A rhesus macaque radiation hybrid map and comparative analysis with the human genome

Genomics

Volumn 86, Issue 4, 2005, Pages 383-395

  Murphy, William J ^a,c   Agarwala, Richa ^b   Schäffer, Alejandro A ^b   Stephens, Robert ^a   Smith Jr , Clarence ^a   Crumpler, Nicole J ^a   David, Victor A ^a   O'Brien, Stephen J ^a  

^a NATIONAL CANCER INSTITUTE   (United States)

^b NATIONAL INSTITUTES OF HEALTH   (United States)

^c TEXAS A AND M UNIVERSITY   (United States)

Author keywords

Chromosome evolution; Human genome; Radiation hybrid map; Rhesus macaque; Segmental duplication

Indexed keywords

ARTICLE; CHROMOSOME BREAKAGE; CHROMOSOME DUPLICATION; CHROMOSOME INVERSION; CHROMOSOME REARRANGEMENT; COMPARATIVE GENE MAPPING; DNA SEQUENCE; GENE DUPLICATION; GENE MAPPING; GENETIC ANALYSIS; HUMAN GENOME; HUMAN VERSUS ANIMAL COMPARISON; KARYOTYPE; MOLECULAR EVOLUTION; NUCLEOTIDE SEQUENCE; PRIMATE; PRIORITY JOURNAL; RADIATION HYBRID MAPPING; RHESUS MONKEY; UNINDEXED SEQUENCE;

MACACA MULATTA; PRIMATES;

EID: 28644439463     PISSN: 08887543     EISSN: 10898646     Source Type: Journal    
DOI: 10.1016/j.ygeno.2005.05.013     Document Type: Article

References (38)

1. E.E. Eichler, and P.J. de Jong Biomedical applications and studies of molecular evolution: A proposal for a primate genomic library resource Genome Res. 12 2002 673 678
2. J.J. Yunis, and O. Prakash The origins of man: A chromosomal pictoral legacy Science 215 1982 1525 1530
3. S. Müller, R. Stanyon, P. Finelli, N. Archidiacono, and J. Wienberg Molecular cytogenetic dissection of human chromosomes 3 and 21 evolution Proc. Natl. Acad. Sci.USA 97 2000 206 211
4. S. Müller, P. Finelli, M. Neusser, and J. Wienberg The evolutionary history of human chromosome 7 Genomics 84 2004 458 467
5. D. Haig A brief history of human autosomes Philos. Trans. R. Soc. Lond. B: Biol. Sci. 354 1999 1447 1470
6. S.J. O'Brien, and R. Stanyon Phylogenomics. Ancestral primate viewed Nature 402 1999 365 366
7. J. Wienberg, L. Froenicke, and R. Stanyon Insights into mammalian genome organization and evolution by molecular cytogenetics M.S. Clark Comparative Genomics 2000 Kluwer Academic 207 244
8. R. Stanyon, U. Koehler, and S. Consigliere Chromosome painting reveals that galagos have highly derived karyotypes Am. J. Phys. Anthropol. 117 2002 319 326
9. F. Bigoni, R. Stanyon, R. Wimmer, and W. Schempp Chromosome painting shows that the proboscid monkey (Nasalis larvatus) has a derived karyotype and is phylogenetically nested within the Asian Colobines Am. J. Primatol. 60 2003 85 93
10. J. Rogers, M.C. Mahaney, S.M. Witte, S. Nair, D. Newman, S. Wedel, L.A. Rodriguez, K.S. Rice, S.H. Slifer, and A. Perelygin A genetic linkage map of the baboon (Papio hamadryas) genome based on human microsatellite polymorphisms Genomics 67 2000 237 247
11. L. Carbone, M. Ventura, S. Tempesta, M. Rocchi, and N. Archidiacono Evolutionary history of chromosome 10 in primates Chromosoma 111 2002 267 272
12. B.K. Dennehey, D.G. Gutches, E.H. McConkey, and K.S. Krauter Inversion, duplication, and changes in gene context are associated with human chromosome 18 evolution Genomics 83 2003 493 501
13. V. Eder, M. Ventura, M. Ianigro, M. Teti, M. Rocchi, and N. Archidiacono Chromosome 6 phylogeny in primates and centromere repositioning Mol. Biol. Evol. 20 2003 1506 1512
14. A. Ruiz-Herrera, F. García, C. Azzalin, E. Giulotto, J. Egozcue, M. Ponsà, and M. Garcia Distribution of intrachromosomal telomeric sequences (ITS) on Macaca fascicularis (Primates) chromosomes and their implication for chromosome evolution Hum. Genet. 110 2002 578 586
15. E. Tsend-Ayush, F. Grützner, Y. Yue, B. Grossmann, U. Hänsel, R. Sudbrak, and T. Haaf Plasticity of human chromosome 3 evolution during primate evolution Genomics 83 2004 193 202
16. D.P. Locke, N. Archidiacono, D. Misceo, M. Francesca Cardone, S. Deschamps, B. Roe, M. Rocchi, and E.E. Eichler Refinement of a chimpanzee pericentric inversion breakpoint to a segmental duplication cluster Genome Biol. 4 2003 R50
17. W.J. Murphy, J. Page, C. Smith Jr., R.C. Desrosiers, and S.J. O'Brien A radiation hybrid mapping panel for the rhesus macaque J. Hered. 92 2001 516 519
18. E. Eizirik, W.J. Murphy, M.S. Springer, and S.J. O'Brien Molecular phylogeny and dating of early primate divergences R. Kay C. Ross Anthropoid Origins, New Visions 2004 Kluwer/Plenum 45 64
19. C.M. Moore, C. Janish, C.A. Eddy, G.B. Hubbard, M.M. Leland, and J. Rogers Cytogenetic and fertility studies of a rheboon, rhesus macaque (Macaca mulatta) x baboon (Papio hamadryas) cross: Further support for a single karyotype nomenclature Am. J. Phys. Anthropol. 110 1999 119 127
20. J. Wienberg, R. Stanyon, A. Jauch, and T. Cremer Homologies in human and Macaca fuscata chromosomes revealed by in situ suppression hybridization with human chromosome specific DNA libraries Chromosoma 101 1992 265 270
21. G. Tesler GRIMM: Genome rearrangements web server Bioinformatics 18 2002 492 493
22. R. Vallente Samonte, and E.E. Eichler Segmental duplications and the evolution of the primate genome Nat. Rev. Genet. 3 2002 65 72
23. L. Armengol, M.A. Pujana, J. Cheung, S.W. Scherer, and X. Estivil Enrichment of segmental duplications in regions of breaks of synteny between the human and mouse genomes suggest their involvement in evolutionary rearrangements Hum. Mol. Genet. 12 2003 2201 2208
24. J.A. Bailey, R. Baertsch, W.J. Kent, D. Haussler, and E.E. Eichler Hotspots of mammalian chromosomal evolution Genome Biol. 5 2004 R23
25. J.A. Bailey, Z. Gu, R.A. Clark, K. Reinert, R.V. Samonte, S. Schwartz, M.D. Adams, E.W. Myers, P.W. Li, and E.E. Eichler Recent segmental duplications in the human genome Science 297 2002 1003 1007
26. P. Pevzner, and G. Tesler Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution Proc. Natl. Acad. Sci. USA 100 2003 7672 7677
27. W.J. Kent, R. Baertsch, A. Hinrichs, W. Miller, and D. Haussler Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes Proc. Natl. Acad. Sci. USA 100 2003 11484 11489
28. W.J. Murphy, S. Sun, Z.-Q. Chen, N. Yuhki, D. Hirschmann, M. Menotti-Raymond, and S.J. O'Brien A radiation hybrid map of the cat genome: implications for comparative mapping Genome Res. 10 2000 691 702
29. R. Sarno, V.A. David, W.L. Franklin, S.J. O'Brien, and W.E. Johnson Development of microsatellite markers in the guanaco, Lama guanicoe: utility for South American camelids Mol. Ecol. 9 2000 1922 1924
30. M. Boehnke, K. Lange, and D.R. Cox Statistical methods for multipoint radiation hybrid mapping Am. J. Hum. Gen. 49 1991 1174 1188
31. A. Ben-Dor, and B. Chor On constructing radiation hybrid maps J. Comput. Biol. 4 1997 517 533
32. R. Agarwala, D.L. Applegate, D. Maglott, G.D. Schuler, and A.A. Schäffer A fast and scalable radiation hybrid map construction and integration strategy Genome Res. 10 2000 350 364
33. D. Applegate, R. Bixby, V. Chvatal, and W. Cook On the solution of traveling salesman problems. Documenta mathematica extra volume International Congress of Mathematics III 1998 645 656
34. W. Van Etten, R.G. Steen, H. Nguyen, A.B. Castle, D.K. Slonim, B. Ge, C. Nusbaum, G.D. Schuler, E.S. Lander, and T.J. Hudson Radiation hybrid map of the mouse genome Nat. Genet. 22 1999 384 387
35. M. Menotti-Raymond, V.A. David, Z.Q. Chen, K.A. Menotti, S. Sun, A.A. Schäffer, R. Agarwala, J.F. Tomlin, S.J. O'Brien, and W.J. Murphy Second-generation integrated genetic linkage/radiation hybrid maps of the domestic cat (Felis catus) J. Hered. 94 2003 95 104
36. R. Guyon, T.D. Lorentzen, C. Hitte, L. Kim, E. Cadieu, H.G. Parker, P. Quignon, J.K. Lowe, C. Renier, and B. Gelfenbeyn A 1-Mb resolution radiation hybrid map of the dog genome Proc. Natl. Acad. Sci. USA 100 2003 5296 5301
37. G. Andelfinger, C. Hitte, L. Etter, R. Guyon, G. Bourque, G. Tesler, P. Pevzner, E. Kirkness, F. Galibert, and D.W. Benson Detailed four-way comparative mapping and gene order analysis of the canine ctvm locus reveals evolutionary chromosome rearrangements Genomics 83 2004 1053 1062
38. G. Bourque, P.A. Pevzner, and G. Tesler Reconstructing the genomic architecture of ancestral mammals: lessons from human, mouse, and rat genomes Genome Res. 14 2004 507 516