Mhc class II diversity and balancing selection in greater prairie-chickens

Genetica

Volumn 138, Issue 2, 2010, Pages 265-271

  Eimes, John A ^a   Bollmer, Jennifer L ^a   Dunn, Peter O ^a   Whittingham, Linda A ^a   Wimpee, Charles ^a  

^a UNIVERSITY OF WISCONSIN MILWAUKEE   (United States)

Author keywords

Balancing selection; BLB and YLB Loci; Greater prairie chickens; Mhc

Indexed keywords

HLA D ANTIGEN; PEPTIDE;

ANIMAL; ARTICLE; EXON; GALLIFORMES; GENE; GENETIC SELECTION; GENETIC VARIABILITY; GENETICS; METABOLISM; MOLECULAR EVOLUTION; PHYLOGENY; PHYSIOLOGY; SEXUAL BEHAVIOR;

ANIMALS; EVOLUTION, MOLECULAR; EXONS; GALLIFORMES; GENES, MHC CLASS II; GENETIC VARIATION; HLA-D ANTIGENS; PEPTIDES; PHYLOGENY; SELECTION, GENETIC; SEXUAL BEHAVIOR, ANIMAL;

AVES; COTURNIX COTURNIX; GALLIFORMES; GALLUS GALLUS; MAMMALIA; PHASIANIDAE; TETRAO TETRIX; TYMPANUCHUS CUPIDO;

EID: 77949772802     PISSN: 00166707     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10709-009-9417-4     Document Type: Article

References (62)

1. Afanassieff M, Goto RM, Ha J, Sherman MA, Zhong LW, Auffray C, Coudert F, Zoorob R, Miller MM (2001) At least one class I gene in restriction fragment pattern-Y (Rfp-Y), the second MHC gene cluster in the chicken, is transcribed, polymorphic, and shows divergent specialization in antigen binding region. J Immunol 166: 3324-3333.
2. Apanius V, Penn D, Slev PR, Ruff LR, Potts WK (1997) The nature of selection on the major histocompatibility complex. Crit Rev Immunol 17: 179-224.
3. Bellinger MR, Johnson JA, Toepfer J, Dunn P (2003) Loss of genetic variation in greater prairie chickens following a population bottleneck in Wisconsin, USA. Conser Biol 17: 717-724.
4. Bernatchez L, Landry C (2003) MHC studies in nonmodel vertebrates: what have we learned about natural selection in 15 years? J Evol Biol 16: 363-377.
5. Bonneaud C, Sorci G, Morin V, Westerdahl H, Zoorob R, Wittzell H (2004) Diversity of Mhc class I and IIB genes in house sparrows (Passer domesticus). Immunogenetics 55: 855-865.
6. Boonyanuwat K, Thummabutra S, Sookmanee N, Vatchavalkhu V, Siripholvat V (2006) Influences of major histocompatibility complex class I haplotypes on avian influenza virus disease traits in Thai indigenous chickens. Anim Sci J 77: 285-289.
7. Briles WE, Goto RM, Auffray C, Miller MM (1993) A polymorphic system related to but genetically independent of the chicken major histocompatibility complex. Immunogenetics 37: 408-414.
8. Brown JH, Jardetzky TS, Gorga JC, Stern LJ, Urban RG, Strominger JL, Wiley DC (1993) Three-dimensional structure of the human class-II histocompatibility antigen HLA-DR1. Nature 364: 33-39.
9. Burri R, Niculita-Hirzel H, Roulin A, Fumagalli L (2008) Isolation and characterization of major histocompatibility complex (MHC) class IIB genes in the barn owl (Aves: Tyto alba). Immunogenetics 60: 543-550.
10. Carrington M, O'Brien SJ (2003) The influence of HLA genotype on AIDS. Ann Rev Med 54: 535-551.
11. Chaves LD, Krueth SB, Reed KM (2007) Characterization of the turkey MHC chromosome through genetic and physical mapping. Cytogenet Genome Res 117: 213-220.
12. Dietert R, Dietert M (1991) The chicken major histocompatibility complex: structure and impact on immune function, disease resistance and productivity. In: Monographs in Animal Immunology, vol 1. Bar-Lab, Blacksburg.
13. Edwards SV, Wakeland EK, Potts WK (1995) Contrasting histories of avian and mammalian Mhc genes revealed by class II B sequences from songbirds. Proc Natl Acad Sci USA 92: 12200-12204.
14. Edwards SV, Hess CM, Gasper J, Garrigan D (1999) Toward an evolutionary genomics of the avian Mhc. Immunol Rev 167: 119-132.
15. Garrigan D, Hedrick PW (2003) Perspective: Detecting adaptive molecular polymorphism: Lessons from the MHC. Evolution 57: 1707-1722.
16. Hall TA (1999) Bioedit is a user friendly sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser. 41: 95-98.
17. Hess CM, Edwards SV (2002) The evolution of the major histocompatibility complex in birds. Bioscience 52: 423-431.
18. Hughes AL, Nei M (1988) Pattern of nucleotide substitution at major histocompatibility complex class-I loci reveals overdominant selection. Nature 335: 167-170.
19. Hughes AL, Nei M (1989) Nucleotide substitution at major histocompatibility complex class-II loci-evidence for overdominant selection. Proc Natl Acad Sci USA 86: 958-962.
20. Hughes AL, Yeager M (1998) Natural selection at major histocompatibility complex loci of vertebrates. Ann Rev Gen 32: 415-435.
21. Hughes CR, Miles S, Walbroehl JM (2008) Support for the minimal essential MHC hypothesis: a parrot with a single, highly polymorphic MHC class IIB gene. Immunogenetics 60: 219-231.
22. Hunt HD, Goto RM, Foster DN, Bacon LD, Miller MM (2006) At least one Y MHC I molecule in the chicken is alloimmunogenic and dynamically expressed on spleen cells during development. Immunogenetics 58: 297-307.
23. Janeway CA, Travers P, Walport M, Shlomchick M (2005) Immunobiology: the immune system in health and disease. Garland Press, New York.
24. Johnson JA, Bellinger MR, Toepfer JE, Dunn P (2004) Temporal changes in allele frequencies and low effective population size in greater prairie-chickens. Mol Ecol 13: 2617-2630.
25. Kaufman J (2008) The avian MHC. In: KB DavisonF, Schat K (eds) Avian Immunology. Academic Press, London, pp 159-181.
26. Kaufman J, Völk H, Wallny H-J (1995) A "minimal essential Mhc" and an "unrecognized Mhc": two extremes in selection for polymorphism. Immunol Rev 143: 63-88.
27. Kaufman J, Milne S, Gobel TWF, Walker BA, Jacob JP, Auffray C, Zoorob R, Beck S (1999) The chicken B locus is a minimal essential major histocompatibility complex. Nature 401: 923-925.
28. Kim DK, Lillehoj HS, Hong YH, Park DW, Lamont SJ, Han JY, Lillehoj EP (2008) Immune-related gene expression in two B-complex disparate genetically inbred Fayoumi chicken lines following Eimeria maxima infection. Poul Sci 87: 433-443.
29. Kimura M (1983) The neutral theory of molecular evolution. Cambridge University Press, Cambridge.
30. Klein J (1986) Natural history of the major histocompatibility complex. Wiley Press, New York.
31. Klein J, Sato A, Nagl S, O'HUigin C (1998) Molecular trans-species polymorphism. Ann Rev Ecol Syst 29: 1-21.
32. Kriegs JO, Matzke A, Churakov G, Kuritzin A, Mayr G, Brosius J, Schmitz J (2007) Waves of genomic hitchhikers shed light on the evolution of gamebirds (Aves: Galliformes). BMC Evol Biol 7: 11.
33. Kroemer G, Guillemot F, Auffray C (1990) Genetic organization of the chicken Mhc. Immunol Res 9: 8-19.
34. Kumar S, Tamura K, Nei M (2004) Integrated software for molecular evolutionary genetic analysis and sequence alignment. Brief Bioinformatics 5: 150-163.
35. Longeri M, Zanotti M, Damiani G (2002) Recombinant DRB sequences produced by mismatch repair of heteroduplexes during cloning in Escherichia coli. Euro J Immunogenet 29: 517-523.
36. Miller HC, Lambert DM (2004) Genetic drift outweighs balancing selection in shaping post-bottleneck major histocompatibility complex variation in New Zealand robins (Petroicidae). Mol Ecol 13: 3709-3721.
37. Miller MM, Goto RM, Taylor RL, Zoorob R, Auffray C, Briles RW, Briles WE, Bloom SE (1996) Assignment of Rfp-Y to the chicken major histocompatibility complex NOR microchromosome and evidence for high-frequency recombination associated with the nucleolar organizer region. Proc Natl Acad Sci USA 93: 3958-3962.
38. Nadeau NJ, Burke T, Mundy NI (2007) Evolution of an avian pigmentation gene correlates with a measure of sexual selection. Proc R Soc B Biol Sci 274: 1807-1813.
39. Nei M, Gojobori T (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3: 418-426.
40. Nei M, Gu X, Sitnikova T (1997) Evolution by the birth-and-death process in multigene families of the vertebrate immune system. Proc Natl Acad Sci USA 94: 7799-7806.
41. Owen JP, Delany ME, Mullens BA (2008) MHC haplotype involvement in avian resistance to an ectoparasite. Immunogenetics 60: 621-631.
42. Pharr GT, Gwynn AV, Bacon LD (1996) Histocompatibility antigen(s) linked to Rfp-Y (Mhc-like) genes in the chicken. Immunogenetics 45: 52-58.
43. Piertney SB, Oliver MK (2006) The evolutionary ecology of the major histocompatibility complex. Heredity 96: 7-21.
44. Ploegh HL, Neefjes JJ, Stollorz V, Gehrmann M, Peters P, Geuze H (1990) The role of MHC molecules during activation of immune cells. Biol Chem 371: 187.
45. Rozas J, Sanchez-DelBarrio JC, Messeguer X, Rozas R (2003) DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19: 2496-2497.
46. Schou TW, Permin A, Juul-Madsen HR, Sorensen P, Labouriau R, Nguyen TLH, Fink M, Pham SL (2007) Gastrointestinal helminths in indigenous and exotic chickens in Vietnam: association of the intensity of infection with the major histocompatibility complex. Parasitology 134: 561-573.
47. Shiina T, Shimizu S, Hosomichi K, Kohara S, Watanabe S, Hanzawa K, Beck S, Kulski JK, Inoko H (2004) Comparative genomic analysis of two avian (quail and chicken) MHC regions. J Immunol 172: 6751-6763.
48. Shiina T, Hosomichi K, Hanzawa K (2006) Comparative genomics of the poultry major histocompatibility complex. Anim Sci J 77: 151-162.
49. Sommer S (2005) The importance of immune gene variability (MHC) in evolutionary ecology and conservation. Front Zool 2: 16.
50. Strand T, Westerdahl H, Hoeglund J, Alatalo RV, Siitari H (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.
51. Tajima F (1989) Statistical-method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595.
52. Tsuda TT, Tsuda M, Naruse T, Kawata H, Ando A, Shiina T, Fukuda M, Kurita M, LeMaho I, Kulski JK, Inoko H (2001) Phylogenetic analysis of penguin (Spheniscidae) species based on sequence variation in MHC class II genes. Immunogenetics 53: 712-716.
53. Wakenell PS, Miller MM, Goto RM, Gauderman WJ, Briles WE (1996) Association between the Rfp-Y haplotype and the incidence of Marek's disease in chickens. Immunogenetics 44: 242-245.
54. Wallny HJ, Avila D, Hunt LG, Powell TJ, Riegert P, Salomonsen J, Skjodt K, Vainio O, Vilbois F, Wiles MV, Kaufman J (2006) Peptide motifs of the single dominantly expressed class I molecule explain the striking MHC-determined response to Rous sarcoma virus in chickens. Proc Natl Acad Sci USA 103: 1434-1439.
55. Westerdahl H (2007) Passerine MHC: genetic variation and disease resistance in the wild. J Ornithol 148: S469-S477.
56. Westerdahl H, Wittzell H, von Schantz T (2000) Mhc diversity in two passerine birds: no evidence for a minimal essential Mhc. Immunogenetics 52: 92-100.
57. Wittzell H, Bernot A, Auffray C, Zoorob R (1999) Concerted evolution of two MHC class II B loci in pheasants and domestic chickens. Mol Biol Evol 16: 479-490.
58. Worley K, Gillingham M, Jensen P, Kennedy LJ, Pizzari T, Kaufman J, Richardson DS (2008) Single locus typing of MHC class I and class IIB loci in a population of red jungle fowl. Immunogenetics 60: 233-247.
59. Zelano B, Edwards SV (2002) An MHC component to kin recognition and mate choice in birds: Predictions, progress, and prospects. Am Nat 160: S225-S237.
60. Zoorob R, Behar G, Kroemer G, Auffray C (1990) Organization of a functional chicken class-II B-gene. Immunogenetics 31: 179-187.
61. Zoorob R, Bernot A, Renoir DM, Choukri F, Auffray C (1993) Chicken major histocompatibility complex class II B genes: analysis of interallelic and inter-locus sequence variance. Eur J Immunol 23: 1139-1145.
62. Zorn AM, Krieg PA (1991) PCR analysis of alternative splicing pathways: identification of artifacts generated by heteroduplex formation. Biotechniques 11: 180-184.