The molecular biology underlying developmental evolution

Evolving Pathways: Key Themes in Evolutionary Developmental Biology

Volumn , Issue , 2008, Pages 80-99

  Alonso, Claudio R ^a  

^a UNIVERSITY OF CAMBRIDGE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 58549087914     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1017/CBO9780511541582.008     Document Type: Chapter

References (66)

1. Akam, M. 1998. Hox genes, homeosis and the evolution of segment identity: no need for hopeless monsters. International Journal of Developmental Biology 42, 445-451.
2. Alonso, C. R. & Wilkins, A. S. 2005. The molecular elements that underlie developmental evolution. Nature Reviews Genetics 6, 709-715.
3. Arnone, M. I. & Davidson, E. H. 1997. The hardwiring of development: organization and function of genomic regulatory systems. Development 124, 1851-1864.
4. Bell, L. R., Maine, E. M., Schedl, P. & Cline, T. W. 1988. Sex-lethal, a Drosophila sex determination switch gene, exhibits sex-specific RNA splicing and sequence similarity to RNA binding proteins. Cell 55, 1037-1046.
5. Belting, H. G., Shashikant, C. S. & Ruddle, F. H. 1998. Modification of expression and cis-regulation of Hoxc8 in the evolution of diverged axial morphology. Proceedings of the National Academy of Sciences of the USA 95, 2355-2360.
6. Bender, W., Akam, M., Karch, F. et al. 1983. Molecular genetics of the bithorax complex in Drosophila melanogaster. Science 221, 23-29.
7. Berget, S. M., Moore, C. & Sharp, P. A. 1977. Spliced segments at the 5' terminus of adenovirus 2 late mRNA. Proceedings of the National Academy of Sciences of the USA 74, 3171-3175.
8. Berk, A.J. & Sharp, P. A. 1978a. Spliced early mRNAs of simian virus 40. Proceedings of the National Academy of Sciences of the USA 75, 1274-1278.
9. Berk, A. J. & Sharp, P. A. 1978b. Structure of the adenovirus 2 early mRNAs. Cell 14, 695-711.
10. Bharadwaj, R. & Kolodkin, A. L. 2006. Descrambling Dscam diversity. Cell 125, 421-424.
11. Bomze, H. M. & Lopez, A. J. 1994. Evolutionary conservation of the structure and expression of alternatively spliced Ultrabithorax isOf orms from Drosophila. Genetics 136, 965-977.
12. Breathnach, R. & Chambon, P. 1981. Organization and expression of eucaryotic split genes coding for proteins. Annual Review of Biochemistry 50, 349-383.
13. Breathnach, R., Mandel, J. L. & Chambon, P. 1977. Ovalbumin gene is split in chicken DNA. Nature 270, 314-319.
14. Britten, R. J. & Davidson, E. H. 1969. Gene regulation for higher cells: a theory. Science 165, 349-357.
15. Caceres, J. F. & Kornblihtt, A. R. 2002. Alternative splicing: multiple control mechanisms and involvement in human disease. Trends in Genetics 18, 186-193.
16. Carroll, S. B. 1995. Homeotic genes and the evolution of arthropods and chor- dates. Nature 376, 479-485.
17. Carroll, S. B. 2005. Evolution at two levels: on genes and form. PLoS Biology 3, e245.
18. Carthew, R. W. 2006. Gene regulation by microRNAs. Current Opinion in Genetics and Development 16, 203-208.
19. Chen, B. E., Kondo, M., Garnier, A. et al. 2006. The molecular diversity of Dscam is functionally required for neuronal wiring specificity in Drosophila. Cell 125, 607-620.
20. Darzacq, X., Singer, R. H. & Shav-Tal, Y. 2005. Dynamics of transcription and mRNA export. Current Opinion in Cell Biology 17, 332-339.
21. Davidson, E. H. 2001. Genomic Regulatory Systems. San Diego: Academic Press.
22. Davidson, E. H., McClay, D. R. & Hood, L. 2003. Regulatory gene networks and the properties of the developmental process. Proceedings of the National Academy of Sciences of the USA 100, 1475-1480.
23. DeVries, H. 1904. Species and Varieties: Their Origin by Mutation. Chicago: The Open Court Publishing Company.
24. Faustino, N. A. & Cooper, T. A. 2003. Pre-mRNA splicing and human disease. Genes & Development 17, 419-437.
25. Fontana, W. & Buss, L. W. 1993. “The arrival of the fittest”: towards a theory of biological organization. Bulletin of Mathematical Biology 56, 1-64.
26. Gompel, N., Prud’homme, B., Wittkopp, P. J., Kassner, V. A. & Carroll, S. B. 2005. Chance caught on the wing: cis-regulatory evolution and the origin of pigment patterns in Drosophila. Nature 433, 481-487.
27. Gould, S. J. 1977. Ontogeny and Phylogeny. Cambridge, MA: Harvard University Press.
28. Holland, P. W. 1999. The future of evolutionary developmental biology. Nature 402, C41-C44.
29. Hummel, T., Vasconcelos, M. L., Clemens, J. C. et al. 2003. Axonal targeting of olfactory receptor neurons in Drosophila is controlled by Dscam. Neuron 37, 221-231.
30. Jacob, F. 1977. Evolution and tinkering. Science 196, 1161-1166.
31. Jacob, F. & Monod, J. 1961. Genetic regulatory mechanisms in the synthesis of proteins. Journal of Molecular Biology 3, 318-356.
32. Jeong, S., Rokas, A. & Carroll, S. B. 2006. Regulation of body pigmentation by the Abdominal-B Hox protein and its gain and loss in Drosophila evolution. Cell 125, 1387-1399.
33. Jing, Q., Huang, S., Guth, S. et al. 2005. Involvement of microRNA in AU-rich element-mediated mRNA instability. Cell 120, 623-634.
34. Johnson, J. M., Castle, J., Garrett-Engele, P. et al. 2003. Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays. Science 302, 2141-2144.
35. Kampa, D., Cheng, J., Kapranov, P. et al. 2004. Novel RNAs identified from an indepth analysis of the transcriptome of human chromosomes 21 and 22. Genome Research 14, 331-342.
36. King, M. C. & Wilson, A. C. 1975. Evolution at two levels in humans and chimpanzees. Science 188, 107-116.
37. Kornblihtt, A. R., Vibe-Pedersen, K. & Baralle, F. E. 1984. Human fibronectin: molecular cloning evidence for two mRNA species differing by an internal segment coding for a structural domain. EMBO Journal 3, 221-226.
38. Levine, M. & Davidson, E. H. 2005. Gene regulatory networks for development. Proceedings of the National Academy of Sciences of the USA 102, 4936-4942.
39. Lopez, A. J. 1998. Alternative splicing of pre-mRNA: developmental consequences and mechanisms of regulation. Annual Review of Genetics 32, 279-305.
40. Lopez, A. J. & Hogness, D. S. 1991. Immunochemical dissection of the Ultrabithorax homeoprotein family in Drosophila melanogaster. Proceedings of the National Academy of Sciences of the USA 88, 9924-9928.
41. Ludwig, M. Z., Patel, N. H. & Kreitman, M. 1998. Functional analysis of eve stripe 2 enhancer evolution in Drosophila: rules governing conservation and change. Development 125, 949-958.
42. Maniatis, T. & Reed, R. 2002. An extensive network of coupling among gene expression machines. Nature 416, 499-506.
43. Modrek, B. & Lee, C. 2002. A genomic view of alternative splicing. Nature Genetics 30, 13-19.
44. Padgett, R. A., Grabowski, P. J., Konarska, M. M., Seiler, S. & Sharp, P. A. 1986. Splicing of messenger RNA precursors. Annual Review of Biochemistry 55, 1119-1150.
45. Pagani, F. & Baralle, F. E. 2004. Genomic variants in exons and introns: identifying the splicing spoilers. Nature Reviews Genetics 5, 389-396.
46. Plasterk, R. H. 2006. Micro RNAs in animal development. Cell 124, 877-881.
47. Prud’homme, B., Gompel, N., Rokas, A. et al. 2006. Repeated morphological evolution through cis-regulatory changes in a pleiotropic gene. Nature 440, 1050-1053.
48. Rockman, M. V. & Wray, G. A. 2002. Abundant raw material for cis-regulatory evolution in humans. Molecular Biology and Evolution 19, 1991-2004.
49. Schmucker, D., Clemens, J. C., Shu, H. et al. 2000. Drosophila Dscam is an axon guidance receptor exhibiting extraordinary molecular diversity. Cell 101, 671-684.
50. Schmucker, D. & Flanagan, J. G. 2004. Generation of recognition diversity in the nervous system. Neuron 44, 219-222.
51. Sharp, P. A. 1993. Split genes and RNA splicing. In N. Ringertz (ed.) Nobel Lectures, Physiology or Medicine 1991-1995. Singapore: World Scientific Publishing Co., pp. 145-174.
52. Smale, S. T. & Kadonaga, J. T. 2003. The RNA polymerase II core promoter. Annual Review of Biochemistry 72, 449-479.
53. Smith, C. W., Patton, J. G. & Nadal-Ginard, B. 1989. Alternative splicing in the control of gene expression. Annual Review of Genetics 23, 527-577.
54. Stern, D. L. 2000. Evolutionary developmental biology and the problem of variation. Evolution 54, 1079-1091.
55. Szutorisz, H., Dillon, N. & Tora, L. 2005. The role of enhancers as centres for general transcription factor recruitment. Trends in Biochemical Sciences 30, 593-599.
56. Tilghman, S. M., Tiemeier, D. C., Seidman, J. G. et al. 1978. Intervening sequence of DNA identified in the structural portion of a mouse beta-globin gene. Proceedings of the National Academy of Sciences of the USA 75, 725-729.
57. Van Valen, L. 1973. Festschrift. Science 180, 488.
58. Wang, X. & Chamberlin, H. M. 2004. Evolutionary innovation of the excretory system in Caenorhabditis elegans. Nature Genetics 36, 231-232.
59. Wang, X., Greenberg, J. F. & Chamberlin, H. M. 2004. Evolution of regulatory elements producing a conserved gene expression pattern in Caenorhabditis. Evolution & Development 6, 237-245.
60. Watson, J. D. & Crick, F. H. 1953a. Genetical implications of the structure of deoxyribonucleic acid. Nature 171, 964-967.
61. Watson, J. D. & Crick, F. H. 1953b. Molecular structure of nucleic acids; a structure for deoxyribose nucleic acid. Nature 171, 737-738.
62. White, R. A. & Wilcox, M. 1984. Protein products of the bithorax complex in Drosophila. Cell 39, 163-171.
63. Wray, G. A. 2003. Transcriptional regulation and the evolution of development. International Journal of Developmental Biology 47, 675-684.
64. Wray, G. A., Hahn, M. W., Abouheif, E. et al. 2003. The evolution of transcriptional regulation in eukaryotes. Molecular Biology and Evolution 20, 1377-1419.
65. Wu, L., Fan, J. & Belasco, J. G. 2006. MicroRNAs direct rapid deadenylation of mRNA. Proceedings of the National Academy of Sciences of the USA 103, 4034-4039.
66. Zhu, H., Hummel, T., Clemens, J. C. et al. 2006. Dendritic patterning by Dscam and synaptic partner matching in the Drosophila antennal lobe. Nature Neuroscience 9, 349-355.