MHC class I genes in the owl monkey: Mosaic organisation, convergence and loci diversity

Immunogenetics

Volumn 56, Issue 11, 2005, Pages 818-832

  Cardenas, Paula P ^a   Suarez, Carlos F ^a   Martinez, Pilar ^a   Patarroyo, Manuel E ^a,b   Patarroyo, Manuel A ^a,b  

^a FUNDACIÓN INSTITUTO DE INMUNOLOGÍA DE COLOMBIA FIDIC   (Colombia)

^b UNIVERSIDAD NACIONAL DE COLOMBIA   (Colombia)

Author keywords

Aotus; Evolution; Gene conversion; MHC class I molecules

Indexed keywords

MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1; COMPLEMENTARY DNA; HLA ANTIGEN CLASS 1;

ALLELE; AOTUS; ARTICLE; EXON; GENE EXPRESSION; GENE ISOLATION; GENE LOCUS; GENE SEQUENCE; GENETIC CONSERVATION; GENETIC VARIABILITY; MAJOR HISTOCOMPATIBILITY COMPLEX; MOLECULAR CLONING; MOLECULAR EVOLUTION; MONKEY; MOSAICISM; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PRIMATE; PRIORITY JOURNAL; PSEUDOGENE; UNINDEXED SEQUENCE; AMINO ACID SEQUENCE; ANIMAL; GENETICS; IMMUNOLOGY; MOLECULAR GENETICS; PHYLOGENY; STOP CODON;

AMINO ACID SEQUENCE; ANIMALS; AOTIDAE; BASE SEQUENCE; CLONING, MOLECULAR; CODON, NONSENSE; DNA, COMPLEMENTARY; EVOLUTION, MOLECULAR; HISTOCOMPATIBILITY ANTIGENS CLASS I; MOLECULAR SEQUENCE DATA; PHYLOGENY; VARIATION (GENETICS);

EID: 17144423956     PISSN: 00937711     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00251-004-0751-5     Document Type: Article

References (59)

1. Adams EJ, Parham P (2001) Species-specific evolution of MHC class I genes in the higher primates. Immunol Rev 183:41-64
2. Cadavid LF, Hughes AL, Watkins DI (1996) MHC class I-processed pseudogenes in New World primates provide evidence for rapid turnover of MHC class I genes. J Immunol 157:2403-2409
3. Cadavid LF, Mejia BE, Watkins DI (1999) MHC class I genes in a New World primate, the cotton-top tamarin (Saguinus oedipus), have evolved by an active process of loci turnover. Immunogenetics 49:196-205
4. Cadavid LF, Shufflebotham C, Ruiz FJ, Yeager M, Hughes AL, Watkins DI (1997) Evolutionary instability of the major histocompatibility complex class I loci in New World primates. Proc Natl Acad Sci USA 94:14536-14541
5. Cadavid LF, Watkins DI (1997) The duplicative nature of the MHC class I genes: an evolutionary perspective. Eur J Immunogenet 24:313-322
6. Crew MD, Filipowsky ME, Neshat MS, Smith GS, Walford RL (1991) Transmembrane domain length variation in the evolution of major histocompatibility complex class I genes. Proc Natl Acad Sci USA 88:4666-4670
7. Crooks GE, Hon G, Chandonia JM, Brenner SE (2004) WebLogo: a sequence logo generator. Genome Res 14:1188-1190
8. Daubenberger CA, Salomon M, Vecino W, Hubner B, Troll H, Rodriques R, Patarroyo ME, Pluschke G (2001) Functional and structural similarity of V gamma 9V delta 2 T cells in humans and Aotus monkeys, a primate infection model for Plasmodium falciparum malaria. J Immunol 167:6421-6430
9. Dayhoff MO, Schwartz RM, Orcutt BC (1978) A model of evolutionary change in proteins. In: Dayhoff M (ed) Atlas of protein sequence and structure. National Medical Research Foundation, pp 345-352
10. Diaz D, Naegeli M, Rodriguez R, Nino-Vasquez JJ, Moreno A, Patarroyo ME, Pluschke G, Daubenberger CA (2000a) Sequence and diversity of MHC DQA and DQB genes of the owl monkey Aotus nancymaae. Immunogenetics 51:528-537
11. Diaz OL, Daubenberger CA, Rodriguez R, Naegeli M, Moreno A, Patarroyo ME, Pluschke G (2000b) Immunoglobulin kappa light-chain V, J, and C gene sequences of the owl monkey Aotus nancymaae. Immunogenetics 51:212-218
12. Ennis PD, Zemmour J, Salter RD, Parham P (1990) 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 USA 87:2833-2837
13. Favre N, Daubenberger C, Marfurt J, Moreno A, Patarroyo M, Pluschke G (1998) Sequence and diversity of T-cell receptor alpha V, J, and C genes of the owl monkey Aotus nancymaae. Immunogenetics 48:253-259
14. Fujii T, Ishitani A, Geraghty DE (1994) A soluble form of the HLA-G antigen is encoded by a messenger ribonucleic acid containing intron 4. J Immunol 153:5516-5524
15. Gao GF, Tormo J, Gerth UC, Wyer JR, McMichael AJ, Stuart DI, Bell JI, Jones EY, Jakobsen BK (1997) Crystal structure of the complex between human CD8alpha(alpha) and HLA-A2. Nature 387:630-634
16. Go Y, Satta Y, Kawamoto Y, Rakotoarisoa G, Randrianjafy A, Koyama N, Hirai H (2003) Frequent segmental sequence exchanges and rapid gene duplication characterize the MHC class I genes in lemurs. Immunogenetics 55:450-461
17. Gu X, Nei M (1999) Locus specificity of polymorphic alleles and evolution by a birth-and-death process in mammalian MHC genes. Mol Biol Evol 16:147-156
18. Gur H, Geppert TD, Lipsky PE (1997) Structural analysis of class I MHC molecules: the cytoplasmic domain is not required for cytoskeletal association, aggregation and internalization. Mol Immunol 34:125-132
19. Gur H, Geppert TD, Wacholtz MC, Lipsky PE (1999) The cytoplasmic and the transmembrane domains are not sufficient for class I MHC signal transduction. Cell Immunol 191:105-116
20. Hildebrand WH, Madrigal JA, Little AM, Parham P (1992) HLA-Bw22: a family of molecules with identity to HLA-B7 in the alpha 1-helix. J Immunol 148:1155-1162
21. Hillis D (1993) An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Syst Biol 42:182-192
22. Hogstrand K, Bohme J (1999a) Gene conversion can create new MHC alleles. Immunol Rev 167:305-317
23. Hogstrand K, Bohme J (1999b) Gene conversion of major histocompatibility complex genes is associated with CpG-rich regions. Immunogenetics 49:446-455
24. Hughes AL, Nei M (1988) Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection. Nature 335:167-170
25. Hughes AL, Nei M (1990) Evolutionary relationships of class II major-histocompatibility-complex genes in mammals. Mol Biol Evol 7:491-514
26. Hughes AL, Ota T, Nei M (1990) Positive Darwinian selection promotes charge profile diversity in the antigen-binding cleft of class I major-histocompatibility-complex molecules. Mol Biol Evol 7:515-524
27. Hunt JS, Pace JL, Morales PJ, Ober C (2003) Immunogenicity of the soluble isoforms of HLA-G. Mol Hum Reprod 9:729-735
28. Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111-120
29. Klein J, Bontrop RE, Dawkins RL, Erlich HA, Gyllensten UB, Heise ER, Jones PP, Parham P, Wakeland EK, Watkins DI (1990) Nomenclature for the major histocompatibility complexes of different species: a proposal. Immunogenetics 31:217-219
30. Knapp LA, Cadavid LF, Watkins DI (1998) The MHC-E locus is the most well conserved of all known primate class I histocompatibility genes. J Immunol 160:189-196
31. Kumar S, Tamura K, Jakobsen IB, Nei M (2001) MEGA2: molecular evolutionary genetics analysis software. Bioinformatics 17:1244-1245
32. Kundig TM, Bachmann MF, Oehen S, Hoffmann UW, Simard JJ, Kalberer CP, Pircher H, Ohashi PS, Hengartner H, Zinkernagel RM (1996) On the role of antigen in maintaining cytotoxic T-cell memory. Proc Natl Acad Sci USA 93:9716-9723
33. Lafont BA, Buckler-White A, Plishka R, Buckler C, Martin MA (2003) Characterization of pig-tailed macaque classical MHC class I genes: implications for MHC evolution and antigen presentation in macaques. J Immunol 171:875-885
34. Lawlor DA, Warren E, Taylor P, Parham P (1991) Gorilla class I major histocompatibility complex alleles: comparison to human and chimpanzee class I. J Exp Med 174:1491-1509
35. Meyerhans A, Vartanian JP, Wain-Hobson S (1990) DNA recombination during PCR. Nucleic Acids Res 18:1687-1691
36. Nei M, Gojobori T (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3:418-4126
37. Nino-Vasquez JJ, Vogel D, Rodriguez R, Moreno A, Patarroyo ME, Pluschke G, Daubenberger CA (2000) Sequence and diversity of DRB genes of Aotus nancymaae, a primate model for human malaria parasites. Immunogenetics 51:219-230
38. O'Callaghan CA, Bell JI (1998) Structure and function of the human MHC class Ib molecules HLA-E, HLA-F and HLA-G. Immunol Rev 163:129-138
39. Parham P, Lomen CE, Lawlor DA, Ways JP, Holmes N, Coppin HL, Salter RD, Wan AM, Ennis PD (1988) Nature of polymorphism in HLA-A, -B, and -C molecules. Proc Natl Acad Sci USA 85:4005-4009
40. Patarroyo ME, Romero P, Torres ML, Clavijo P, Moreno A, Martinez A, Rodriguez R, Guzman F, Cabezas E (1987) Induction of protective immunity against experimental infection with malaria using synthetic peptides. Nature 328:629-632
41. Qiu X, Wu L, Huang H, McDonel PE, Palumbo AV, Tiedje JM, Zhou J (2001) Evaluation of PCR-generated chimeras, mutations, and heteroduplexes with 16S rRNA gene-based cloning. Appl Environ Microbiol 67:880-887
42. Rzhetsky A, Nei M (1993) Theoretical foundation of the minimum-evolution method of phylogenetic inference. Mol Biol Evol 10:1073-1095
43. Salter RD, Benjamin RJ, Wesley PK, Buxton SE, Garrett TP, Clayberger C, Krensky AM, Norment AM, Littman DR, Parham P (1990) A binding site for the T-cell co-receptor CD8 on the alpha 3 domain of HLA-A2. Nature 345:41-46
44. 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
45. Sawyer S (1989) Statistical tests for detecting gene conversion. Mol Biol Evol 6:526-538
46. Sawyer SA (1999) GENECONV: a computer package for the statistical detection of gene conversion. Distributed by the author (http://www.math.wustl. edu/∼sawyer). Department of Mathematics, Washington University, St. Louis
47. Schneider TD, Stephens RM (1990) Sequence logos: a new way to display consensus sequences. Nucleic Acids Res 18:6097-7100
48. Sebti Y, Le Friec G, Pangault C, Gros F, Drenou B, Guilloux V, Bernard M, Lamy T, Fauchet R, Amiot L (2003) Soluble HLA-G molecules are increased in lymphoproliferative disorders. Hum Immunol 64:1093-1101
49. Steiner NK, Baldassarre L, Koester R, Ng J, Hartzman RJ, Hurley CK (2002) Novel HLA-B alleles formed by an inter-locus recombination with HLA-C, HLA-B*0713 and B*6702. Tissue Antigens 59:148-150
50. Suarez CF, Cardenas PP, Llanos-Ballestas EJ, Martinez P, Obregon M, Patarroyo ME, Patarroyo MA (2003) Alpha1 and alpha2 domains of Aotus MHC class I and Catarrhini MHC class Ia share similar characteristics. Tissue Antigens 61:362-373
51. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680
52. Torres OM, Enciso S, Ruiz F, Silva E, Yunis I (1998) Chromosome diversity of the genus Aotus from Colombia. Am J Primatol 44:255-275
53. Vecino W, Daubenberger C, Rodriguez R, Moreno A, Patarroyo M, Pluschke G (1999) Sequence and diversity of T-cell receptor beta-chain V and J genes of the owl monkey Aotus nancymaae. Immunogenetics 49:792-799
54. Watkins DI, Garber TL, Chen ZW, Toukatly G, Hughes AL, Letvin NL (1991) Unusually limited nucleotide sequence variation of the expressed major histocompatibility complex class I genes of a New World primate species (Saguinus oedipus). Immunogenetics 33:79-89
55. Watkins DI, Hodi FS, Letvin NL (1988) A primate species with limited major histocompatibility complex class I polymorphism. Proc Natl Acad Sci USA 85:7714-7718
56. Watkins DI, Letvin NL, Hughes AL, Tedder TF (1990) Molecular cloning of cDNA that encode MHC class I molecules from a New World primate (Saguinus oedipus). Natural selection acts at positions that may affect peptide presentation to T cells. J Immunol 144:1136-1143
57. Wheeler CJ, Maloney D, Fogel S, Goodenow RS (1990) Microconversion between murine H-2 genes integrated into yeast. Nature 347:192-194
58. Yun TJ, Melvold RW, Pease LR (1997) A complex major histocompatibility complex D locus variant generated by an unusual recombination mechanism in mice. Proc Natl Acad Sci USA 94:1384-1389
59. Zemmour J, Gumperz JE, Hildebrand WH, Ward FE, Marsh SG, Williams RC, Parham P (1992) The molecular basis for reactivity of anti-Cw1 and anti-Cw3 alloantisera with HLA-B46 haplotypes. Tissue Antigens 39:249-257