Genomic analysis of common chimpanzee major histocompatibility complex class I genes

Immunogenetics

Volumn 53, Issue 3, 2001, Pages 200-208

  Adams, E J ^a,b   Parham, P ^a  

^a STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Common chimpanzee; Divergence; Evolution; MHC class I; Variation

Indexed keywords

AMINO ACID; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1;

ARTICLE; CHIMPANZEE; CORRELATION FUNCTION; DNA FLANKING REGION; DNA POLYMORPHISM; GENE LINKAGE DISEQUILIBRIUM; GENETIC ANALYSIS; GENETIC CODE; GENETIC CONSERVATION; GENETIC LINKAGE; GENETIC ORGANIZATION; GENETIC RECOMBINATION; GENETIC VARIABILITY; HUMAN; INTRON; MOLECULAR EVOLUTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL;

ANIMALS; BASE SEQUENCE; CELL LINE, TRANSFORMED; CHROMOSOME MAPPING; DNA, COMPLEMENTARY; GENES, MHC CLASS I; MOLECULAR SEQUENCE DATA; PAN TROGLODYTES; SPECIES SPECIFICITY; VARIATION (GENETICS);

PAN (APE); PAN TROGLODYTES;

EID: 0035004528     PISSN: 00937711     EISSN: None     Source Type: Journal    
DOI: 10.1007/s002510100318     Document Type: Article

References (37)

1. Adams EJ, Cooper S, Thomson G, Parham P (2000) Common chimpanzees have greater diversity than humans at two of the three highly polymorphic MHC class I genes. Immunogenetics 51:410-424
2. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403-410
3. Arnaiz-Villena A, Martinez-Laso J, Alvarez M, Castro MJ, Varela P, Gomez-Casado E, Suarez B, Recio MJ, Vargas-Alarcon G, Morales P (1997) Primate Mhc-E and -G alleles. Immunogenetics 46:251-266
4. Arnaiz-Villena A, Morales P, Gomez-Casado E, Castro MJ, Varela P, Rojo-Amigo R, Martinez-Laso J (1999) Evolution of MHC-G in primates: a different kind of molecule for each group of species. J Reprod Immunol 43:111-125
5. Braud VM, Allan DS, O'Callaghan CA, Soderstrom K, D'Andrea A, Ogg GS, Lazetic S, Young NT, Bell JI, Phillips JH, Lanier LL, McMichael AJ (1998) HLA-E binds to natural killer cell receptors CD94/NKG2A, B and C. Nature 391:795-799
6. Carrington M (1999) Recombination within the human MHC. Immunol Rev 167:245-256
7. Castro MJ, Morales P, Fernandez-Soria V, Suarez B, Recio MJ, Alvarez M, Martin-Villa M, Arnaiz-Villena A (1996) Allelic diversity at the primate Mhc-G locus: exon 3 bears stop codons in all Cercopithecinae sequences. Immunogenetics 43:327-336
8. Clark AG, Weiss KM, Nickerson DA, Taylor SL, Buchanan A, Stengard J, Salomaa V, Vartiainen E, Perola M, Boerwinkle E, Sing CF (1998) Haplotype structure and population genetic inferences from nucleotide-sequence variation in human lipoprotein lipase. Am J Hum Genet 63:595-612
9. Geraghty DE, Koller BH, Hansen JA, Orr HT (1992) The HLA class I gene family includes at least six genes and twelve pseudogenes and gene fragments. J Immunol 149:1934-1946
10. Gilad Y, Segre D, Skorecki K, Nachman MW, Lancet D, Sharon D (2000) Dichotomy of single-nucleotide polymorphism haplotypes in olfactory receptor genes and pseudogenes. Nat Genet 26:221-224
11. Grimsley C, Ober C (1997) Population genetic studies of HLA-E: evidence for selection. Hum Immunol 52:33-40
12. Grimsley C, Mather KA, Ober C (1998) HLA-H: a pseudogene with increased variation due to balancing selection at neighboring loci. Mol Biol Evol 15:1581-1518
13. Groot NG de, Otting N, Arguello R, Watkins DI, Doxiadis GG, Madrigal JA, Bontrop RE (2000) Major histocompatibility complex class I diversity in a West African chimpanzee population: implications for HIV research. Immunogenetics 51:398-409
14. Hammer MF (1995) A recent common ancestry for human Y chromosomes. Nature 378:376-378
15. Hampe A, Coriton O, Andrieux N, Carn G, Lepourcelet M, Mottier S, Dreano S, Gatius MT, Hitte C, Soriano N, Galibert F (1999) A 356-kb sequence of the subtelomeric part of the MHC class I region. DNA Seq 10:263-299
16. Horai S, Hayasaka K, Kondo R, Tsugane K, Takahata N (1995) Recent African origin of modern humans revealed by complete sequences of hominoid mitochondrial DNAs. Proc Natl Acad Sci USA 92:532-536
17. Hughes AL, Nei M (1988) Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection. Nature 335:167-170
18. Krensky AM (1997) The HLA system, antigen processing and presentation. Kidney Int Suppl 58: S2-S7
19. Lawlor DA, Ward FE, Ennis PD, Jackson AP, Parham P (1988) HLA-A and B polymorphisms predate the divergence of humans and chimpanzees. Nature 335:268-271
20. Lawlor DA, Warren E, Ward FE, Parham P (1990) Comparison of class I MHC alleles in humans and apes. Immunol Rev 113:147-85
21. Li WH, Sadler LA (1991) Low nucleotide diversity in man. Genetics 129:513-523
22. McAdam SN, Boyson JE, Liu X, Garber TL, Hughes AL, Bontrop RE, Watkins DI (1995) Chimpanzee MHC class I A locus alleles are related to only one of the six families of human A locus alleles. J Immunol 154:6421-6429
23. Messer G, Zemmour J, Orr HT, Parham P, Weiss EH, Girdlestone J (1992) HLA-J, a second inactivated class I HLA gene related to HLA-G and HLA-A: implications for the evolution of the HLA-A-related genes. J Immunol 148:4043-4053
24. Miyamoto MM, Slightom JL, Goodman M (1987) Phylogenetic relations of humans and African apes from DNA sequences in the psi.eta-globin region. Science 238:369-373
25. Moretta A, Bottino C, Vitale M, Pende D, Biassoni R, Mingari MC, Moretta L (1996) Receptors for HLA class-I molecules in human natural killer cells. Annu Rev Immunol 14:619-48
26. Nachman MW, Bauer VL, Crowell SL, Aquadro CF (1998) DNA variability and recombination rates at X-linked loci in humans. Genetics 150:1133-1141
27. Nei M, Gojobori T (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3:418-426
28. Nickerson DA, Taylor SL, Weiss KM, Clark AG, Hutchinson RG, Stengard J, Salomaa V, Vartiainen E, Boerwinkle E, Sing CF (1998) DNA sequence diversity in a 9.7-kb region of the human lipoprotein lipase gene. Nat Genet 19:233-240
29. Rajagopalan S, Long EO (1999) A human histocompatibility leukocyte antigen (HLA)-G-specific receptor expressed on all natural killer cells. J Exp Med 189:1093-1100
30. Shiina T, Tamiya G, Oka A, Takishima N, Yamagata T, Kikkawa E, Iwata K, Tomizawa M, Okuaki N, Kuwano Y, Watanabe K, Fukuzumi Y, Itakura S, Sugawara C, Ono A, Yamazaki M, Tashiro H, Ando A, Ikemura T, Soeda E, et al (1999) Molecular dynamics of MHC genesis unraveled by sequence analysis of the 1,796,938-bp HLA class I region. Proc Natl Acad Sci USA 96:13282-13287
31. Swofford DL (2000) PAUP*: phylogenetic analysis using parsimony (*and other methods). Sinauer, Sunderland, Mass
32. Takahata N, Satta Y (1997) Evolution of the primate lineage leading to modern humans: phylogenetic and demographic inferences from DNA sequences. Proc Natl Acad Sci USA94: 4811-4815
33. Urvater JA, Watkins DI (2000) Isolation of the HLA-H orthologue in gorillas and chimpanzees. Immunogenetics 51:69-74
34. Venditti CP, Lawlor DA, Sharma P, Chorney MJ (1996) Structure and content of the major histocompatibility complex (MHC) class I regions of the great anthropoid apes. Hum Immunol 49:71-84
35. Wainwright SD, Biro PA, Holmes CH (2000) HLA-F is a predominantly empty, intracellular, TAP-associated MHC class Ib protein with a restricted expression pattern. J Immunol 164:319-328
36. Williams EJ, Hurst LD (2000) The proteins of linked genes evolve at similar rates. Nature 407: 900-903
37. Zemmour J, Koller BH, Ennis PD, Geraghty DE, Lawlor DA, Orr HT, Parham P (1990) HLA-AR, an inactivated antigen-presenting locus related to HLA-A: implications for the evolution of the MHC. J Immunol 144:3619-3629