Molecular evolution of fibrillar collagen in chordates, with implications for the evolution of vertebrate skeletons and chordate phylogeny

Evolution and Development

Volumn 8, Issue 4, 2006, Pages 370-377

  Wada, Hiroshi ^a,b,c   Okuyama, Makiko ^a,b   Satoh, Nori ^b   Zhang, Shicui ^d  

^a UNIVERSITY OF TSUKUBA   (Japan)

^b KYOTO UNIVERSITY   (Japan)

^c JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

^d OCEAN UNIVERSITY OF CHINA   (China)

Author keywords

[No Author keywords available]

Indexed keywords

FIBRILLAR COLLAGEN;

COLLAGEN; GENE EXPRESSION; PHYLOGENY; SKELETON; VERTEBRATE;

AMINO ACID SEQUENCE; ANIMAL; ARTICLE; BONE; CHEMISTRY; CHORDATA; GENETICS; HUMAN; MOLECULAR EVOLUTION; MOLECULAR GENETICS; PHYLOGENY;

AMINO ACID SEQUENCE; ANIMALS; BONE AND BONES; CHORDATA; EVOLUTION, MOLECULAR; FIBRILLAR COLLAGENS; HUMANS; MOLECULAR SEQUENCE DATA; PHYLOGENY;

ASCIDIA; ASCIDIACEA; BRANCHIOSTOMA LANCEOLATUM; CHORDATA; DEUTEROSTOMIA; VERTEBRATA;

EID: 33745666523     PISSN: 1520541X     EISSN: 1525142X     Source Type: Journal    
DOI: 10.1111/j.1525-142X.2006.00109.x     Document Type: Article

References (38)

1. Altschul, S. F., et al. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25: 3389-3402.
2. Aouacheria, A., Cluzel, C., Lethias, C., Gouy, M., Garrone, R., and Exposito, J. Y. (2004). Invertebrate data predict an early emergence of vertebrate fibrillar collagen clades and an anti-incest model. J. Biol. Chem. 279: 47711-47719.
3. Bailey, W. J., Kim, J., Wagner, G. P., and Ruddle, F. H. (1997). Phylogenetic reconstruction of vertebrate Hox cluster duplications. Mol. Biol. Evol. 14: 843-853.
4. Bell, D. M., et al. (1997). SOX9 directly regulates the type-II collagen gene. Nat. Genet. 16: 174-178.
5. Blair, J. E., and Hedges, S. B. (2005). Molecular phylogeny and divergence tomes of deuterostomes animals. Mol. Biol. Evol. 22: 2275-2284.
6. Boot-Handford, R. P., and Tuckwell, D. S. (2003). Fibrillar collagen: the key to vertebrate evolution? A tale of molecular incest. BioEssays 25: 142-151.
7. Boot-Handford, R. P., Tuckwell, D. S., Plumb, D. A., Rock, C. F., and Poulsom, R. (2003). A novel and highly conserved collagen (pro(alpha)1(XXVII)) with a unique expression pattern and unusual molecular characteristics establishes a new clade within the vertebrate fibrillar collagen family. J. Biol. Chem. 278: 31067-31077.
8. Bromham, L. D., and Degnan, B. M. (1999). Hemichordates and deuterostome evolution: robust molecular phylogenetic support for a hemichordate + echinoderm clade. Evol. Dev. 1: 166-171.
9. Carroll, S. B., Greiner, J. K., and Weatherbee, S. D. (2001). From DNA to Diversity. Blackwell, Maiden.
10. Dehal, P., et al. (2002). The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins. Science 298: 2157-2167.
11. Furlong, R. F., and Holland, P. W. H. (2002). Were vertebrates octoploid? Philos. Trans. R. Soc. London B 357: 531-544.
12. Koch, M., et al. (2003). Collagen XXIV, a vertebrate fibrillar collagen with structural features of invertebrate collagens: selective expression in developing cornea and bone. J. Biol. Chem. 278: 43236-43244.
13. Lees, J. F., Tasab, M., and Bulleid, N. J. (1997). Identification of the molecular recognition sequence which determines the type-specific assembly of procollagen. EMBO J. 16: 908-916.
14. Lefebvre, V., Huang, W., Harley, V. R., Goodfellow, P. N., and de Crombrugghe, B. (1997). SOX9 is a potent activator of the chondrocyte-specific enhancer of the pro alpha1(II) collagen gene. Mol. Cell. Biol. 17: 2336-2346.
15. Liu, Y., Li, H., Tanaka, K., Tsumaki, N., and Yamada, Y. (2000). Identification of an enhancer sequence within the first intron required for cartilage-specific transcription of the alpha2(XI) collagen gene. J. Biol. Chem. 275: 12712-12718.
16. Miller, E. J. (1984). Chemistry of the collagens and their distribution. In K. A. Piez and A. H. Reddi (eds.). Extracellular Matrix Biochemistry. Elsevier, New York.
17. Muller, T., and Vingron, M. (2000). Modeling aminoacid replacement. J. Comput. Biol. 7: 761-776.
18. Oda, H., Wada, H., Tagawa, K., Akiyama-Oda, Y., Satoh, N., Zhang, S., and Tsukita, S. (2002). A novel amphioxus cadherin that localizes to epithelial adherens junctions has an unusual domain organization with implication for chordate phylogeny. Evol. Dev. 4: 426-434.
19. Ohno, S. (1970). Evolution by Gene Duplication. Springer-Verlag, New York.
20. Pace, J. M., Corrado, M., Missero, C., and Byers, P. H. (2003). Identification, characterization and expression analysis of a new fibrillar collagen gene COL27A1. Matrix Biol. 22: 3-14.
21. Panopoulou, G., et al. (2003). New evidence for genome-wide duplications at the origin of vertebrates using an amphioxus gene set and completed animal genomes. Genome Res. 13: 1056-1066.
22. Philippe, H., Lartillot, N., and Brinkmann, H. (2005). Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia. Mol. Biol. Evol. 22: 1246-1253.
23. Satoh, N. (1994). Developmental Biology of Ascidian. Cambridge University Press, Cambridge.
24. Satou, Y., et al. (2002). A cDNA resource from the basal chordate Ciona intestinalis. Genesis 33: 153-154.
25. Schmidt, H. A., Strimmer, K., Vingron, M., and von Haeseler, A. (2002). TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 18: 502-504.
26. Stone, J. R., and Wray, G. A. (2001). Rapid evolution of cis-regulatory sequences via local point mutations. Mol. Biol. Evol. 18: 1764-1770.
27. Turbeville, J. M., Schulz, J. R., and Raff, R. A. (1994). Deuterostome phylogeny and the sister group of the chordates: evidence from molecules and morphology. Mol. Biol. Evol. 11: 648-655.
28. Vuorio, E., and de Crombrugghe, B. (1990). The family of collagen genes. Annu. Rev. Biochem. 59: 837-872.
29. Wada, H. (2001a). Origin and evolution of the neural crest: a hypothetical reconstruction of its evolutionary history. Dev. Growth Differ. 43: 509-520.
30. Wada, H. (2001b). The origin of the neural crest and insights into evolution of the vertebrate face. In H. Sawada, H. Yokosawa, and C. C. Lambert (eds.). The Biology of Ascidians. Springer-verlag, Tokyo.
31. Wada, H., and Satoh, N. (2001). Patterning the protochordate neural tube. Curr. Opin. Neurobiol. 11: 16-21.
32. Wada, H., and Satoh, N. (1994). Details of the evolutionary history from invertebrates to vertebrates, as deduced from the sequences of 18S rDNA. Proc. Natl. Acatl. Sci. USA 91: 1801-1804.
33. Williams, N. A., and Holland, P. W. H. (1998). Molecular evolution of the brain of chordates. Brain Behav. Evol. 52: 177-185.
34. Winchell, C. J., Sullivan, J., Cameron, C. B., Swalla, B. J., and Mallat, J. (2002). Evaluating hypotheses of deuterostome phylogeny and chordate evolution with new LSU and SSU ribosomal DNA data. Mol. Biol. Evol. 19: 762-776.
35. Wray, G. A., Hahn, M. W., Abouheif, E., Baihoff, J. P., Pizer, M., Rockman, M. V., and Romano, L. A. (2003). The evolution of transcriptional regulation in eukaryotes. Mol. Biol. Evol. 20: 1377-1419.
36. Yasui, K., Tabata, S., Ueki, T., Uemura, M., and Zhang, S. (1998a). Early development of the peripheral nervous system in a lancelet species. J. Comp. Neurol. 393: 415-425.
37. Yasui, K., Zhang, S., Uemura, M., Aizawa, S., and Ueki, T. (1998b). Expression of a twist-related gene, Bbtwist, during the development of a lancelet species and its relation to cephalochordate anterior structures. Dev. Biol. 195: 49-59.
38. Yasuo, H., and Satoh, N. (1994). An ascidian homolog of the mouse Brachyury (T) gene is expressed exclusively in notochord cells at fate restricted stage. Dev. Growth Differ. 36: 9-18.