Biological implication for loss of function at major histocompatibility complex loci

Immunogenetics

Volumn 60, Issue 6, 2008, Pages 295-302

  Sawai, Hiromi ^a,b   Go, Yasuhiro ^c   Satta, Yoko ^a  

^a GRADUATE UNIVERSITY FOR ADVANCED STUDIES   (Japan)

^b OSAKA UNIVERSITY   (Japan)

^c HARVARD UNIVERSITY   (United States)

Author keywords

Advantageous pseudogenization; Functional divergence; Gene duplication; Peptide binding repertoire; Supertypes

Indexed keywords

HLA ANTIGEN;

AMINO ACID SUBSTITUTION; ARTICLE; BITTER TASTE; CONTROLLED STUDY; GENE DUPLICATION; HUMAN; MAJOR HISTOCOMPATIBILITY COMPLEX; NUCLEOTIDE SEQUENCE; OLFACTORY RECEPTOR; PRIORITY JOURNAL; PROTEIN FUNCTION; PSEUDOGENE; SEQUENCE ANALYSIS; TASTE BUD;

AMINO ACID SUBSTITUTION; BINDING SITES; GENE DUPLICATION; HLA-A ANTIGENS; HLA-B ANTIGENS; HLA-DR ANTIGENS; HUMANS; MAJOR HISTOCOMPATIBILITY COMPLEX; RECEPTORS, G-PROTEIN-COUPLED; RECEPTORS, ODORANT;

EID: 44449102310     PISSN: 00937711     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00251-008-0291-5     Document Type: Article

References (38)

1. Celada F, Seiden PE (1992) A computer model of cellular interactions in the immune system. Immunol Today 13:56-62
2. De Boer RJ, Perelson AS (1993) How diverse should the immune system be? Proc R Soc Lond B 252:171-175
3. Del Gurercio MF, Sidney J, Hermanson G, Perez C, Grey HM, Kubo RT, Sette A (1995) Binding of a peptide antigen to multiple HLA alleles allows definition of an A2-like supertype. J Immunol 154:685-693
4. Falk K, Rötzschke O, Stevanovic S, Jung G, Rammensee H-G (1994) Pool sequencing of natural HLA-DR, DQ, and DP ligands reveals detailed peptide motifs, constraints of processing and general rules. Immunogenetics 39:230-242
5. Gaur LK, Heise ER, Thurtle ES, Nepom GT (1992) Conservation of the HLA-DQB2 locus in nonhuman primates. J Immunol 149:25-30
6. Go Y, Satta Y, Takenaka O, Takahata N (2005) Lineage-specific loss of function of bitter taste receptor genes in humans and nonhuman primates. Genetics 170:313-326
7. Goldrath AW, Bevan MJ (1999) Selecting and maintaining a diverse T-cell repertoire. Nature 402:255-262
8. Grahovac B, Schönbach C, Brändle U, Mayer WE, Golubic M, Figueroa F, Trowsdale J, Klein J (1993) Conservative evolution of the Mhc-DP region in anthropoid primates. Hum Immunol 37:75-84
9. Hughes AL, Nei M (1988) Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection. Nature 335:167-170
10. Hughes AL, Nei M (1989) Nucleotide substitution at major histocompatibility complex class II loci: evidence for overdominant selection. Proc Natl Acad Sci USA 86:958-962
11. Jukes TH, Cantor CR (1969) Evolution of protein molecules. In: Munro HN (ed) Mammalian protein metabolism. Academic, New York, pp 21-132
12. Kenter M, Otting N, Anholts J, Leunissen J, Jonker M, Bontrop RE (1992) Evolutionary relationships among the primate Mhc-DQA1 and DQA2 alleles. Immunogenetics 36:71-78
13. Klein J, Satta Y, O'hUigin C, Takahata N (1993) The molecular descent of the major histocompatibility complex. Annu Rev Immunol 11:269-295
14. Klein J, Hořejší V (1997) Immunology. Blackwell Science, Edinburgh
15. Kulski JK, Shiina T, Anzai T, Kohara S, Inoko H (2002) Comparative genomic analysis of the MHC: the evolution of class I duplication blocks, diversity and complexity from shark to man. Immunological Rev 190:95-122
16. Kulski JK, Anzai T, Shiina T, Inoko H (2004) Rhesus macaque class I duplication structures, organization, and evolution within the alpha block of the major histocompatibility complex. Mol Biol Evol 21:2079-2091
17. Lund O, Nielsen M, Kesmir C, Peterson AG, Lundegaard C, Worning P, Sylvester-Hvid C, Lamberth K, Roder G, Justesen S, Buus S, Brunak S (2004) Definition of supertypes for HLA molecules using clustering of specificity matrices. Immunogenetics 55:797-810
18. Lynch M, Katju V (2004) The altered evolutionary trajectories of gene duplicates. Trends Genet 20:544-549
19. Nei M, Kumar S (2000) Molecular evolution and phylogenetics. Oxford University Press, New York
20. Niimura Y, Nei M (2003) Evolution of olfactory receptor genes in the human genome. Proc Natl Acad Sci USA 100:12235-12240
21. Niimura Y, Nei M (2005) Comparative evolutionary analysis of olfactory receptor gene clusters between humans and mice. Gene 346:13-21
22. Nowak MA, Tarczy-Hornoch K, Austyn M (1992) The optimal number of major histocompatibility complex molecules in an individual. Proc Natl Acad Sci USA 89:10896-10899
23. Nozawa M, Kawahara Y, Nei M (2007) Genomic drift and copy number variation of sensory receptor genes in humans. Proc Natl Acad Sci U S A 104:20421-20426
24. Oda M, Satta Y, Takenaka O, Takahata N (2002) Loss of urate oxidase activity in hominoids and its evolutionary implications. Mol Biol Evol 19:640-653
25. Ohno S (1970) Evolution by gene duplication. Springer, New York
26. Rammensee H-G, Falk K, Rötzschke O (1993) Peptide naturally presented by MHC class I molecules. Annu Rev Immunol 11:213-244
27. Saitou N, Nei M (1986) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 6:514-525
28. Satta Y (1993) How the ratio of nonsynonymous to synonymous pseudogene substitutions can be less than one. Immunogenetics 38:450-454
29. Satta Y, Mayer WE, Kelin J (1996) HLA-DRB intron 1 sequences: Implications for the evolution of HLA-DRB genes and haplotypes. Hum Immunol 5:1-12
30. Sawai H, Kawamoto Y, Takahata N, Satta Y (2004) Evolutionary relationships of major histocompatibility complex class I genes in simian primates. Genetics 166:1897-1907
31. Sette A, Sidney J (1999) Nine major HLA class I supertypes account for the vast preponderance of HLA-A and -B polymorphism. Immunogenetics 50:201-212
32. Sidney J, Grey HM, Southwood S, Celis E, Wentwort PA, del Guercio MF, Kubo RT, Chesnut RW, Sette A (1996) Definition of an HLA-A3-like super motif demonstrates the overlapping peptide binding repertoires of common HLA molecules. Hum Immunol 45:79-93
33. Southwood S, Sidney J, Kubo A, del Guercio MF, Appela E, Hofman S, Kubo RT, Chesnut RW, Grey HM, Sette A (1998) Several common HLA-DR types share largely overlapping peptide binding repertoires. J Immunol 160:3363-3373
34. Takahata N (1995) MHC diversity and selection. Immunol Rev 143:225-247
35. The Chimpanzee Sequencing and Analysis Consortium (2005) Initial sequence of the chimpanzee genome and comparison with the human genome. Nature 437:69-87
36. Wegner KM, Kalbe M, Kurtz J, Reusch TBH, Milinski M (2003) Parasite selection for immunogenetic optimality. Science 301:1343
37. Wegner KM, Kalbe M, Kurtz J, Schaschl H, Reusch TBH (2004) Parasites and individual major histocompatibility diversity-an optimal choice? Microbes Infect 6:1110-1116
38. Zhang J, Rosenberg N, Nei M (1998) Positive Darwinian selection after gene duplication in primate ribonuclease genes. Proc Natl Acad Sci U S A 95:3708-3713