Molecular diversity of proteins in biological offense and defense systems

Molecular Diversity

Volumn 10, Issue 4, 2006, Pages 511-514

  Ogawa, Tomohisa ^a  

^a TOHOKU UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BETA DEFENSIN; GALECTIN; IMMUNOGLOBULIN; LECTIN; NEUROTOXIN; PROTEIN; RIBONUCLEASE A; SNAKE VENOM; TOXIN; VASCULOTROPIN; VASCULOTROPIN RECEPTOR;

ALTERNATIVE RNA SPLICING; AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; BIODIVERSITY; BIOLOGICAL ACTIVITY; DNA REPAIR; EDITORIAL; EEL; EVOLUTIONARY ADAPTATION; EXON; GENE DUPLICATION; GENE MUTATION; GENE REPLICATION; GENE SEQUENCE; GENETIC VARIABILITY; GENOME ANALYSIS; HOST RESISTANCE; HUMAN; MOLECULAR EVOLUTION; MUTATION RATE; NONHUMAN; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN INTERACTION; SEQUENCE ANALYSIS; SNAKE; SPECIES DIFFERENCE; SPIDER;

ANIMALS; EVOLUTION, MOLECULAR; HUMANS; IMMUNITY, NATURAL; VARIATION (GENETICS); VASCULAR ENDOTHELIAL GROWTH FACTOR A;

EID: 33845367813     PISSN: 13811991     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11030-006-9048-y     Document Type: Editorial

References (61)

1. Kriventseva, E.V., Koch, I., Apweiler, R., Vingron, M., Bork, P., Gelfand, M.S. and Sunyaev, S., Increase of functional diversity by alternative splicing, Trends Genet. 19 (2003) 124-128.
2. Su, Z., Wang, J., Yu, J., Huang, X. and Gu, X., Evolution of alternative splicing after gene duplication, Genome Res. 16 (2006) 182-189.
3. Fitch, W.M., Bush, R.M., Bender, C.A. and Cox, N.J., Long term trends in the evolution of H(3) HA1 human influenza type A, Proc. Natl. Acad. Sci., USA 94 (1997) 7712-7718.
4. Endo, T., Ikeo, K. and Gojobori, T., Large-scale search for genes on which positive selection may operate, Mol. Biol. Evol. 13 (1996) 685-690.
5. Baric, R.S., Yount, B., Hensley, L., Peel, S.A. and Chen W.l., , Episodic evolution mediates interspecific transfer of a murine coronavirus, J. Virol. 71 (1997) 1946-1955.
6. Wu, J.C., Chiang, T.Y., Shiue, W.K., Wang, S.Y., Sheen, I.J., Huang, Y.H. and Syuet, W.J., Recombination of hepatitis D virus RNA sequences and its implications, Mol. Biol. Evol. 16 (1999) 1622-1632.
7. Smith, N.H., Maynard Smith, J. and Spratt, B.G., Sequence evolution of the porBgene of Neisseria gonorrhoeae and Neisseria meningitidis: evidence for positive darwinian selection, Mol. Biol. Evol. 12 (1995) 363-370.
8. Hughes, M.K. and Hughes, A.L., Natural selection on Plasmodium surface proteins, Mol. Biochem. Parasitol. 71 (1995) 99-113.
9. Weinreich, D.M., Delaney, N.F., DePristo, M.A. and Hartl, D.L., Darwinian evolution can follow only very few mutational paths to fitter proteins, Science 312 (2006) 111-114.
10. Riley, M.A., Positive selection for colicin diversity in bacteria, Mol. Biol. Evol. 10 (1993) 1048-1059.
11. Duda, T.F. and Palumbi, S.R. Jr., Molecular genetics of ecological diversification: duplication and rapid evolution of toxin genes of the venomous gastropod Conus, Proc. Natl. Acad. Sci. USA 96 (1999) 6820-6823.
12. Duda, T.F. and Palumbi, S.R. Jr., Evolutionary diversification of multigene families: allelic selection of toxins in predatory cone snails, Mol. Biol. Evol. 17 (2000) 1286-1293.
13. Conticello, S.G., Gilad, Y., Avidan, N., Ben-Asher, E., Levy, Z. and Fainzilber, M., Mechanisms for evolving hypervariability: the case for conopeptides, Mol. Biol. Evol. 18 (2001) 120-131.
14. Olivera, B.M., Walker, C., Cartier, G.E., Hooper, D., Santos, A.D., Schoenfeld, R., Shetty, R., Watkins, M., Bandyopadhyay, P. and Hillyard, D.R., Speciation of cone snails and interspecific hyperdivergence of their venom peptides: potential evolutionary significance of introns, Ann. N.Y. Acad. Sci. 870 (1999) 223-237.
15. 2 isozymes, Proc. Natl. Acad. Sci. USA 90 (1993) 5964-5968.
16. 2 isozyme genes, Proc. Natl. Acad. Sci. USA 92 (1995) 5605-5609.
17. Deshimaru, M., Ogawa, T., Nakashima, K., Nobuhisa, I., Chijiwa, T., Shimohigashi, Y., Fukumaki, Y., Niwa, M., Yamashina, I., Hattori, S. and Ohno, M., Accelerated evolution of crotalinae snake venom gland serine proteases, FEBS Lett. 397 (1996) 83-88.
18. Calvetea, J., Marcinkiewiczb, C., Monleónc, D., Esteveac, V., Celdaçd, B., Juáreza, P. and Libia Sanz, L., Snake venom disintegrins: evolution of structure and function, Toxicon 45 (2005) 1063-1074.
19. Ohno, M., Menez, R., Ogawa, T., Danse, J.M., Shimohigashi, Y., Fromen, C., Ducancel, F., Zinn-Justin, S., Le Du, M.H., Boulain, J.C., Tamiya, T. and Menez, A., Molecular evolution of snake toxins: is the functional diversity of snake toxins associated with a mechanism of accelerated evolution?, Prog. Nucleic Acids Res. Mol. Biol. 59 (1998) 307-364.
20. Ogawa, T., Chijiwa, T., Oda-Ueda, N. and Ohno, M., Molecular diversity and accelerated evolution of C-type lectin-like proteins from snake venom, Toxicon 45 (2005) 1-14.
21. Froy, O., Sagiv, T., Poreh, M., Urbach, D., Zilberberg, N. and Gurevitz, M., Dynamic diversification from a putative common ancestor of scorpion toxins affecting sodium, potassium, and chloride channels, J. Mol. Evol. 48 (1999) 187-196.
22. Zhu, S., Bosmans, F. and Tytgat, J., Adaptive evolution of scorpion sodium channel toxins, J. Mol. Evol. 58 (2004) 145-153.
23. Cao, Z., Mao, X., Xu, X., Sheng, J., Dai, C., Wu, Y., Luo, F., Sha, Y., Jiang, D. and Li, W., Adaptive evolution after gene duplication in alpha-KT x 14 subfamily from Buthus martensii Karsch, IUBMB Life. 57 (2005) 513-521.
24. Escoubas, P., Diochot, S. and Corzo, G., Structure and pharmacology of spider venom neurotoxins, Biochimie 82 (2000) 893-907.
25. Tanaka, T. and Nei, M., Positive darwinian selection observed at the variable-region genes of immunoglobulins, Mol. Biol. Evol. 6 (1989) 447-459.
26. Hughes, A.L. and Nei, M., Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection, Nature 335 (1988) 167-170.
27. Goodwin, R.L., Baumann, H. and Berger, F.G., Patterns of divergence during evolution of α1-proteinase inhibitors in mammals, Mol. Biol. Evol. 13 (1996) 346-358.
28. Tamechika, I., Itakura, M., Saruta, Y., Furukawa, M., Kato, A., Tachibana, S. and Hirose, S., Accelerated evolution in inhibitor domains of porcine elafin family members, J. Biol. Chem. 271 (1996) 7012-7018.
29. Stotz, H.U., Bishop, J.G., Bergmann, C.W., Koch, M., Albersheim, P., Darvill, A.G. and Labavitchet, J.M., Identification of target amino acids that affect interactions of fungal polygalacturonases and their plant inhibitors, Mol. Physiol. Plant Pathol. 56 (2000) 117-130.
30. Hughes, A.L., The evolution of the type I interferon family in mammals, J. Mol. Evol. 41 (1995) 539-548.
31. Nobuhisa, I., Deshimaru, M., Chijiwa, T., Nakashima, K., Ogawa, T., Shimohigashi, Y., Fukumaki, Y., Hattori, S., Kihara, H. and Ohno, M., Structures of genes encoding phospholipase A2 inhibitors from the serum of Trimeresurus flavoviridis snake, Gene 191 (1997) 31-37.
32. Angata, T., Margulies, E.H., Green, E.D. and Varki, A., Large-scale sequencing of the CD33-related Siglec gene cluster in five mammalian species reveals rapid evolution by multiple mechanisms, Proc. Natl. Acad. Sci. USA 101 (2004) 13251-13256.
33. Bishop, J.G., Dean, A.M. and Mitchell-Olds, T., Rapid evolution in plant chitinases: molecular targets of selection in plant-pathogen coevolution, Proc. Natl. Acad. Sci. USA 97 (2000) 5322-5327.
34. Ogawa, T., Ishii, C., Kagawa, D., Muramoto, K. and Kamiya, H., Accelerated evolution in the protein-coding region of galectin cDNAs, congerin I and congerin II, from skin mucus of conger eel (Conger myriaster), Biosci. Biotechnol. Biochem. 63 (1999) 1203-1208.
35. Ogawa, T., Shirai, T., Shionyu-Mitsuyama, C., Yamane, T., Kamiya, H. and Muramoto, K., The speciation of conger eel galectins by rapid adaptive evolution, Glycoconj. J. 19 (2004) 451-458.
36. Ford, M.J., Molecular evolution of transferrin: evidence for positive selection in salmonids, Mol. Biol. Evol. 18 (2001) 639-47.
37. Semple, C.A., Rolfe, M. and Dorin, J.R., Duplication and selection in the evolution of primate beta-defensin genes, Genome Biol. 4 (2003) R31.
38. Lynn, D.J., Lloyd, A.T., Fares, M.A. and O'Farrelly, C., Evidence of positively selected sites in mammalian alpha-defensins, Mol. Biol. Evol. 21 (2004) 819-827.
39. Kitano, T. and Saitou, N., Evolution of Rh blood group genes have experienced gene conversions and positive selection, J. Mol. Evol., 49 (1995)615-626.
40. Zhang, J., Rosenberg, H.F. and Nei, M., Positive darwinian selection after gene duplication in primate ribonuclease genes, Proc. Natl. Acad. Sci. USA 95 (1998) 3708-3713.
41. Zhang, J., Zhang, Y.P. and Rosenberg, H.F., Adaptive evolution of a duplicated pancreatic ribonuclease gene in a leaf-eating monkey, Nat. Genet. 30 (2002) 411-415.
42. OhAinle, M., Kerns, J.A., Malik, H.S. and Emerman, M., Adaptive evolution and antiviral activity of the conserved mammalian cytidine deaminase APOBEC3H, J. Virol. 80 (2006) 3853-3862.
43. Vacquier, V.D., Swanson, W.J. and Lee, Y.H., Positive darwinian selection on two homologous fertilization proteins: what is the selective pressure driving their divergence?, J. Mol. Evol. 44 (1997) 15-22.
44. Hellberg, M.E., Moy, G.W. and Vacquier, V.D., Positive selection and propeptide repeats promote rapid interspecific divergence of a gastropod sperm protein, Mol. Biol. Evol. 17 (2000) 458-466.
45. Galindo, B.E., Vacquier, V.D. and Swanson, W.J., Positive selection in the egg receptor for abalone sperm lysine, Proc. Natl. Acad. Sci. USA 100 (2003) 4639-4643.
46. McCartney, M.A. and Lessios, H.A., Adaptive evolution of sperm bindin tracks egg incompatibility in neotropical sea urchins of the genus Echinometra, Mol. Biol. Evol. 21 (2004) 732-745.
47. Mah, S.A., Swanson, W.J. and Vacquier, V.D., Positive selection in the carbohydrate recognition domains of sea urchin sperm receptor for egg jelly (suREJ) proteins, Mol. Biol. Evol. 22 (2005) 533-541.
48. Rooney, A.P. and Zhang, J., Rapid evolution of a primate sperm protein: relaxation of functional constraint or positive darwinian selection? Mol. Biol. Evol. 16 (1999) 706-710.
49. Turner, L.M. and Hoekstra, H.E., Adaptive evolution of fertilization proteins within a genus: Variation in ZP2 and ZP3 in Deer Mice (Peromyscus), Mol. Biol. Evol., 23 (2006) 1656-1669.
50. Ishimizu, T., Endo, T., Yamaguchi-Kabata, Y., Nakamura, K.T., Sakiyama, F. and Norioka, S., Identification of regions in which positive selection may operate in S-RNase of Rosaceae: implications for S-allele-specific recognition sites in S-Rnase, FEBS Lett. 440 (1998) 337-342.
51. Tsaur, S.C. and Wu, C-I., Positive selection and the molecular evolution of a gene of male reproduction, Acp26Aa of Drosophila, Mol. Biol. Evol. 14 (1997) 544-549.
52. Karn, R.C. and Nachman, M.W., Reduced nucleotide variability at an androgen-binding protein locus (Abpa) in house mice: evidence for positive natural selection, Mol. Biol. Evol. 16 (1999) 1192-1197.
53. Pamilo, P. and O'Neill, R.W., Evolution of Sry genes, Mol. Biol. Evol. 14 (1997) 49-55.
54. Ting, C.T., Tsaur, S.C., Wu, M.L. and Wu, C.I., A rapidly evolving homeobox at the site of a hybrid sterility gene, Science 282 (1998) 1501-1504.
55. Sutton, K.A. and Wilkinson, M.F., Rapid evolution of a homeodomain: evidence for positive selection, J. Mol. Evol. 45 (1997) 579-588.
56. Frankel, N., Hasson, E., Iusem, N.D. and Rossi, M.S., Adaptive evolution of the water stress-induced gene Asr2 in Lycopersicon species dwelling in arid habitats, Mol. Biol. Evol. 20 (2003) 1955-1962.
57. O'Connell, M.J. and McInerney, J.O., Adaptive evolution of the human fatty acid synthase gene: support for the cancer selection and fat utilization hypotheses?, Gene 360 (2005) 151-159.
58. Baudry, E., Desmadril, M. and Werren, J.H., Rapid adaptive evolution of the tumor suppressor gene pten in an insect lineage, J. Mol. Evol. 62 (2006) 738-744.
59. Yang, Z. and Bielawski, J.P., Statistical methods for detecting molecular adaptation, TREE 15 (2000) 496-503.
60. Swanson, W.J., Adaptive evolution of genes and gene families, Curr. Opin. Genet. Develop. 13 (2003) 617-622.
61. Swanson, W.J. and Vacquier, V.D., The rapid evolution of reproductive proteins, Nat. Rev. Genet. 3 (2002) 137-144.