Sequence convergence in the peptide-binding region of primate and rodent MHC class Ib molecules

Molecular Biology and Evolution

Volumn 14, Issue 10, 1997, Pages 1035-1041

  Yeager, Meredith ^a   Kumar, Sudhir ^a   Hughes, Austin L ^a  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

Author keywords

Convergent evolution; HLA E; MHC class Ib; Peptide binding; Positive selection

Indexed keywords

HLA ANTIGEN; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1;

AMINO ACID SEQUENCE; ARTICLE; BINDING SITE; GENETIC POLYMORPHISM; GENETIC SELECTION; HUMAN; MAJOR HISTOCOMPATIBILITY COMPLEX; MAMMAL; MOLECULAR EVOLUTION; MOUSE; NONHUMAN; PRIMATE; SEQUENCE HOMOLOGY; SPECIES DIFFERENCE;

MAMMALIA; PRIMATES; RODENTIA;

EID: 0030928032     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a025709     Document Type: Article

References (46)

1. BJORKMAN, P. J., M. A. SAPER, B. SAMRAOUI, W. S. BENNETT, J. L. STROMINGER, and D. C. Wiley. 1987a. Structure of the human class I histocompatibility antigen, HLA-A2. Nature 329:506-512.
2. _. 1987b. The foreign antigen binding site and T cell recognition regions of class I histocompatibility antigens. Nature 329:512-518.
3. BOYSON, J. E., S. N. MCADAM, A. GALLIMORE, T. G. GOLOS, X. LI, F. M. GOTCH, A. L. HUGHES, and D. L. WATKINS. 1995. The MHC locus E in macaques is polymorphic and is conserved between macaques and humans. Immunogenetics 41:59-68.
4. BRAUD, V., E. Y. JONES, and A. MCMICHAEL. 1997. The human major histocompatibility complex class Ib molecule HLA-E binds signal sequence-derived peptides with primary anchor residues at positions 2 and 9. Eur. J. Immunol. 27:1164-1169.
5. a histocompatibility antigen and proposed structure of the putative peptide binding site. J. Immunol. 151:6089-6098.
6. b. J. Immunol. 158:2183-2191.
7. DIEHL, M., C. MUNZ, W. KEIHOLZ, S. STEVANOVIC, N. HOLMES, Y. W. LOKE, and H. RAMMENSEE. 1996. Non-classical HLA-G molecules are classical peptide presenters. Curr. Biol. 6:305-314.
8. DOOUTTLE, R. F. 1994. Convergent evolution: the need to be explicit. Trends Biochem. Sci. 19:15-18.
9. FELSENSTEIN, J. 1981. Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol. 17:368-376.
10. FISCHER LINDAHL, K., B. HAUSMANN, and V. M. CHAPMAN. 1989. Molecular definition of a mitochondrially encoded mouse minor histocompatibility antigen. Cold Spring Harb. Symp. Quant. Biol. 54:563-569.
11. GARBOCZI, D. N., P. GHOSH, U. UTZ, Q. R. FAN, W. E. BIDDISON, and D. C. WILEY. 1996. Structure of the complex between human T-cell receptor, viral peptide, and HLA-A2. Nature 384:134-141.
12. HIGGINS, D. G., A. J. BLEASBY, and R. FUCHS. 1992. CLUSTAL V: improved software for multiple sequence alignment. Comput. Appl. Biosci. 8:189-191.
13. HOWARD, J. C. 1987. MHC organization in the rat: evolutionary considerations. Pp. 397-427 in G. KLESOE and D. H. SCHULZE, eds. Evolution and vertebrate immunity. University of Texas Press, Austin.
14. HUGHES, A. L. 1995. Origin and evolution of HLA class I pseudogenes. Mol. Biol. Evol. 12:247-258.
15. HUGHES, A. L., and M. K. HUGHES. 1995. Natural selection on the peptide-binding regions of major histocompatibility complex molecules. Immunogenetics 42:233-243.
16. HUGHES, A. L., and M. NEI. 1988. Pattern of nucleotide substitution at MHC class I loci reveals overdominant selection. Nature 335:167-170.
17. _. 1989. Evolution of the major histocompatibility complex: independent origin of nonclassical class I genes in different groups of mammals. Mol. Biol. Evol. 6:559-579.
18. IMANI, F., and M. J. SOLOSKI. 1991. Heat shock proteins can regulate expression of the Tla region-encoded class Ib molecule Qa-1. Proc. Natl. Acad. Sci. USA 88:10475.
19. JANEWAY, C., B. JONES, and A. HAYDAY. 1988. Specificity and function of T cells bearing γδ receptors. Immunol. Today 9:73.
20. JOYCE, S., P. TABACZEWSKI, R. H. ANGFLETTI, S. G. NATHENSON, and I. STROYNOWSKI. 1994. A nonpolymorphic major histocompatibility complex class Ib molecule binds a large array of diverse self-peptides. J. Exp. Med. 179:579-588.
21. KLEIN, J. 1986. Natural history of the major histocompatibility complex. Wiley, New York.
22. KLEIN, J., and F. FIGUEROA. 1986. Evolution of the major histocompatibility complex. CRC Crit. Rev. Immunol. 6:395-386.
23. KLEIN, J., and C. O'HUIGIN. 1994. The conundrum of non-classical major histocompatibility complex genes. Proc. Natl. Acad. Sci. USA 91:6251-6252.
24. KORNEGAY, J. R., J. W. SCHILLING, and A. C. WILSON. 1994. Molecular adaptation of a leaf-eating bird: stomach lysozyme of the hoatzin. Mol. Biol. Evol. 11:921-928.
25. KREITMAN, M., and H. AKASHI. 1995. Molecular evidence for natural selection. Annu. Rev. Ecol. Syst. 26:403-422.
26. KUMAR, S., K. TAMURA, and M. NEI. 1993. MEGA: molecular evolutionary genetic analysis. Version 2.0. Pennsylvania State University, University Park.
27. b. J. Immunol. 158:3244-3251.
28. LAMB, J., V. BAL, P. SAMPERIO, A. SO, J. ROTHBARD, S. JINDAL, R. YOUNG, and D. YOUNG. 1989. Stress proteins may provide a link between the immune response to infection and auto immunity. Int. Immunol. 2:191.
29. LI, W.-H., M. GOUY, P. M. SHARP, C. O'HUIGIN, and Y.-W. YANG. 1990. Molecular phylogeny of Rodentia, Lagomorpha, Primates, Artiodactyla, and Carnivora and molecular clocks. Proc. Natl. Acad. Sci. USA 87:6703-6707.
30. NEI, M. 1987. Molecular evolutionary genetics. Columbia University Press, New York.
31. NEI, M., and T. GOJOBORI. 1986. Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol. Biol. Evol. 3:418-426.
32. O'BRIEN, R., M. HAPP, A. DALLAS, E. PALMER, R. KUBO, and W. BORN. 1989. Stimulation of a major subset of lymphocytes expressing T cell receptor γδ by an antigen derived from Mycobacterium tuberculosis. Cell 57:667.
33. PAMER, E. G., C.-R. WANG, L. FLAHERTY, K. FISCHER-LINDAHL, and M. J. BEVAN. 1992. H-2M3 presents a Listeria monocytogenes peptide to cytotoxic T lymphocytes. Cell 70:215-223.
34. RAMMENSEE, H.-G., T. FRIEDE, and S. STEVANOVIC. 1995. MHC ligands and peptide motifs: first listing. Immunogenetics 41:178-228.
35. RZHETSKY, A., and M. NEI. 1992. A simple method for estimating and testing minimum evolution trees. Mol. Biol. Evol. 9:945-967.
36. SAITOU, N., and M. NEI. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
37. SAPER, M. A., P. J. BJORKMAN, and D. C. WILEY. 1991. Refined structure of the human histocompatibility antigen HLA-A2 at 2.6 Å resolution. J. Mol. Biol. 219:277-319.
38. SCHMIDT, C. M., and H. T. ORR. 1995. HLA-G transgenic mice: a model for studying expression and function at the maternal/fetal interface. Immunol. Rev. 147:53-65.
39. SHAWAR, S. M., R. G. COOK, J. R. RODGERS, and R. R. RICH. 1990. Specialized functions of MHC class I molecules: I. An N-formyl peptide receptor is required for construction of the class I antigen Mta. J. Exp. Med. 171:897.
40. SHE, J. X., S. A. BOEHME, T. W. WANG, F. BONHOMME, and E. K. WAKELAND. 1991. Amplification of major histocompatibility complex class II gene diversity by intraexonic recombination. Proc. Natl. Acad. Sci. USA 88:453-457.
41. STEWART, C.-B., J. W. SCHILLING, and A. C. WILSON. 1987. Adaptive evolution in the lysozymes of foregut fermenters. Nature 330:401-404.
42. SWOFFORD, D. L. 1993. PAUP: phylogenetic analysis using parsimony. Version 3.1.1. Illinois Natural History Survey, Champaign.
43. TYKOCINSKI, M. L., P. N. MARCHE, E. E. MAX, and T. J. KINDT. 1984. Rabbit class I MHC genes: cDNA clones define full-length transcripts of an expressed gene and a putative pseudogene. J. Immunol. 133:2261-2269.
44. WANG, C.-R., B. E. LOVELAND, and K. F. LINDAHL. 1991. H-2M3 encodes the MHC class I molecule presenting the maternally transmitted antigen of the mouse. Cell 66:335-345.
45. YANG, Z., S. KUMAR, and M. NEI. 1995. A new method of inference of ancestral nucleotide and amino acid sequences. Genetics 141:1641-1650.
46. YOKOYAMA, R., and S. YOKOYAMA. 1990. Convergent evolution of the red- and green-like visual pigment genes in fish, Astyanax fasciatus, and human. Proc. Natl. Acad. Sci. USA 87:9315-9318.