Extremely high MHC class i variation in a population of a long-distance migrant, the Scarlet Rosefinch (Carpodacus erythrinus)

Immunogenetics

Volumn 61, Issue 6, 2009, Pages 451-461

  Promerova M ^a   Albrecht, T ^a,b   Bryja, J ^a  

^a INSTITUTE OF VERTEBRATE BIOLOGY   (Czech Republic)

^b CHARLES UNIVERSITY   (Czech Republic)

Author keywords

Carpodacus erythrinus; MHC class I; Positive selection; Recombination; Scarlet Rosefinch

Indexed keywords

MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1;

ANTIBODY COMBINING SITE; ARTICLE; CAPILLARY ELECTROCHROMATOGRAPHY; CARPODACUS ERYTHRINUS; CZECH REPUBLIC; EXON; FINCH; GENE AMPLIFICATION; GENETIC RECOMBINATION; GENETIC SELECTION; GENETIC VARIABILITY; LIFE HISTORY TRAIT; LONG DISTANCE MIGRANT; MAJOR HISTOCOMPATIBILITY COMPLEX; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SINGLE STRAND CONFORMATION POLYMORPHISM;

AMINO ACID SEQUENCE; ANIMAL MIGRATION; ANIMALS; BASE SEQUENCE; EVOLUTION, MOLECULAR; GENETIC VARIATION; GENETICS, POPULATION; HISTOCOMPATIBILITY ANTIGENS CLASS I; LINKAGE DISEQUILIBRIUM; MOLECULAR SEQUENCE DATA; PASSERIFORMES; POLYMORPHISM, SINGLE-STRANDED CONFORMATIONAL; RECOMBINATION, GENETIC; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, AMINO ACID; SEQUENCE HOMOLOGY, NUCLEIC ACID;

AVES; CARPODACUS ERYTHRINUS; PASSERIFORMES; VERTEBRATA;

EID: 67349255313     PISSN: 00937711     EISSN: 14321211     Source Type: Journal    
DOI: 10.1007/s00251-009-0375-x     Document Type: Article

References (69)

1. Abbas AK, Lichtman AH, Pober JS (1994) Cellular and molecular immunology. W. B. Saunders Company, Philadelphia
2. A Aguilar JC Garza 2007 Patterns of historical balancing selection on the salmonid major histocompatibility complex class II beta gene J Mol Evol 65 34 43 10.1007/s00239-006-0222-8
3. T Albrecht 2004 Edge effect in wetland-arable land boundary determines nesting success of scarlet rosefinches Carpodacus erythrinus in the Czech Republic Auk 121 361 371 10.1642/0004-8038(2004)121[0361:EEIWLB]2.0.CO;2 (Pubitemid 38729929)
4. T Albrecht J Schnitzer J Kreisinger A Exnerová J Bryja P Munclinger 2007 Extrapair paternity and the opportunity for sexual selection in long-distant migratory passerines Behav Ecol 18 477 486 10.1093/beheco/arm001
5. M Alcaide SV Edwards JJ Negro 2007 Characterization, polymorphism, and evolution of MHC Class II B genes in birds of prey J Mol Evol 65 541 554 10.1007/s00239-007-9033-9
6. M Amills O Ramírez A Tomás G Obexer-Ruff O Vidal 2008 Positive selection on mammalian MHC-DQ genes revisited from a multispecies perspective Genes Immun 9 651 658 10.1038/gene.2008.62
7. M Anisimova R Nielsen Z Yang 2003 Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites Genetics 164 1229 1236 (Pubitemid 36935693)
8. PJ Bjorkman MA Saper B Samraoui WS Bennett JL Strominger DC Wiley 1987 Structure of human class I histocompatibility antigen, HLA-A2 Nature 329 506 512 10.1038/329506a0
9. C Bonneaud G Sorci V Morin H Westerdahl R Zoorob H Wittzell 2004 Diversity of MHC class I and IIB genes in house sparrows (Passer domesticus) Immunogenetics 55 855 865 10.1007/s00251-004-0648-3
10. C Bonneaud O Chastel P Federici H Westerdahl G Sorci 2006 Complex MHC-based mate choice in a wild passerine Proc R Soc 273 1111 1116 10.1098/rspb.2005.3325
11. C Bonneaud J Pérez-Tris P Federici O Chastel G Sorci 2006 Major histocompatibility alleles associated with local resistance to malaria in a passerine Evolution Int J Org Evolution 60 383 389 (Pubitemid 44804560)
12. J Bryja M Galan N Charbonnel J-F Cosson 2005 Analysis of major histocompatibility complex class II gene in water voles using capillary electrophoresis-single stranded conformation polymorphism Mol Ecol Notes 5 173 176 10.1111/j.1471-8286.2004.00855.x
13. R Burri H Niculita-Hirzel A Roulin L Fumagalli 2008 Isolation and characterization of major histocompatibility complex (MHC) class II B genes in teh Barn owl (Aves: Tyto alba) Immunogenetics 60 543 550 10.1007/s00251-008- 0308-0
14. Cramp S, Simmons KEL, Perrins CM (eds) (1977-1994) The birds of the Western Palearctic. Oxford University Press, Oxford
15. SV Edwards EK Wakeland WK Potts 1995 Contrasting histories of avian and mammalian MHC genes revealed by class II B genes of songbirds Proc Natl Acad Sci U S A 92 12200 12204 10.1073/pnas.92.26.12200
16. SV Edwards K Chesnut Y Satta EK Wakeland 1997 Ancestral polymorphism of Mhc Class II genes in mice: implications for balancing selection and the mammalian molecular clock Genetics 146 655 668 (Pubitemid 27251402)
17. S Fitzpatrick 1994 Colourful migratory birds: evidence for a mechanism other than parasite resistance for the maintenance of 'good genes' sexual selection Proc R Soc Lond B Biol Sci 257 155 166 10.1098/rspb.1994.0109
18. CR Freeman-Gallant EM Johnson F Saponara M Stanger 2002 Variation at the major histocompatibility complex in Savannah sparrows Mol Ecol 11 1125 1130 10.1046/j.1365-294X.2002.01508.x
19. D Garrigan SV Edwards 1999 Polymorphism across an exon-intron boundary in an avian Mhc class II B gene Mol Biol Evol 16 1599 1606 (Pubitemid 29510903)
20. J Goüy de Bellocq N Charbonnel S Morand 2008 Coevolutionary relationship between helminth diversity and Mhc class II polymorphism in rodents J Evol Biol 21 1144 1150 10.1111/j.1420-9101.2008.01538.x
21. TA Hall 1999 BioEdit: a user-friendly biological sequence alignment editor and analisis program for Windows 95/98/NT Nucleic Acids Symp Ser 41 95 98
22. B Hansson DS Richardson 2005 Genetic variation in two endangered Acrocephalus species compared to a widespread congener: estimates based on functional and random loci Anim Conserv 8 83 90 10.1017/S1367943004001878
23. CM Hess SV Edwards 2002 The evolution of major histocompatibility genes in birds Bioscience 52 423 431 10.1641/0006-3568(2002)052[0423:TEOTMH]2.0.CO;2 (Pubitemid 34458435)
24. CM Hess J Gasper H Hoekstra C Hill SV Edwards 2000 MHC class II pseudogene and genomic signature of a 32-kb cosmid in the House Finch (Carpodacus mexicanus) Genome Res 10 13 23 10.1101/gr.10.5.613
25. K Hosomichi T Shiina S Suzuki M Tanaka S Shimizu S Iwamoto H Hara Y Yoshida JK Kulski H Inoko K Hanzawa 2006 The major histocompatibility complex (Mhc) class IIB region has greater genomic structural flexibility and diversity in the quail than the chicken BMC Genomics 7 322 335 10.1186/1471-2164-7-322
26. AL Hughes M Yeager 1998 Natural selection at major histocompatibility complex loci of vertebrates Annu Rev Genet 32 415 435 10.1146/annurev.genet.32. 1.415
27. CR Hughes S Miles JM Walbroehl 2008 Support for the minimal essential MHC hypothesis: a parrot with a single, highly polymorphic MHC class II B gene Immunogenetics 60 219 231 10.1007/s00251-008-0287-1
28. P Indovina F Megiorni G Fontemaggi P Coni B Mora MC Mazzilli 2001 Absence of in vivo DNA-Protein interactions in the DQA2 and DQB2 promoter regions Hum Immunol 62 504 508 10.1016/S0198-8859(01)00236-1
29. SI Jarvi RM Goto GF Gee WE Briles MM Miller 1999 Identification, inheritance, and linkage of B-G-like and MHC class I genes in cranes Am Genet Assoc 90 152 159 (Pubitemid 29067920)
30. J Kaufman 1999 Co-evolving genes in MHC haplotypes: the 'rule' for nonmammalian vertebrates? Immunogenetics 50 228 236 10.1007/s002510050597 (Pubitemid 30099528)
31. J Kaufman J Salamonsen M Flajnik 1994 Evolutionary conservation of MHC class I and class II molecules-different yet the same Semin Immunol 6 411 424 10.1006/smim.1994.1050 (Pubitemid 124001537)
32. J Kaufman H Völk H Wallny 1995 A.,minimal essential MHC" and an.,unrecognized MHC": two extremes in selection for polymorphism Immunol Rev 143 63 88 10.1111/j.1600-065X.1995.tb00670.x
33. J Kaufman J Jacob I Shaw B Walker S Milne S Beck J Salomonsen 1999 Gene organisation determines evolution of function in the chicken MHC Immunol Rev 167 101 117 10.1111/j.1600-065X.1999.tb01385.x (Pubitemid 29178974)
34. Klein J (1986) Natural history of the major histocompatibility complex. Wiley, New York
35. J Klein A Sato S Nagl C O'h Uigin 1998 Molecular trans-species polymorphism Annu Rev Ecol Syst 29 1 21 10.1146/annurev.ecolsys.29.1.1
36. M Koch S Camp T Collen D Avila J Salomonsen HJ Wallny A van Hateren L Hunt JP Jacob F Johnston DA Marston I Shaw PR Dunbar V Cerundolo EY Jones J Kaufman 2007 Structures of an MHC class I molecule from B21 chickens illustrate promiscuous peptide binding Immunity 27 885 899 10.1016/j.immuni.2007.11.007
37. SL Kosakovsky Pond SDW Frost 2005 Not so different after all: a comparison of methods for detecting amino acid sites under selection Mol Biol Evol 22 1208 1222 10.1093/molbev/msi105
38. SL Kosakovsky Pond SDW Frost SV Muse 2005 HyPhy: hypothesis testing using phylogenies Bioinformatics 21 676 679 10.1093/bioinformatics/bti079
39. SL Kosakovsky Pond D Posada MB Gravenor CH Woelk SDW Frost 2006 Automated phylogenetic detection of recombination using a genetic algorithm Mol Biol Evol 23 1891 1901 10.1093/molbev/msl051
40. C Loiseau R Zoorob S Garnier J Birard P Federici R Julliard G Sorci 2008 Antagonistic effects of a MHC class I allele on malaria-infected house sparrows Ecol Lett 11 258 265 10.1111/j.1461-0248.2007.01141.x
41. CM Mesa KJ Thulien DA Moon SM Veniamin KE Magor 2004 The dominant MHC class I gene is adjacent to the polymorphic TAP2 gene in the duck, Anas platyrhynchos Immunogenetics 56 192 203 10.1007/s00251-004-0672-3 (Pubitemid 38916323)
42. HC Miller DM Lambert 2004 Gene duplication and gene conversion in class II MHC genes of New Zealand robins (Petroicidae) Immunogenetics 56 178 191 (Pubitemid 38916322)
43. MM Miller RM Goto A Bernot R Zoorob C Auffray N Bumstead WE Briles 1994 Two Mhc class I and two Mhc class II genes map to the chicken Rfp-Y system outside the B complex Proc Natl Acad Sci U S A 91 4397 4401 10.1073/pnas.91.10. 4397
44. HC Miller K Belov CH Daugherty 2006 MHC Class I genes in the Tuatara (Sphenodon spp.): evolution of the MHC in an ancient reptilian order Mol Biol Evol 23 949 956 10.1093/molbev/msj099
45. J Pérez-Tris S Bensch 2005 Dispersal increases local transmission of avian malarial parasites Ecol Lett 8 838 845 10.1111/j.1461-0248.2005.00788.x
46. R Poláková M Vyskočilová JF Martin HL Mays Jr GE Hill J Bryja J Schnitzer T Albrecht 2007 A multiplex set of microsatellite markers for the Scarlet Rosefinch (Carpodacus erythrinus) Mol Ecol Notes 7 1375 1378 10.1111/j.1471-8286.2007.01892.x
47. TBH Reusch H Schaschl KM Wegner 2004 Recent duplication and inter-locus gene conversion in major histocompatibility class II-genes in a teleost, the three-spined stickleback Immunogenetics 56 427 437 10.1007/s00251-004-0704-z
48. DS Richardson H Westerdahl 2003 MHC diversity in two Acrocephalus sepcies: the outbred Great reed warbler and the inbred Seychelles warbler Mol Ecol 12 3523 3529 10.1046/j.1365-294X.2003.02005.x
49. DS Richardson J Komdeur T Burke T von Schantz 2004 MHC-based patterns of social and extra-pair mate choice in the Seychelles warbler Proc R Soc Lond B Biol Sci 272 759 767 10.1098/rspb.2004.3028
50. I Shaw TJ Powell DA Marston K Baker A van Hateren P Riegert MV Wiles S Milne S Beck J Kaufman 2007 Different evolutionary histories of the two classical class I genes BF1 and BF2 illustrate drift and selection within the stable MHC haplotypes of chickens J Immunol 178 5744 5752 (Pubitemid 46674371)
51. T Shiina S Shimizu K Hosomichi S Kohara S Watanabe K Hanzawa S Beck JK Kulski H Inoko 2004 Comparative genomic analysis of two avian (Quail and Chicken) MHC regions J Immunol 172 6751 6763 (Pubitemid 38669112)
52. T Shiina K Hosomichi K Hanzawa 2006 Comparative genomics of the poultry major histocompatibility complex Anim Sci J 77 151 162 10.1111/j.1740-0929.2006. 00333.x
53. BP Shum R Rajalingam KE Magor K Azumi WH Carr B Dixon RJ Stet MA Adkison RP Hedrick P Parham 1999 A divergent non-classical class I gene conserved in salmonids Immunogenetics 49 479 490 10.1007/s002510050524
54. C Spottiswoode AP Møller 2004 Extra-pair paternity, migration and breeding synchrony in birds Behav Ecol 15 41 57 (Pubitemid 38334958)
55. T Strand H Westerdahl J Höglund RV Alatalo H Siitari 2007 The Mhc class II of the Black grouse (Tetrao tetrix) consists of low numbers of B and Y genes with variable diversity and expression Immunogenetics 59 725 734 10.1007/s00251-007-0234-6
56. C van Oosterhout DA Joyce SM Cummings 2006 Evolution of MHC class IIB in the genome of wild and ornamental guppies, Poecilia reticulata Heredity 97 111 118 10.1038/sj.hdy.6800843
57. H Wallny D Avila L Hunt T Powell P Riegert J Salomonsen K Skjodt O Vainio F Vilbois M Wiles J Kaufman 2006 Peptide motifs of the single dominantly expressed class I molecule explain the striking MHC-determined response to Rous sarcoma virus in chicken Proc Natl Acad Sci U S A 103 1434 1439 10.1073/pnas.0507386103
58. H Westerdahl H Wittzell T von Schantz 1999 Polymorphism and transcription of MHC class I genes in a passerine bird, the great reed warbler Immunogenetics 49 158 170 10.1007/s002510050477
59. H Westerdahl H Witzel T von Schantz 2000 MHC diversity in two passerine birds: no evidence for a minimal essential MHC Immunogenetics 52 92 100 10.1007/s002510000256
60. H Westerdahl H Wittzell T von Schantz S Bensch 2004 MHC class I typing in a songbird with numerous loci and high polymorphism using motif-specific PCR and DGGE Heredity 92 534 542 10.1038/sj.hdy.6800450
61. H Westerdahl J Waldenström B Hansson D Hasselquist T von Schantz S Bensch 2005 Associations between malaria and MHC genes in a migratory songbird Proc R Soc Lond B Biol Sci 272 1511 1518 10.1098/rspb.2005.3113
62. DJ Wilson G McVean 2006 Estimating diversifying selection and functional constraint in the presence of recombination Genetics 172 1411 1425 10.1534/genetics.105.044917
63. H Wittzell A Bernot C Auffray R Zoorob 1999 Concerted evolution of two Mhc class II B loci in pheasants and domestic chicken Mol Biol Evol 16 479 490 (Pubitemid 29190955)
64. H Wittzell T Madsen H Westerdahl R Shine T von Schantz 1999 MHC variation in birds and reptiles Genetica 104 301 309 10.1023/A:1026421607089 (Pubitemid 29284849)
65. K Worley M Gillingham P Jensen LJ Kennedy T Pizzari J Kaufman DS Richardson 2008 Single locus typing of MHC class I and class II B loci in a population of red jungle fowl Immunogenetics 60 233 247 10.1007/s00251-008-0288- 0
66. C Xia T Hu T Yang L Wang G Xu C Lin 2005 cDNA cloning, genomic structure and expression analysis of the goose (Anser cygnoides) MHC class I gene Vet Immunol Immunopathol 107 291 302 10.1016/j.vetimm.2005.05.005
67. Z Yang 1997 PAML: a program package for phylogenetic analysis by maximum likelihood Comput Appl Biosci 13 555 556 (Pubitemid 27480216)
68. Z Yang WJ Swanson VD Vacquier 2000 Maximum-likelihood analysis of molecular adaptation in abalone sperm lysin reveals variable selective pressures among lineages and sites Mol Biol Evol 17 1446 1455
69. Z Yang WSW Wong R Nielsen 2005 Bayes empirical Bayes inference of amino acid sites under positive selection Mol Biol Evol 22 1107 1118 10.1093/molbev/msi097