Characterisation of class II B MHC genes from a ratite bird, the little spotted kiwi (Apteryx owenii)

Immunogenetics

Volumn 63, Issue 4, 2011, Pages 223-233

  Miller, Hilary C ^a   Bowker Wright, Gemma ^a   Kharkrang, Marie ^a   Ramstad, Kristina ^a  

^a VICTORIA UNIVERSITY OF WELLINGTON   (New Zealand)

Author keywords

Apteryx; Avian MHC evolution; Disease resistance; Genetic bottleneck effect; MHC class II; Ratite

Indexed keywords

MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 2;

ALLELE; APTERYX OWENII; ARTICLE; BIRD; GENE EXPRESSION; GENE STRUCTURE; GENETIC DRIFT; GENETIC TRAIT; GENETIC VARIABILITY; GENOTYPE; MAJOR HISTOCOMPATIBILITY COMPLEX; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; RATITE;

ANIMALS; BASE SEQUENCE; EVOLUTION, MOLECULAR; GENES, MHC CLASS II; GENETIC VARIATION; GENOTYPE; MOLECULAR SEQUENCE DATA; PALAEOGNATHAE;

APTERYX; APTERYX OWENII; AVES; PALAEOGNATHAE; PASSERIFORMES; VERTEBRATA;

EID: 79953831303     PISSN: 00937711     EISSN: 14321211     Source Type: Journal    
DOI: 10.1007/s00251-010-0503-7     Document Type: Article

References (54)

1. Aguilar A, Roemer G, Debenham S, Binns M, Garcelon D, Wayne RK (2004) High MHC diversity maintained by balancing selection in an otherwise genetically monomorphic mammal. Proc Natl Acad Sci USA 101:3490-3494 (Pubitemid 38338222)
2. Alcaide M, Edwards SV, Negro JJ (2007) Characterization, polymorphism, and evolution of MHC class IIB genes in birds of prey. J Mol Evol 65:541-554 (Pubitemid 350115436)
3. Balakrishnan C, Ekblom R, Volker M, Westerdahl H, Godinez R, Kotkiewicz H, Burt D, Graves T, Griffin D, Warren W, Edwards S (2010) Gene duplication and fragmentation in the zebra finch major histocompatibility complex. BMC Biol 8:29
4. Bassam BJ, Caetanoanolles G, Gresshoff PM (1991) Fast and sensitive silver staining of DNA in polyacrylamide gels. Anal Biochem 196:80-83
5. 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
6. Binney BM (2007) The major histocompatibility complex (MHC) of the kiwi (Apteryx spp.). MSc Thesis. Institute of Molecular BioSciences, Massey University
7. Bjorkman PJ, Parham P (1990) Structure, function and diversity of class I major histocompatibility molecules. Ann Rev Biochem 59:253-288
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 (Pubitemid 23233452)
9. Burbidge ML, Colbourne RM, Robertson HA, Baker AJ (2003) Molecular and other biological evidence supports the recognition of at least three species of brown kiwi. Conserv Genet 4:167-177 (Pubitemid 36639632)
10. Burri R, Hirzel HN, Salamin N, Roulin A, Fumagalli L (2008a) Evolutionary patterns of MHC class IIB in owls and their implications for the understanding of avian MHC evolution. Mol Biol Evol 25:1180-1191
11. Burri R, Niculita-Hirzel H, Roulin A, Fumagalli L (2008b) Isolation and characterization of major histocompatibility complex (MHC) class IIB genes in the Barn owl (Aves: Tyto alba). Immunogenetics 60:543-550
12. Colbourne RM, Robertson HA (1997) Successful translocations of little spotted kiwi (Apteryx owenii) between offshore islands of New Zealand. Notornis 44:253-258
13. Delany ME, Robinson CM, Goto RM, Miller MM (2009) Architecture and organization of chicken microchromosome 16: order of the NOR, MHC-Y, and MHC-B subregions. J Heredity 100:507-514
14. Drummond AJ, Ashton B, Cheung M, Heled J, Kearse M, Moir R, Stones-Havas S, Thierer T, Wilson A (2009) Geneious v4.6. Available at: http://www.geneious. com/. Accessed 1 Dec 2009
15. Edwards SV, Grahn M, Potts WK (1995) Dynamics of Mhc evolution in birds and crocodilians: amplification of class II genes with degenerate primers. Mol Ecol 4:719-729 (Pubitemid 3012626)
16. Edwards SV, Gasper J, Garrigan D, Martindale D, Koop BF (2000) A 39-kb sequence around a blackbird Mhc class II gene: ghost of selection past and songbird genome architecture. Mol Biol Evol 17:1384-1395
17. Ekblom R, Grahn M, Hoglund J (2003) Patterns of polymorphism in the MHC class II of a non-passerine bird: the great snipe (Gallinago media). Immunogenetics 54:734-741 (Pubitemid 36188539)
18. Figueroa F, Gunther E, Klein J (1988) MHC polymorphism pre-dating speciation. Nature 335:265-267
19. Frohman MA, Dush MK, Martin GR (1988) Rapid production of full-length cDNAs from rare transcripts: amplification using a single gene-specific oligonucleotide primer. Proc Natl Acad Sci USA 85:8998-9002 (Pubitemid 19001832)
20. Guindon S, Gascuel O (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696-704 (Pubitemid 37365050)
21. Hackett SJ, Kimball RT, Reddy S, Bowie RCK, Braun EL, Braun MJ, Chojnowski JL, Cox WA, Han KL, Harshman J, Huddleston CJ, Marks BD, Miglia KJ, Moore WS, Sheldon FH, Steadman DW, Witt CC, Yuri T (2008) A phylogenomic study of birds reveals their evolutionary history. Science 320:1763-1768 (Pubitemid 351931288)
22. Hale KA (2008) Disease outbreak amongst South Island saddlebacks (Philesturnus carunculatus carunculatus) on Long Island. New Zealand Department of Conservation. DOC Research & Development Series 289, Wellington
23. Hess CM, Edwards SV (2002) The evolution of the major histocompatibility complex in birds. Bioscience 52:423-431 (Pubitemid 34458435)
24. Holzapfel SA, Robertson HA, McLennan JA, Sporle W, Hackwell K, Impey M (2008) Kiwi (Apteryx spp.) recovery plan 2008-2018. Department of Conservation, Wellington, New Zealand
25. Hosomichi K, Miller MM, Goto RM, Wang YJ, Suzuki S, Kulski JK, Nishibori M, Inoko H, Hanzawa K, Shiina T (2008) Contribution of mutation, recombination, and gene conversion to chicken Mhc-B haplotype diversity. J Immunol 181:3393-3399
26. 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
27. Huson DH, Bryant D (2006) Application of phylogenetic networks in evolutionary studies. Mol Biol Evol 23:254-267 (Pubitemid 43100040)
28. IUCN (2010) IUCN red list of threatened species. Version 2010.2. Available at: http://www.iucnredlist.org. Accessed 12 Jul 2010
29. Kappes D, Strominger JL (1988) Human class IImajor histocompatibility complex genes and proteins. Ann Rev Biochem 57:991-1028
30. Kaufman J, Salomonsen J, Flajnik M (1994) Evolutionary conservation of MHC class I and class II molecules - different yet the same. Semin Immunol 6:411-424 (Pubitemid 124001537)
31. 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
32. Kikkawa EF, Tsuda TT, Sumiyama D, Naruse TK, Fukuda M, Kurita M, Wilson RP, LeMaho Y, Miller GD, Tsuda M, Murata K, Kulski JK, Inoko H (2009) Trans-species polymorphism of the Mhc class II DRB-like gene in banded penguins (genus Spheniscus). Immunogenetics 61:341-352
33. Klein J, Bontrop RE, Dawkins RL, Ehrlich HA, Gyllensten U (1990) Nomenclature for the major histocompatibility complexes for different species: a proposal. Immunogenetics 31:217-219 (Pubitemid 20132749)
34. Martinsohn JT, Sousa AB, Guethlein LA, Howard JC (1999) The gene conversion hypothesis of MHC evolution: a review. Immunogenetics 50:168-200 (Pubitemid 30099524)
35. Miller HC, Lambert DM (2003) An evaluation of methods of blood preservation for RT-PCR from endangered species. Conserv Genet 4:651-654 (Pubitemid 37216062)
36. Miller HC, Lambert DM (2004a) Gene duplication and gene conversion in class II MHC genes of New Zealand robins (Petroicidae). Immunogenetics 56:178-191 (Pubitemid 38916322)
37. Miller HC, Lambert DM (2004b) Genetic drift outweighs balancing selection in shaping post-bottleneck major histocompatibility complex variation in New Zealand robins. Mol Ecol 13:3709-3721 (Pubitemid 39569048)
38. Miller MM, Golo R, Bernot A, Zoorob R, Auffray C, Bumstead N, Briles WE (1994) 2 Mhc class-I and 2 Mhc class-II genes map to the chicken Rfp-Y system outside the B-complex. Proc Natl Acad Sci USA 91:4397-4401
39. Miller HC, Andrews-Cookson M, Daugherty CH (2007) Two patterns of variation among class I loci in tuatara (Sphenodon punctatus). J Hered 98:666-677
40. Miller HC, Miller KA, Daugherty CH (2008) Reduced MHC variation in a threatened tuatara species. Anim Conserv 11:206-214 (Pubitemid 351784973)
41. 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 (Pubitemid 27343728)
42. Ohno S (1970) Evolution by gene duplication. Springer, New York
43. Phillips MJ, Gibb GC, Crimp EA, Penny D (2010) Tinamous and moa flock together: mitochondrial genome sequence analysis reveals independent losses of flight among ratites. Syst Biol 59:90-107
44. Piertney SB, Oliver MK (2006) The evolutionary ecology of the major histocompatibility complex. Heredity 96:7-21
45. Ramstad KM, Pfunder M, Robertson HA, Colbourne RM, Allendorf FW, Daugherty CH (2010) Fourteen microsatellite loci cross-amplify in all five kiwi species (Apteryx spp.) and reveal extremely low genetic variation in little spotted kiwi (A. owenii). Conserv Genet Resour. doi:10.1007/s12686-010-9233-2
46. Robertson H, Colbourne R (2008) Status of little spotted kiwi (Apteryx owenii) on Long Island, Marlborough Sounds, March-April 2008. New Zealand Department of Conservation. DOCDM-317704, Wellington
47. Robertson HA, Colbourne R, Castro I, Miller C, Cresswell M (2003) Kiwi (Apteryx spp.) best practice manual. New Zealand Department of Conservation, Wellington
48. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
49. 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 (Pubitemid 38669112)
50. Takahashi K, Rooney AP, Nei M (2000) Origins and divergence times of mammalian class II MHC gene clusters. J Hered 91:198-204 (Pubitemid 30314321)
51. van Tuinen M, Hedges SB (2001) Calibration of avian molecular clocks. Mol Biol Evol 18:206-213
52. Weber DS, Stewart BS, Schienman J, Lehman N (2004) Major histocompatibility complex variation at three class II loci in the northern elephant seal. Mol Ecol 13:711-718 (Pubitemid 38260951)
53. 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 (Pubitemid 32803115)
54. Wittzell H, Bernot A, Auffray C, Zoorob R (1999) Concerted evolution of two MHC class II loci in pheasants and domestic chickens. Mol Biol Evol 16:479-490 (Pubitemid 29190955)