Evolution of Mhc-DRB introns: Implications for the origin of primates

Journal of Molecular Evolution

Volumn 48, Issue 6, 1999, Pages 663-674

  Kupfermann, Heike ^a   Satta, Yoko ^b   Takahata, Naoyuki ^b   Tichy, Herbert ^a   Klein, Jan ^a  

^a MAX PLANCK INST FÜR BIOLOGIE   (Germany)

^b GRADUATE UNIVERSITY FOR ADVANCED STUDIES   (Japan)

Author keywords

Chiroptera; DRB genes; Intron evolution; Major histocompatibility complex (Mhc); Mammalian evolution; Primate origin; Scandentia

Indexed keywords

ARTICLE; BAT; EVOLUTION; GENE SEQUENCE; INSECTIVORE; INTRON; LAGOMORPH; MAJOR HISTOCOMPATIBILITY COMPLEX; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; POINT MUTATION; PRIMATE; SCANDENTIA; SEQUENCE ANALYSIS; SPECIES;

ANIMALS; BASE SEQUENCE; EVOLUTION, MOLECULAR; HISTOCOMPATIBILITY ANTIGENS CLASS II; HLA-DR ANTIGENS; HUMANS; INTRONS; MOLECULAR SEQUENCE DATA; PHYLOGENY; PRIMATES;

EID: 0032993225     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/PL00006510     Document Type: Article

References (60)

1. Adkins RM, Honeycutt RL (1993) A molecular examination of archontan and chiropteran monophyly. In: MacPhee RDE (ed) Primates and their relatives in phylogenetic perspective. Plenum, New York, pp 227-249
2. Allard MW, McNiff BE, Miyamoto MM (1996) Support for interordinal eutherian relationships with an emphasis on primates and their archontan relatives. Mol Phylogenet Evol 5:78-88
3. Ammerman LK, Hillis DM (1992) A molecular test of bat relationships: Monophyly or diphyly? Syst Biol 41:222-231
4. Andersson G, Larhammer D, Widmark E, Servenius B, Peterson PA, Rask L (1987) Class II genes of the human major histocompatibility complex. Organization and evolutionary relationships of the DRβ genes. J Biol Chem 262:8748-8758
5. Bailey WJ, Slightom JL, Goodman M (1992) Rejection of the "flying primate" hypothesis by phylogenetic evidence from the ∈-globin gene. Science 256:86-89
6. Bergström TF, Josefsson A, Erlich HA, Gyllensten U (1998) Recent origin of HLA-DRBI alleles and implications for human evolution. Nat Genet 18:237-242
7. Butler PM (1956) The skull of Ictops and the classification of the Insectivora. Proc Zool Soc Lond 126:453-481
8. Carson S, Trowsdale J (1986) Molecular organization of the class II genes of the human and mouse major histocompatibility complexes. Oxford Surv Euk Genes 3:63-94
9. Cereb N, Hughes AL, Yang SY (1997) Locus-specific conservation of the HLA class 1 introns by intra-locus homogenization. Immunogenetics 47:30-36
10. Figueroa F, O'hUigin C, Tichy H, Klein J (1994) The origin of primate Mhc-DRB genes and allelic lineages as deduced from the study of prosimians. J Immunol 152:4455-4465
11. Figueroa F, Ono H, Tichy H, O'hUigin C, Klein J (1995) Evidence for insertion of a new intron into an Mhc gene of perch-like fish. Proc R Soc Lond B 259:325-330
12. Goodman M (1975) Protein sequence and immunological specificity: Their role in phylogenetic studies of primates. In: Luckett WP, Szalay FS (eds) Phylogeny of the primates. Plenum Press, New York, pp 219-248
13. Goodman M, Czelusniak J, Loop BF, Tagle DA, Slightom JL (1987) Globins: A study in molecular phylogeny. Cold Spring Harbor Symp Quant Biol 52:875-900
14. Goodman M, Porter CA, Czelusniak J, et al. (1998) Toward a phylogenetic classification of primates based on DNA evidence complemented by fossil evidence. Mol Phylogenet Evol 9:585-598
15. Grahovac B, Schönbach C, Brändle U, et al. (1993) Conservative evolution of the Mhc-DP region in anthropoid primates. Hum Immunol 37:75-84
16. Graur D (1993) Molecular phylogeny and higher classification of eutherian mammals. Trends Ecol Evol 8:141-147
17. Graur D, Duret L, Gouy M (1996) Phylogenetic position of the order Lagomorpha (rabbits, hares and allies). Nature 379:333-335
18. Gregory WK (1910) The orders of mammals. Bull Am Mus Nat Hist 27:1-524
19. Honeycutt RL, Adkins RM (1993) Higher level systematics of Eutherian mammals: An assessment of molecular characters and phylogenetic hypotheses. Annu Rev Ecol Syst 24:279-305
20. Hughes AL, Yeager M (1997) Comparative evolutionary rates of introns and exons in murine rodents. J Mol Evol 45:125-130
21. Jakobsen IB, Easteal S (1996) A program for calculating and displaying compatibility matrices as an aid in determining reticulate evolution of molecular sequences. CABIOS 12:291-295
22. Janke A, Feldmaier-Fuchs G, Thomas WK, von Haeseler A, Pääbo S (1994) The marsupial mitochondrial genome and the evolution of placental mammals. Genetics 137:243-256
23. Kapitonov V, Jurka V (1996) The age of Alu subfamilies. J Mol Evol 42:59-65
24. Kasahara M, Flajnik MF, Ishibashi T, Natori T (1995) Evolution of the major histocompatibility complex: A current overview. Transplant Immunol 3:1-20
25. Kasahara M, Klein D, Vincek V, Sarapata DE, Klein J (1992) Comparative anatomy of the primate major histocompatibility complex DR subregion: Evidence for combinations of DRB genes conserved across species. Genomics 14:340-349
26. 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
27. Klein J (1986) Natural history of the major histocompatibility complex. John Wiley, New York
28. Klein J, Ono H, Klein D, O'hUigin C (1993) The accordion model of Mhc evolution. In: Gergely J, Petranyi G (eds) Progress in immunology. Springer-Verlag, Heidelberg, pp 137-143
29. Klein J, Klein D, Figueroa F, Sato A, O'hUigin C (1997) Major histocompalibility complex genes in the study of fish phylogeny. In: Kocher TD, Stepien CA (eds) Molecular systematics of fishes. Academic Press, New York, pp 271-283
30. Kupfermann H, Mayer WE, Tichy H, Klein J (1997) Evolution of MHC-DRB genes in primates and related taxa as inferred from non-coding sequences. In: Charron D (ed) Genetic diversity of HLA. Functional and medical implication. Proceedings of the Twelfth International Histocompatibility Workshop and Conference. EDK, Paris, pp 267-269
31. Li W-H (1997) Molecular evolution. Sinauer Associates, Sunderland, MA
32. Martin RD (1990) Primate origins and evolution: A phylogenetic reconstruction. Chapman and Hall, London
33. McKenna MC (1975) Toward a phylogenetic classification of the Mammalia. In: Luckett WP, Szalay FS (eds) Phylogeny of the primates: A multidisciplinary approach. Plenum, New York, pp 21-46
34. Mindell DP, Dick CW, Baker RJ (1991) Phylogenetic relationships among megabats, microbats, and primates. Proc Natl Acad Sci USA 88: 10233-10326
35. Napier JR, Napier PH (1985) The natural history of the primates. MIT Press, Cambridge, MA
36. Nei M, Gojobori T (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3:418-426
37. Nei M, Hughes A (1992) Balanced polymorphism and evolution by the birth-and-death process in the MHC loci. In: Tsuji K, Aizawa M, Sasazuki T (eds) HLA 1991. Proceedings of the Eleventh International Histocompatibility Workshop and Conference. Vol 2. Oxford University Press, Oxford, pp 27-38
38. Novacek MJ (1992a) Mammalian phylogeny: Shaking the tree. Nature 356:121-125
39. Novacek MJ (1992b) Fossils, topologies, missing data, and the higher level phylogeny of cutherian mammals. Syst Biol 41:58-73
40. Novacek MJ (1994) Morphological and molecular inroads to phylogeny. In: Grande L, Rieppel O (eds) Interpreting the hierarchy of nature: From systematic patterns to evolutionary process theories. Academic Press, San Diego, CA, pp 85-131
41. Pettigrew JD (1986) Flying primates? Megabats have advanced pathway from eye to midbrain. Science 231:1304-1306
42. Porter CA, Goodman M, Stanhope MJ (1996) Evidence on mammalian phylogeny from sequences of exon 28 of the von Willebrand factor gene. Mol Phylogenet Evol 5:89-101
43. Saitou N, Nei M (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425
44. Satta Y, Takahata N, Schönbach C, Gutknecht J, Klein J (1991) Calibrating evolutionary rates at major histocompatibility complex loci. In: Klein J, Klein D (eds) Molecular evolution of the major histocompatibility complex. Springer-Verlag, Heidelberg, pp 51-62
45. Satta Y, Mayer WE, Klein J (1996a) Evolutionary relationships of HLA-DRD genes inferred from intron sequences. J Mol Evol 42: 648-657
46. Satta Y, Mayer WE, Klein J (1996b) HLA-DRB intron 1 sequences: Implications for the evolution of HLA-DRB genes and haplotypes. Hum Immunol 51:1-12
47. Simmons NB (1995) Bat relationships and the origin of flight. Symp Zool Soc Lond 67:27-43
48. Simpson GG (1945) The principles of classification and a classification of mammals. Bull Am Mus Nat Hist 85:1-350
49. Slierendregt BL, van Noort J, Bakas RM, Otting N, Jonker M, Bontrop RE (1992) Evolutionary stability of trans-species major histocompatibility complex class II DRB lineages in man and rhesus monkey. Hum Immunol 35:29-39
50. Stanhope MJ, Czelusniak J, Si JS, Nickerson J, Goodman M (1992) A molecular perspective on mammalian evolution from the gene encoding interphotoreceptor retinoid binding protein, with convincing evidence for bat monophyly. Mol Phylogenet Evol 1:148-160
51. Stanhope MJ, Smith MR, Wassell VG, Porter CA, Shivji MS, Goodman M (1996) Mammalian evolution and the interphotoreceptor retinoid binding protein (IRBP): Convincing evidence for several superordinal clades. J Mol Evol 43:83-92
52. Svensson A-C, Setterbald N, Pihlgren U, Rask L, Andersson G (1996) Evolutionary relationship between human major histocompatibility complex HLA-DR haplotypes. Immunogenetics 43:304-314
53. Szalay FS (1977) Phylogenetic relationships and a classification of the eutherian Mammalia. In: Hecht MK, Goody PC, Hecht BM (eds) Major patterns in vertebrate evolution. Plenum Press, New York, pp 315-374
54. Takahata N, Satta Y (1998a) Improbable truth in human MHC diversity? Nat Genet 18:204-206
55. Takahata N, Satta Y (1998b) Selection, convergence, and intragenic recombination in HLA diversity. Genetica 102/103:157-169
56. Thewissen JG, Babcock SK (1991) Distinctive cranial and cervical innervation of wing muscles: New evidence for bat monophyly. Science 251:934-936
57. Trowsdale J (1995) "Both man & bird & beast": Comparative organization of MHC genes. Immunogenetics 41:1-17
58. Trtková K, Kupfermann H, Grahovac B, et al. (1993) Mhc-DRB genes of platyrrhine primates. Immunogenetics 38:210-222
59. Wilson DE, Reeder D-AM (eds) (1993) Mammal species of the world. A taxonomic and geographic reference, 2nd ed. Smithsonian Institution Press, Washington, DC
60. Zhu Z, Vincek V, Figueroa F, Schönbach C, Klein J (1991) Mhc-DRB genes of the pigtail macaque (Macaca nemestrina): Implications for the evolution of human DRB genes. Mol Biol Evol 8:563-578