The feline major histocompatibility complex is rearranged by an inversion with a breakpoint in the distal class I region

Immunogenetics

Volumn 56, Issue 10, 2005, Pages 702-709

  Beck, Thomas W ^a   Menninger, Joan ^a   Murphy, William J ^a   Nash, William G ^b   O'Brien, Stephen J ^c   Yuhki, Naoya ^c  

^a SAIC FREDERICK INC   (United States)

^b H and W Cytogenetic Services Inc   (United States)

^c NATIONAL CANCER INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CONTIG; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 2; PROTEIN; PROTEIN TRIM26; PROTEIN TRIM39; UNCLASSIFIED DRUG;

ANIMAL GENETICS; ARTICLE; AUTOSOME; CAT; CENTROMERE; CHROMOSOME 6; CHROMOSOME BREAKAGE; CHROMOSOME INVERSION; COMPARATIVE GENE MAPPING; CONTIG MAPPING; DNA PROBE; DOMESTIC ANIMAL; FLUORESCENCE IN SITU HYBRIDIZATION; GENETIC MARKER; GENOME ANALYSIS; HUMAN CHROMOSOME; MAJOR HISTOCOMPATIBILITY COMPLEX; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; OLFACTORY RECEPTOR; PRIORITY JOURNAL; RADIATION HYBRID MAPPING; TELOMERE;

FELIDAE; FELIS; FELIS CATUS; MAMMALIA;

EID: 12944325300     PISSN: 00937711     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00251-004-0742-6     Document Type: Article

References (57)

1. Amadou C (1999) Evolution of the Mhc class I region: the framework hypothesis. Immunogenetics 49:362-367
2. Anzai T, Shiina T, Kimura N et al (2003) Comparative sequencing of human and chimpanzee MHC class I regions unveils insertions/deletions as the major path to genomic divergence. Proc Natl Acad Sci USA 100:7708-7713
3. Band M, Larson JH, Womack JE, Lewin HA (1998) A radiation hybrid map of BTA23: identification of a chromosomal rearrangement leading to separation of the cattle MHC class II subregions. Genomics 53:269-275
4. Band MR, Larson JH, Rebeiz M, Green CA, Heyen DW, Donovan J, Windish R, Steining C, Mahyuddin P, Womack JE, Lewin HA (2000) An ordered comparative map of the cattle and human genomes. Genome Res 10:1359-1368
5. Beck TW, Menninger J, Voigt G, Newmann K, Nishigaki Y, Nash WG, Stephens RM, Wang Y, de Jong PJ, O'Brien SJ, Yuhki N (2001) Comparative feline genomics: a BAC/PAC contig map of the major histocompatibility complex class II region. Genomics 71:282-295
6. Boehnke M, Lange K, Cox DR (1991) Statistical methods for multipoint radiation hybrid mapping. Am J Hum Genet 49:1174-1188
7. Chardon P, Rogel-Gaillard C, Peelman L, Yerle M, Velten FW, Renard C, Vaiman M (1999a) Physical organization of the pig major histocompatibility complex class II region. Immunogenetics 50:344-348
8. Chardon P, Renard C, Vaiman M (1999b) The major histocompatibility complex of swine. Immunol Rev 167:179-192
9. Chardon P, Rogel-Gaillard C, Cattolico L, Duprat S, Vaiman M, Renard C (2001) Sequence of the swine major histocompatibility complex region containing all non-classical class I genes. Tissue Antigens 57:55-65
10. Chowdhary BP, Raudsepp T, Kata SR, Goh G, Millon LV, Allan V, Piumi F, Guerin G, Swinburne J, Binns M, Lear TL, Mickelson J, Murray J, Antczak DF, Womack JE, Skow LC (2003) The first-generation whole-genome radiation hybrid map in the horse identifies conserved segments in human and mouse genomes. Genome Res 13:742-751
11. Daza-Vamenta R, Glusman G, Rowen L, Guthrie B, Geraghty DE (2004) Genetic divergence of the rhesus macaque major histocompatibility complex. Genome Res 14:1501-1515
12. Di Palma F, Archibald SD, Young JR, Ellis SA (2002) A BAC contig of approximately 400 kb contains the classical class I major histocompatiblity complex (MHC) genes of cattle. Eur J Immunogenet 29:65-68
13. Everts Wind A van der, Kata SR, Band MR, Rebeiz M, Larkin DM, Everts RE, Green CA, Liu L, Natarajan S, Goldammer T, Lee JH, McKay S, Womack JE, Lewin HA (2004) A 1463 gene cattle-human comparative map with anchor points defined by human genome sequence coordinates. Genome Res 14:1424-1437
14. Fanning TG (1987) Origin and evolution of a major feline satellite DNA. J Mol Biol 197:627-634
15. Gustafson AL, Tallmadge RL, Ramlachan N, Miller D, Bird H, Antczak DF, Raudsepp T, Chowdhary BP, Skow LC (2003) An ordered BAC contig map of the equine major histocompatibility complex. Cytogenet Genome Res 102:189-195
16. Hess M, Goldammer T, Gelhaus A, Ried K, Rappold G, Eggen A, Bishop MD, Schwerin M, Horstmann RD (1999) Physical assignment of the bovine MHC class IIa and class IIb genes. Cytogenet Cell Genet 85:244-247
17. Horvath JE, Gulden CL, Bailey JA, Yohn C, McPherson JD, Prescott A, Roe BA, De Jong PJ, Ventura M, Misceo D, Archidiacono N, Zhao S, Schwartz S, Rocchi M, Eichler EE (2003) Using a pericentromeric interspersed repeat to recapitulate the phylogeny and expansion of human centromeric segmental duplications. Mol Biol Evol 20:1463-1479
18. Hurt P, Walter L, Sudbrak R, Klages S, Muller I, Shiina T, Inoko H, Lehrach H, Gunther E, Reinhardt R, Himmelbauer H (2004) The genomic sequence and comparative analysis of the rat major histocompatibility complex. Genome Res 14:631-639
19. Jackson MS, Rocchi M, Thompson G, Hearn T, Crosier M, Guy J, Kirk D, Mulligan L, Ricco A, Piccininni S, Marzella R, Viggiano L, Archidiacono N (1999) Sequences flanking the centromere of human chromosome 10 are a complex patchwork of arm-specific sequences, stable duplications and unstable sequences with homologies to telomeric and other centromeric locations. Hum Mol Genet 8:205-215
20. James MR, Richard CW 3rd, Schott JJ, Yousry C, Clark K, Bell J, Terwilliger JD, Hazan J, Dubay C, Vignal A et al (1994) A radiation hybrid map of 506 STS markers spanning human chromosome 11. Nat Genet 8:70-76
21. Kaufman J, Milne S, Gobel TW, 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
22. Kumanovics A, Takada T, Fischer Lindahl K (2003) Genomic organization of the mammalian MHC. Annu Rev Immunol 21:629-665
23. Lewin HA, Russell GC, Glass EJ (1999) Comparative organization and function of the major histocompatibility complex of domesticated cattle. Immunol Rev 167:145-158
24. Marra MA, Kucaba TA, Dietrich NL, Green ED, Brownstein B, Wilson RK, McDonald KM, Hillier LW, McPherson JD, Waterston RH (1997) High throughput fingerprint analysis of large-insert clones. Genome Res 7:1072-1084
25. McShane RD, Gallagher DS Jr, Newkirk H, Taylor JF, Burzlaff JD, Davis SK, Skow LC (2001) Physical localization and order of genes in the class I region of the bovine. MHC Anim Genet 32:235-239
26. Menotti-Raymond M, David VA, Chen ZQ, Menotti KA, Sun S, Schaffer AA, Agarwala R, Tomlin JF, O'Brien SJ, Murphy WJ (2003) Second-generation integrated genetic linkage/radiation hybrid maps of the domestic cat (Felis catus). J Hered 94:95-106
27. MHC Sequencing Consortium (1999) Complete sequence and gene map of a human major histocompatibility complex. Nature 401:921-923
28. Miska KB, Harrison GA, Hellman L, Miller RD (2002) The major histocompatibility complex in monotremes: an analysis of the evolution of Mhc class I genes across all three mammalian subclasses. Immunogenetics 54:381-393
29. Modi WS, Fanning TG, Wayne RK, O'Brien SJ (1988) Chromosomal localization of satellite DNA sequences among 22 species of felids and canids (Carnivora). Cytogenet Cell Genet 48:208-213
30. Modi WS, Nash WG, Ferrari AC, O'Brien SJ (1987) Cytogenetic methodologies for gene mapping and comparative analyses in mammalian cell culture systems. Gene Anal Tech 4:75-85
31. Murphy WJ, Menotti-Raymond M, Lyons LA, Thompson MA, O'Brien SJ (1999a) Development of a feline whole genome radiation hybrid panel and comparative mapping of human chromosome 12 and 22 loci. Genomics 57:1-8
32. Murphy WJ, Sun S, Chen ZQ, Pecon-Slattery J, O'Brien SJ (1999b) Extensive conservation of sex chromosome organization between cat and human revealed by parallel radiation hybrid mapping. Genome Res 9:1223-1230
33. Murphy WJ, Sun S, Chen Z, Yuhki N, Hirschmann D, Menotti-Raymond M, O'Brien SJ (2000) A radiation hybrid map of the cat genome: implications for comparative mapping. Genome Res 10:691-702
34. Murphy WJ, Eizirik E, O'Brien SJ, Madsen O, Scally M, Douady CJ, Teeling E, Ryder OA, Stanhope MJ, de Jong WW, Springer MS (2001) Resolution of the early placental mammal radiation using Bayesian phylogenetics. Science 294:2348-2351
35. Nash WG, Wienberg J, Ferguson-Smith MA, Menninger JC, O'Brien SJ (1998) Comparative genomics: tracking chromosome evolution in the family Ursidae using reciprocal chromosome painting. Cytogenet Cell Genet 83:182-192
36. Nash WG, Menninger JC, Wienberg J, Padilla-Nash HM, O'Brien SJ (2001) The pattern of phylogenomic evolution of the Canidae. Cytogenet Cell Genet 95:210-224
37. O'Brien SJ, Cevario SJ, Martenson JS, Thompson MA, Nash WG, Chang E, Graves JA, Spencer JA, Cho KW, Tsujimoto H, Lyons LA (1997a) Comparative gene mapping in the domestic cat (Felis catus). J Hered 88:408-414
38. O'Brien SJ, Wienberg J, Lyons LA (1997b) Comparative genomics: lessons from cats. Trends Genet 13:393-399
39. O'Brien SJ, Yuhki N (1999) Comparative genome organization of the major histocompatibility complex: lessons from the Felidae. Immunol Rev 167:133-144
40. Renard C, Vaiman M, Chiannilkulchai N, Cattolico L, Robert C, Chardon P (2001) Sequence of the pig major histocompatibility region containing the classical class I genes. Immunogenetics 53:490-500
41. Riethman H, Ambrosini A, Castaneda C, Finklestein J, Hu XL, Mudunuri U, Paul S, Wei J (2004) Mapping and initial analysis of human subtelomeric sequence assemblies. Genome Res 14:18-28
42. Rink A, Santschi EM, Eyer KM, Roelofs B, Hess M, Godfrey M, Karajusuf EK, Yerle M, Milan D, Beattie CW (2002) A first-generation EST RH comparative map of the porcine and human genome. Mamm Genome 13:578-587
43. Rozen S, Skaletsky H (2000) Primer3 on the WWW for general users and for biologist programmers. Methods Mol Biol 132:365-386
44. Shigenari A, Ando A, Renard C, Chardon P, Shiina T, Kulski JK, Yasue H, Inoko H (2004) Nucleotide sequencing analysis of the swine 433-kb genomic segment located between the nonclassical and classical SLA class I gene clusters. Immunogenetics 55:695-705
45. Shiina T, Tamiya G, Oka A, Takishima N, Inoko H (1999) Genome sequencing analysis of the 1.8 Mb entire human MHC class I region. Immunol Rev 167:193-199
46. Skow LC, Snaples SN, Davis SK, Taylor JF, Huang B, Gallagher DH (1996) Localization of bovine lymphocyte antigen (BoLA) DYA and class I loci to different regions of chromosome 23. Mammal Genome 7:388-389
47. Smith TP, Rohrer GA, Alexander LJ, Troyer DL, Kirby-Dobbels KR, Janzen MA, Cornwell DL, Louis CF, Schook LB, Beattie CW (1995) Directed integration of the physical and genetic linkage maps of swine chromosome 7 reveals that the SLA spans the centromere. Genome Res 5:259-271
48. Springer MS, Murphy WJ, Eizirik E, O'Brien SJ (2003) Placental mammal diversification and the Cretaceous-Tertiary boundary. Proc Natl Acad Sci USA 100:1056-1061
49. Soderlund C, Longden I, Mott R (1997) FPC: a system for building contigs from restriction fingerprinted clones. Comput Appl Biosci 13:523-535
50. Stewart EA, McKusick KB, Aggarwal A et al (1997) An STS-based radiation hybrid map of the human genome. Genome Res 7:422-433
51. Takada T, Kumanovics A, Amadou C, Yoshino M, Jones EP, Athanasiou M, Evans GA, Fischer Lindahl K (2003) Species-specific class I gene expansions formed the telomeric 1 Mb of the mouse major histocompatibility complex. Genome Res 13:589-600
52. Thomas JW, Lee-Lin SQ, Green ED (1999) Human-mouse comparative mapping of the genomic region containing CDK6: localization of an evolutionary breakpoint. Mamm Genome 10:764-767
53. Thomas JW, Schueler MG, Summers TJ, Blakesley RW, McDowell JC, Thomas PJ, Idol JR, Maduro VV, Lee-Lin SQ, Touchman JW, Bouffard GG, Beckstrom-Sternberg SM, Green ED (2003) Pericentromeric duplications in the laboratory mouse. Genome Res 13:55-63
54. Trowsdale J (1995) "Both man & bird & beast": comparative organization of MHC genes. Immunogenetics 41:1-17
55. Velten F, Rogel-Gaillard C, Renard C, Pontarotti P, Tazi-Ahnini R, Vaiman M, Chardon P (1998) A first map of the porcine major histocompatibility complex class I region. Tissue Antigens 51:183-194
56. Velten FW, Renard C, Rogel-Gaillard C, Vaiman M, Chardon P (1999) Spatial arrangement of pig MHC class I sequences. Immunogenetics 49:919-930
57. Yuhki N, Beck T, Stephens RM, Nishigaki Y, Newmann K, O'Brien SJ (2003) Comparative genome organization of human, murine, and feline MHC class II region. Genome Res 13:1169-1179