. Overbeek, H. P. Klenk, R. P. Gunsalus, H. J. Fritz, and G. Gottschalk. (2002) The Genome of Methanosarcina Mazei: Evidence for Lateral Gene Transfer Between Bacteria and Archaea. J Mol Microbiol Biotechnol 4: 453–461.

Deveau, H., J. E. Garneau, and S. Moineau. (2010) CRISPR/Cas System and Its Role in Phage-Bacteria Interactions. Annu Rev Microbiol 64: 475–493.

Diaz, R., C. Vargas-Lagunas, M. A. Villalobos, H. Peralta, Y. Mora, S. Encarnacion, L. Girard, and J. Mora. (2011) argC Orthologs from Rhizobiales Show Diverse Profiles of Transcriptional Efficiency and Functionality in Sinorhizobium Meliloti. J Bacteriol 193: 460–472.

Ding, S. W. (2010) RNA-Based Antiviral Immunity. Nat Rev Immunol 10: 632–644.

Dlakic, M. and A. Mushegian. (2011) Prp8, the Pivotal Protein of the Spliceosomal Catalytic Center, Evolved from a Retroelement-Encoded Reverse Transcriptase. RNA [Epub ahead of print].

Dobzhansky, T. (1951). Genetics and the Origin of Species. New York: Columbia University Press.