Episodic evolution and turnover of HLA-B in the indigenous human populations of the Americas

Tissue Antigens

Volumn 50, Issue 3, 1997, Pages 219-232

  Parham, Peter ^a   Arnett, K L ^a   Adams, E J ^a   Little, A M ^a   Tees, K ^a   Barber, L D ^a   Marsh, S G E ^b   Ohta, T ^c   Markow, T ^d   Petzl Erler, M L ^e  

^a STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b IMPERIAL CANCER RESEARCH FUND   (United Kingdom)

^c GRADUATE UNIVERSITY FOR ADVANCED STUDIES   (Japan)

^d ARIZONA STATE UNIVERSITY   (United States)

^e FEDERAL UNIVERSITY OF PARANÁ   (Brazil)

Author keywords

Allele turnover; Amerindian episodic; Evolution; HLA B

Indexed keywords

HLA A ANTIGEN; HLA B ANTIGEN; HLA C ANTIGEN;

ALLELE; AMERICAN INDIAN; ARTICLE; EVOLUTION; HLA SYSTEM; HUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL;

EID: 9844251764     PISSN: 00012815     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1399-0039.1997.tb02866.x     Document Type: Article

References (87)

1. Imanishi T, Akaza T, Kimura A, Tokunaga K, Gojobori T. W15.1: allele and haplotype frequencies for HLA and complement loci in various ethnic groups. In: Tsuji K, Aizawa M, Sasazuki T, ed. HLA 1991. Proceedings of the Eleventh International Histocompatibility Workshop and Conference. Vol. 1. Oxford: Oxford University Press, 1992: 1065-1220.
2. Parham P, Ohta T. Population biology of antigen presentation by MHC class I molecules. Science 1996: 272: 67-74.
3. Fagan BM. The great journey: the peopling of ancient America. London: Thames and Hudson, 1987.
4. Hoffecker JF, Powers WR, Goebel T. The colonization of Beringia and the peopling of the New World. Science 1993: 259: 46-53.
5. Greenberg JH, Turner CG, Zegura SL. The settlement of the Americas: a comparison of the linguistic, dental and genetic evidence. Curr Anthropol 1986: 27: 477-497.
6. Layrisse Z, Layrisse M, Malavé I, Terasaki P, Ward RH, Neel JV. Histocompatibility antigens in a genetically isolated American Indian tribe. Am J Hum Genet 1973: 25: 493-509.
7. Layrisse Z, Layrisse M, Heinen HD, Wilbert J. The histocompatibility system in the Warao Indians of Venezuela. Science 1976: 194: 1135-1138.
8. Black FL, Berman LL, Gabbay Y. HLA antigens in South American Indians. Tissue Antigens 1980: 16: 368-376.
9. Neel JV, Gershowitz H, Mohrenweiser HW et al. Genetic studies on the Ticuna, an enigmatic tribe of Central Amazonas. Ann Hum Genet (London) 1980: 44: 37-54.
10. Kostyu DD, Amos DB. Mysteries of the Amerindians. Tissue Antigens 1981: 16: 111-123.
11. Vullo CM, Celis EM, Serra HM, Riera CM. Study of HLA system in a Mataco population: A geographically isolated American Indian tribe. Tissue Antigens 1984: 23: 33-40.
12. Bernal JE, de Brigard D, Duran C, Narvaez G, Papiha SS. HLA-(A, B, C and D) antigens in the Awa-kwaiker Indians of Colombia. Tissue Antigens 1991: 37: 141-144.
13. Williams RC, McAuley JE. HLA class I variation controlled for genetic admixture in the Gila River Indian Community of Arizona: a model for the Paleo-Indians. Hum. Immunol, 1992: 33: 39-46.
14. Williams RC, McAuley JE, HLA Class II variation in the Gila River Indian community of Arizona: alleles, haplo-types, and a high frequency epitope at the HLA-DR locus. Hum Immunol 1992: 33: 29-38.
15. Petzl-Erler ML, Luz R, Sotomaior VS. The HLA polymorphism of two distinctive South American Indian tribes: the Kaingang and the Guarani. Tissue Antigens 1993: 41: 227-237.
16. Markow T, Hedrick PW, Zuerlein K et al. HLA polymorphism in the Havasupai: Evidence for balancing selection. Am J Hum Genet 1993: 53: 943-952.
17. Williams RC, Steinberg AG, Gershowitz H et al. GM allo-types in Native Americans: Evidence for three distinct migrations across the Bering land bridge. Am J Phys Anthropol 1985: 6: 1-19.
18. Torroni A, Schurr TG, Yang C-C et al. Native American mitochondrial DNA analysis indicates that the Amerind and the Nadene populations were founded by two independent migrations. Genetics 1992: 130: 153-162.
19. Wallace DC, Torroni A. American Indian prehistory as written in the mitochondrial DNA: a review. Hum Biol 1992: 64: 403-416.
20. Horai S, Kondo R, Nakagawa-Hattori Y, Hayashi S, Sonoda S, Tajima K. Peopling of the Amerieas, founded by four major lineages of mitochondrial DNA. Mol Biol Evol 1993: 10: 23-47.
21. Neel JV, Biggar RJ, Sukernik RI. Virologic and genetic studies relate Amerind origins to the indigenous people of the Mongolia/Manchuria/southeastern Siberia region. Proc Natl Acad Sci U S A 1994: 91: 10737-10741.
22. Black FL. Why did they die? Science 1992: 258: 1739-1740.
23. Neel JV. Rare variants, private polymorphisms, and locus heterozygosity in Amerindian populations. Am J Hum Genet 1978: 30: 465-490.
24. Salzano FM, Callegari-Jacques SM. South American Indians: a case study in evolution. Oxford: Oxford University Press, 1988.
25. Belich MP, Madrigal JA, Hildebrand WH et al. Unusual HLA-B alleles in two tribes of Brazilian Indians. Nature 1992: 357: 326-329.
26. Watkins DI, McAdam SN, Liu X et al. New recombinant HLA-B alleles in a tribe of South American Amerindians indicate rapid evolution of MHC class I loci. Nature 1992: 357: 329-333.
27. Garber TL, Butler LM, Trachtenberg EA et al. HLA-B alleles of the Cayapa of Ecuador: new B39 and B15 alleles. Immunogenetics 1995: 42: 19-27.
28. Little A-M, Parham P. HLA class I gene and protein sequence polymorphisms. In: Dyer P, Middleton D, ed. Histocompatibility testing: a practical approach. The Practical Approach Series. Oxford: IRL Press, 1993: 159-190.
29. Ennis PD, Zemmour J, Salter RD, Parham P. Rapid cloning of HLA-A,B cDNA by using the polymerase chain reaction: frequency and nature of errors produced in amplification. Proc Natl Acad Sci U S A 1990: 87: 2833-2837.
30. Zemmour J, Little A-M, Schendel DJ, Parham P. The HLA-A,B "negative" mutant cell line C1R expresses a novel HLA-B35 allele, which also has a point mutation in the translation initiation codon. J Immunol 1992: 148: 1941-1948.
31. Domena JD, Little A-M, Madrigal JA et al. Structural heterogeneity in HLA-B70, a high-frequency antigen of black populations. Tissue Antigens 1993: 42: 509-517.
32. Adams EJ, Martinez-Naves E, Arnett KL, Little A-M, Tyan DB, Parham P. HLA-B16 antigens: sequence of the ST-16 antigen, further definition of two B38 subtypes and evidence for convergent evolution of B*3902. Tissue Antigens 1995: 45: 18-26.
33. Martin JF. The Havasupai. Plateau 1986: 56: 1-32.
34. Bunce M, Welsh KI. Rapid DNA typing for HLA-C using sequence-specific primers (PCR-SSP): identification of serological and non-serologically defined HLA-C alleles including several new alleles. Tissue Antigens 1994: 43: 7-17.
35. Hill AVS, Allsopp CEM, Kwiatkowski D et al. Common West African HLA antigens are associated with protection from severe malaria. Nature 1991: 352: 595-600.
36. Parham P, Adams EJ, Arnett KL. The origins of HLA-A,B,C polymorphism. Immunol Rev 1995: 143: 141-180.
37. Bjorkman PJ, Saper MA, Samraoui B, Bennett WS, Strominger JL, Wiley DC. Structure of the human class I histocompatibility antigen, HLA-A2. Nature 1987: 329: 506-512.
38. Bjorkman PJ, Saper MA, Samraoui B, Bennett WS, Strominger JL, Wiley DC. The foreign antigen binding site and T cell recognition regions of class I histocompatibility antigens. Nature 1987: 329: 512-518.
39. Hughes AL, Nei M. Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection. Nature 1988: 335: 167-170.
40. Ohta T. Gene conversion vs. point mutation in generating variability at the antigen recognition site of major histocompatibility complex loci. J Mol Evol 1995: 41: 115-119.
41. Parham P, Lawlor DA, Lomen CE, Ennis PD. Diversity and diversification of HLA-A,B,C alleles. J Immunol 1989: 142: 3937-3950.
42. Rammensee HG, Friede T, Stevanovic S. MHC ligands and peptide motifs: First listing. Immunogenetics 1995: 41: 178-228.
43. Barber LD, Gillece-Castro B, Percival L, Li X, Clayberger C, Parham P. Overlap in the repertoires of peptides bound in vivo by a group of related class I HLA-B allotypes. Curr Biol 1995: 5: 179-190.
44. Falk K, Rötzschke O, Takiguchi M et al. Peptide motifs of HLA-B58, B60, B61, and B62 molecules. Immunogenetics 1995: 41: 165-168.
45. Falk K, Rötschzke O, Takiguchi M et al. Peptide motifs of HLA-B38 and B39 molecules. Immunogenetics 1995: 41: 162-164.
46. Davenport MP, Hill AVS. Peptides associated with MHC class I and class II molecules. In: Browning M, McMichael A, ed. HLA and MHC: genes, molecules and function. Human molecular genetics. Oxford: Bios Scientific Publishers, 1996: 277-308.
47. Sidney J, Grey HM, Kubo RT, Sette A. Practical, biochemical and evolutionary implications of the discovery of HLA class I supermotifs. Immunol Today 1996: 17: 261-266.
48. 1-helix of the HLA-B heavy chain can have an overriding influence on peptide binding specificity. J Immunol 1997: 158: 1660-1669.
49. Saper MA, Bjorkman PJ, Wiley DC. Refined structure of the human histocompatibility antigen HLA-A2 at 2.6 Å resolution. J Mol Biol 1991: 219, 277-319.
50. Wan AM, Ennis P, Parham P, Holmes N. The primary structure of HLA-A32 suggests a region involved in formation of the Bw4/Bw6 epitopes. J Immunol 1986: 137: 3671-3674.
51. Cella M, Longo A, Ferrara GB, Strominger JL, Colonna M. NK3-specific natural killer cells are selectively inhibited by Bw4-positive HLA alleles with isoleucine 80. J Exp Med 1994: 180: 1235-1242.
52. Gumperz JE, Valiante NM, Parham P, Lanier LL, Tyan D. Heterogeneous phenotypes of expression of the NKB1 natural killer cell class I receptor among individuals of different HLA types appear genetically regulated, but not linked to MHC haplotype. J Exp Med 1996: 183: 1817-1827.
53. Gumperz JE, Barber LD, Valiante NM et al. Conserved and variable residues within the Bw4 motif of HLA-B make separable contributions to recognition by the NKB1 killer cell inhibitory receptor. J Immunol 1997: 158: 5237-5241.
54. Colonna M, Borsellino G, Falco M, Ferrara GB, Strominger JL. HLA-C is the inhibitory ligand that determines dominant resistance to lysis by NK1- and NK2-specific natural killer cells. Proc Natl Acad Sci U S A 1993: 90: 12000-12004.
55. 3 domain of HLA-A2. Nature 1990: 345: 41-46.
56. Salter RD, Norment AM, Chen BP et al. Polymorphism in the alpha-3 domain of HLA-A molecules affects binding to CD8. Nature 1989: 338: 345-347.
57. Martinez-Naves E, Barber LD, Madrigal JA et al. Interactions of HLA-B*4801 with peptide and CD8. Tissue Antigens 1997: 50: 258-264.
58. Vilches C, Sanz L, de Pablo R, Moreno ME, Puente S, Kreisler M. Molecular characterisation of the new alleles HLA-B*8101 and B*4407. Tissue Antigens 1996: 47: 139-142.
59. Garber TL, McAdam SN, Butler LM et al. HLA-B alleles of the Navajo: no evidence for rapid evolution in the Nadene. Tissue Antigens 1996: 47: 143-146.
60. Fernández-Viña M, Lazaro AM, Marco CY et al. Dissimilar evolution of B-locus compared to A-locus and class II loci of the HLA region in South American Indian tribes. Tissue Antigens 1997: 50: 233-250.
61. 2 helix. J Immunol 1992: 149: 3563-3568.
62. Domena JD, Little A-M, Arnett KL, Adams EJ, Marsh SGE. Parham P. A small test of a sequence-based typing method: definition of the B*1520 allele. Tissue Antigens 1994: 44: 217-224.
63. Gomez-Casado E, Montoya F, Martinez-Laso J et al. A new HLA-B35 allele (B*3510) found in isolated Jaidukama South American Indians. Immunogenetics 1995: 42: 231-232.
64. Adams EJ, Little A-M, Arnett KL, Leushner J, Parham P. Identification of a novel HLA-B40 allele (B*4008) in a patient with leukemia. Tissue Antigens 1995: 46: 204-205.
65. Martinez-Laso J, Layrisse Z, Gomez-Casado E et al. A new HLA-B15 allele (B*1522) found in Bari-Motilones Amerindians in Venezuela: comparison of its intron 2 sequence with those of B*1501 and B*3504. Immunogenetics 1996: 43: 108-109.
66. Ramos M, Postigo JM, Vilches C, Layrisse Z, López de Castro JA. Primary structure of a novel HLA-B39 allele (B*3909) from the Warao Indians of Venezuela. Further evidence for local HLA-B diversification in South America. Tissue Antigens 1995: 46: 401-404.
67. Hurley CK, Steiner N, Hoyer RJ et al. Novel HLA-B alleles, B*8201, B*3515, and B*5106, add to the complexity of serologic identification of HLA types. Tissue Antigens 1996: 47: 179-187.
68. Vargas-Alarcón G, Alvarez M, Martinez-Laso J et al. A new HLA-B35 (B*3516) allele found in a Mexican of Nahua (Aztec) descent. Immunogenetics 1996: 43: 244-245.
69. Vargas-Alarcón G, Martinez-Laso J, Gomez-Casado E et al. A novel HLA-B35 (B*3517) allele found in a Mexican of Otomi descent. Tissue Antigens 1996: 47: 547-550.
70. Vargas-Alarcón G, Martinez-Laso J, Granados J et al. Description of a novel HLA-B35 (B*3514) allele found in a Mexican family of Nahua Aztec descent. Hum Immunol 1996: 45: 148-151.
71. Adams EJ, Little A-M, Arnett KL, McAuley JE, Williams RC, Parham P. Three new HLA-B alleles found in Mexican Americans. Tissue Antigens 1995: 46: 414-416.
72. Cooper S, Adams EJ, Wells RS, Kowalski H, Walker CM, Parham P. An identical major histocompatibility complex class I allele shared by two species of chimpanzee. Immunogenetics (in press).
73. Date Y, Kimura A, Kato H, Sasazuki T. DNA typing of the HLA-A gene: population study and identification of four new alleles in Japanese. Tissue Antigens 1996: 47: 93-101.
74. Lee KW, Kim YS. Serologic ambiguity and allelic frequency of the HLA-B40 family in the Korean population. Tissue Antigens 1997: 49: 383-388.
75. Ogawa A, Lin L, Tokunaga K et al. Distribution of HLA-861 alleles in Northeast-Asian populations and in Spanish Gypsies. Hum Immunol 1996: 47: 59.
76. Leon-S. FE, Ariza-Deleon A, Ariza-Caicedo A. HLA, trans-Pacific contacts, and retrovirus. Hum Immunol 1995: 42: 348-350.
77. Sykes B, Leiboff A, Low-Beer J, Tetzner S, Richards M. The origins of the Polynesians: an interpretation from mitochondrial lineage analysis. Am J Hum Genet 1995: 57: 1463-1475.
78. Leon-S. FE, Ariza-Deleon A, Leon-S. ME, Ariza-C. A. Peopling the Americas. Science 1996: 273: 723-725.
79. Hill AVS, Serjeantson SW. The colonization of the Pacific: a genetic trail. In: Research monographs: a human population biology. Vol. 7. Oxford: Clarendon Press, 1989: 298.
80. Neves WA, Pucciarelli HM. Extra-continental biological relationships of early South American human remains: a multivariate analysis. Ciencia Cultura 1989: 41: 566-575.
81. Lahr MM. Patterns of modern human diversification: implications for Amerindian origins. Yearbook Phys Anthropol 1995: 38: 163-198.
82. Parham P. Response to F.E. Leon-S., A. Ariza-Deleon, M.E. Leon-S., and A. Ariza-C. "Peopling the Americas.". Science 1996: 273: 724-725.
83. Kidd JR, Black FL, Weiss KM, Balazs I, Kidd KK. Studies of three Amerindian populations using nuclear DNA polymorphisms. Hum Bull 1991: 63: 775-794.
84. Cavalli-Sforza LL, Menozzi P, Piazza A. Demic expansions and human evolution. Science 1993: 259: 639-646.
85. Hurley CK. Acquisition and use of DNA-based HLA typing data in bone marrow registries. Tissue Antigens 1997: 49: 323-328.
86. Petzl-Erler ML, McDevitt HO. Molecular analysis of the HLA-DRB genes in two tribes of Brazilian Indians. Hum Immunol 1994: 41: 180-184.
87. Ina Y. New methods for estimating the numbers of synonymous and nonsynonymous substitutions. J Mol Evol 1995: 40: 190-226.