Complete mitochondrial DNA sequence analysis of Bison bison and bison-cattle hybrids: Function and phylogeny

Mitochondrion

Volumn 11, Issue 1, 2011, Pages 166-175

  Douglas, Kory C ^a   Halbert, Natalie D ^a   Kolenda, Claire ^a,b   Childers, Christopher ^a,c   Hunter, David L ^d   Derr, James N ^a  

^a TEXAS A AND M UNIVERSITY   (United States)

^b NEWCASTLE UNIVERSITY   (United Kingdom)

^c GEORGETOWN UNIVERSITY   (United States)

^d Turner Enterprises Inc   (United States)

Author keywords

Bison; Bos; Hybridization; Mitochondria; Phylogenetics

Indexed keywords

MITOCHONDRIAL DNA;

ARTICLE; BOVIDS; BUFFALO; CATTLE; DNA SEQUENCE; GENE FUNCTION; GENETIC COMPATIBILITY; HAPLOTYPE; HYBRID; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; POPULATION STRUCTURE; PRIORITY JOURNAL; SEQUENCE ANALYSIS; TAXONOMY;

ANIMALS; BASE SEQUENCE; BISON; CATTLE; DNA, MITOCHONDRIAL; GENETICS, POPULATION; GENOME, MITOCHONDRIAL; HAPLOTYPES; HYBRIDIZATION, GENETIC; MITOCHONDRIA; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEQUENCE ANALYSIS, DNA;

ANIMALIA; BISON; BISON BISON; BOS; BOVIDAE;

EID: 78650014981     PISSN: 15677249     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mito.2010.09.005     Document Type: Article

References (76)

1. Achilli A., Olivieri A., Pellecchia M., Uboldi C., Colli L., Al-Zahery N., Accetturo M., Pala M., Kashani B.H., Perego U.A., Battaglia V., Fornarino S., Kalamati J., Houshmand M., Negrini R., Semino O., Richards M., Macaulay V., Ferretti L., Bandelt H.J., Ajmone-Marsan P., Torroni A. Mitochondrial genomes of extinct aurochs survive in domestic cattle. Current Biology 2008, 18:R157-R158.
2. Arnold M.L. Natural Hybridization and Evolution 1997, Oxford University Press, New York.
3. Banfield A.W.F., Novakowski N.S. The survival of the wood bison (Bison bison athabascae Rhoads) in the northwest territories. Natural History Papers, National Museum of Canada 1960, 8:1-6.
4. Barrientos A., Kenyon L., Moraes C.T. Human xenomitochondrial cybrids. Cellular models of mitochondrial complex I deficiency. Journal of Biological Chemistry 1998, 273:14210-14217.
5. Barton N.H. The role of hybridization in evolution. Molecular Ecology 2001, 10:551-568.
6. Benson D.A., Karsch-Mizrachi I., Lipman D.J., Ostell J., Wheeler D.L. GenBank. Nucleic Acids Research 2005, 33:D34-D38.
7. Bolnick D.I., Turelli M., Lopez-Fernandez H., Wainwright P.C., Near T.J. Accelerated mitochondrial evolution and "Darwin's corollary": asymmetric viability of reciprocal F1 hybrids in Centrarchid fishes. Genetics 2008, 178:1037-1048.
8. Boore J.L., Macey J.R., Medina M. Sequencing and comparing whole mitochondrial genomes of animals. Methods in Enzymology 2005, 395:311-348.
9. Bork A.M., Strobeck C.M., Yeh F.C., Hudson R.J., Salmon R.K. Genetic relationship of wood and plains bison based on restriction fragment length polymorphisms. Canadian Journal of Zoology 1991, 69:43-48.
10. Bortot B., Barbi E., Biffi S., Angelini C., Faleschini E., Severini G.M., Carrozzi M. Two novel cosegregating mutations in tRNAMet and COX III, in a patient with exercise intolerance and autoimmune polyendocrinopathy. Mitochondrion 2009, 9:123-129.
11. Boyd M.M. A short account of an experiment in crossing the American bison with domestic cattle. Annual Report of the American Breeders' Association 1908, 324-331.
12. Burton M. Systematic Dictionary of Mammals of the World 1962, Thomas Y. Crowell Co., New York.
13. Burton R.S., Rawson P.D., Edmands S. Genetic architecture of physiological phenotypes: empirical evidence for coadapted gene complexes. American Zoologist 1999, 39:451-462.
14. 2 hybrids: consequences of rapid mitochondrial DNA evolution in allopatric populations. The American Naturalist 2006, 168(Suppl 6):S14-S24.
15. Burzynska B., Olech W., Topczewski J. Phylogeny and genetic variation of the European bison Bison bonasus based on mitochondrial DNA D-loop sequences. Acta Theriologica 1999, 44:253-262.
16. Cao S.Y., Wu X.B., Yan P., Hu Y.L., Su X., Jiang Z.G. Complete nucleotide sequences and gene organization of mitochondrial genome of Bufo gargarizans. Mitochondrion 2006, 6:186-193.
17. Clement M., Posada D., Crandall K.A. TCS: a computer program to estimate gene genealogies. Molecular Ecology 2000, 9:1657-1659.
18. Coder, G.D., 1975. The national movement to preserve the American buffalo in the United States and Canada between 1880 and 1920, Ph.D. Dissertation (History). The Ohio State University, Columbus, p. 348.
19. Corbet G.B. The Mammals of the Paleoarctic Region: a Taxonomic Review 1978, British Museum of Natural History, London.
20. Decker J.E., Pires J.C., Conant G.C., McKay S.D., Heaton M.P., Chen K., Cooper A., Vilkki J., Seabury C.M., Caetano A.R., Johnson G.S., Brenneman R.A., Hanotte O., Eggert L.S., Wiener P., Kim J.J., Kim K.S., Sonstegard T.S., Van Tassell C.P., Neibergs H.L., McEwan J.C., Brauning R., Coutinho L.L., Babar M.E., Wilson G.A., McClure M.C., Rolf M.M., Kim J., Schnabel R.D., Taylor J.F. Resolving the evolution of extant and extinct ruminants with high-throughput phylogenomics. Proceedings of the National Academy of Sciences 2009, 106:18644-18649.
21. Ellison C.K., Burton R.S. Interpopulation hybrid breakdown maps to the mitochondrial genome. Evolution 2008, 62:631-638.
22. Elstner M., Andreoli C., Ahting U., Tetko I., Klopstock T., Meitinger T., Prokisch H. MitoP2: an integrative tool for the analysis of the mitochondrial proteome. Molecular Biotechnology 2008, 40:306-315.
23. Fan W., Waymire K.G., Narula N., Li P., Rocher C., Coskun P.E., Vannan M.A., Narula J., Macgregor G.R., Wallace D.C. A mouse model of mitochondrial disease reveals germline selection against severe mtDNA mutations. Science 2008, 319:958-962.
24. Florentz C., Sohn B., Tryeoen-Tóth P., Pütz J., Sissler M. Human mitochondrial tRNAs in health and disease. Cellular and Molecular Life Sciences 2003, 60:1356-1375.
25. Flores D. Bison ecology and bison diplomacy: the southern plains from 1800 to 1850. Journal of American History 1991, 465-485.
26. Garretson M.S. The American Bison: The Story of its Extermination as a Wild Species and its Restoration under Federal Protection 1938, New York Zoological Society, New York.
27. Geist V. Phantom subspecies: the wood bison Bison bison "athabascae" Rhoads 1897 is not a valid taxon, but an ecotype. Arctic 1991, 44:283-300.
28. Gissi C., Iannelli F., Pesole G. Evolution of the mitochondrial genome of Metazoa as exemplified by comparison of congeneric species. Heredity 2008, 101:301-320.
29. Goodnight C. My experience with bison hybrids. Journal of Heredity 1914, 5:197-199.
30. Groves C.P. Systematic relationships in the Bovini (Artiodactyla, Bovidae). Journal of Zoological Systematics and Evolutionary Research 1981, 19:264-278.
31. Halbert N.D., Derr J.N. A comprehensive evaluation of cattle introgression into US federal bison herds. Journal of Heredity 2007, 98:1-12.
32. Halbert N.D., Derr J.N. Patterns of genetic variation in US federal bison herds. Molecular Ecology 2008, 17:4963-4977.
33. Halbert N.D., Ward T.J., Schnabel R.D., Taylor J.F., Derr J.N. Conservation genomics: disequilibrium mapping of domestic cattle chromosomal segments in North American bison populations. Molecular Ecology 2005, 14:2343-2362.
34. Harrison J.S., Burton R.S. Tracing hybrid incompatibilities to single amino acid substitutions. Molecular Biology and Evolution 2006, 23:559-564.
35. Hartl G.B., Goltenboth R., Grillitsch M., Willing R. On the biochemical systematics of the Bovini. Biochemical Systematics and Ecology 1988, 16:575-579.
36. Isenberg A.C. The Destruction of the Bison: An Environmental History, 1750-1920 2000, Cambridge University Press, New York.
37. Janecek L.L., Honeycutt R.L., Adkins R.M., Davis S.K. Mitochondrial gene sequences and the molecular systematics of the Artiodactyl subfamily Bovinae. Molecular Phylogenetics and Evolution 1996, 6:107-119.
38. Johansen-Morris A.D., Latta R.G., Mauricio R. Fitness consequences of hybridization between ecotypes of Avena barbata: hybrid breakdown, hybrid vigor, and transgressive segregation. Evolution 2006, 60:1585-1595.
39. Jones C.J. Breeding cattelo. Annual Report of the American Breeders' Association 1907, 3:161-165.
40. Larkin M.A., Blackshields G., Brown N.P., Chenna R., McGettigan P.A., McWilliam H., Valentin F., Wallace I.M., Wilm A., Lopez R., Thompson J.D., Gibson T.J., Higgins D.G. Clustal W and Clustal X version 2.0. Bioinformatics 2007, 23:2947-2948.
41. Lee H.Y., Chou J.Y., Cheong L., Chang N.H., Yang S.Y., Leu J.Y. Incompatibility of nuclear and mitochondrial genomes causes hybrid sterility between two yeast species. Cell 2008, 135:1065-1073.
42. Liau W.S., Gonzalez-Serricchio A.S., Deshommes C., Chin K., LaMunyon C.W. A persistent mitochondrial deletion reduces fitness and sperm performance in heteroplasmic populations of C. elegans. BMC Genetics 2007, 8:8.
43. Librado P., Rozas J. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 2009, 25:1451-1452.
44. Liepins A., Hennen S. Cytochrome oxidase deficiency during development of amphibian nucleocytoplasmic hybrids. Developmental Biology 1977, 57:284-292.
45. Loftus R.T., MacHugh D.E., Bradley D.G., Sharp P.M. Evidence for two independent domestications of cattle. Proceedings of the National Academy of Sciences USA 1994, 91:2757-2761.
46. Lowe T.M., Eddy S.R. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Research 1997, 25:955-964.
47. McDonald J.N. North American Bison: Their Classification and Evolution 1981, University of California Press, Berkeley.
48. McHugh T. The Time of the Buffalo 1972, University of Nebraska Press, Lincoln.
49. Meagher M. Bison bison. Mammalian Species 1986, 266:1-8.
50. Miyamoto M.M., Tanhauser S.M., Laipis P.J. Systematic relationships in the Artiodactyl tribe Bovini (family Bovidae), as determined from mitochondrial DNA sequences. Systematic Zoology 1989, 38:342-349.
51. Nagao Y., Totsuka Y., Atomi Y., Kaneda H., Lindahl K.F., Imai H., Yonekawa H. Decreased physical performance of congenic mice with mismatch between the nuclear and the mitochondrial genome. Genes and Genetic Systems 1998, 73:21-27.
52. Peden D.G., Kraay G.J. Comparison of blood characteristics in plains bison, wood bison, and their hybrids. Canadian Journal of Zoology 1979, 57:1778-1784.
53. Prokisch H., Andreoli C., Ahting U., Heiss K., Ruepp A., Scharfe C., Meitinger T. MitoP2: the mitochondrial proteome database-now including mouse data. Nucleic Acids Research 2006, 34:D705-D711.
54. Roe F.G. The North American Buffalo: A Critical Study of the Species in its Wild State 1970, University of Toronto Press, Toronto. 2nd ed.
55. Sackton T.B., Haney R.A., Rand D.M. Cytonuclear coadaptation in Drosophila: disruption of cytochrome c oxidase activity in backcross genotypes. Evolution 2003, 57:2315-2325.
56. Sambrook J., Fritsch E.F., Maniatis T. Molecular Cloning: A Laboratory Manual 1989, Cold Spring Harbor Laboratory Press, Plainview, NY. 2nd ed.
57. Santamaria M., Lanave C., Vicario S., Saccone C. Variability of the mitochondrial genome in mammals at the inter-species/intra-species boundary. Journal of Biological Chemistry 2007, 388:943-946.
58. Simon C., Buckley T.R., Frati F., Stewart J.B., Beckenbach A.T. Incorporating molecular evolution into phylogenetic analysis, and a new compilation of conserved polymerase chain reaction primers for animal mitochondrial DNA. Annual Review of Ecology, Evolution, and Systematics 2006, 545-579.
59. Soper J.D. History, range and home life of the northern bison. Ecological Monographs 1941, 11:349-410.
60. Stamatakis A. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 2006, 22:2688-2690.
61. Stebbins G.L. The role of hybridization in evolution. Proceedings of the American Philosophical Society 1959, 103:231-251.
62. Steklenev E.P., Yasinetskaya N.I. Results of crossing of the bison (Bison bison bison L.) with the domestic cow (Bos (Bos) taurus typicus) and characteristics of the chromosome complexes of the hybrid progeny. Tsitologiya i Genetika 1982, 16:28-33.
63. Stormont C., Miller W.J., Suzuki Y. Blood groups and the taxonomic status of American buffalo and domestic cattle. Evolution 1961, 15:196-208.
64. Tanaka N., Goto Y., Akanuma J., Kato M., Kinoshita T., Yamashita F., Tanaka M., Asada T. Mitochondrial DNA variants in a Japanese population of patients with Alzheimer's disease. Mitochondrion 2010, 10:32-37.
65. Tieleman B.I., Versteegh M.A., Fries A., Helm B., Dingemanse N.J., Gibbs H.L., Williams J.B. Genetic modulation of energy metabolism in birds through mitochondrial function. Proceedings of the Royal Society B-Biological Sciences 2009, 276:1685-1693.
66. van Gelder R.G. Mammalian hybrids and generic limits. American Museum Novitates 1977, 2635:1-25.
67. van Zyll de Jong C.G. A systematic study of recent bison, with particular consideration of the wood bison (Bison bison athabascase Rhodes 1898). Publication in Natural Sciences No. 6 1986, National Museums of Canada, Ottawa, ON.
68. Vogel A.B., Tenggardjaja K., Edmands S., Halbert N.D., Derr J.N., Hedgecock D. Detection of mitochondrial DNA from domestic cattle in bison on Santa Catalina Island. Animal Genetics 2007, 38:410-412.
69. Wall D.A., Davis S.K., Read B.M. Phylogenetic relationships in the subfamily Bovinae (Mammalia: Artiodactyla) based on ribosomal DNA. Journal of Mammalogy 1992, 73:262-275.
70. Wallace D.C. Mitochondrial DNA sequence variation in human evolution and disease. Proceedings of the National Academy of Science U S A 1994, 91:8739-8746.
71. Ward T.J., Bielawski J.P., Davis S.K., Templeton J.W., Derr J.N. Identification of domestic cattle hybrids in wild cattle and bison species: a general approach using mtDNA markers and the parametric bootstrap. Animal Conservation 1999, 2:51-57.
72. Westhusin M.E., Shin T., Templeton J.W., Burghardt R.C., Adams L.G. Rescuing valuable genomes by animal cloning: a case for natural disease resistance in cattle. Journal of Animal Science 2007, 85:138-142.
73. Wilson D.E., Reeder D.M. Mammal Species of the World: A Taxonomic and Geographic Reference 1993, 1206. Smithsonian Inst. Press, Washington, D.C. 2nd ed.
74. Wilson G.A., Strobeck C.M. Genetic variation within and relatedness among wood and plains bison populations. Genome 1999, 42:483-496.
75. Yamaoka M., Isobe K., Shitara H., Yonekawa H., Miyabayashi S., Hayashi J.I. Complete repopulation of mouse mitochondrial DNA-less cells with rat mitochondrial DNA restores mitochondrial translation but not mitochondrial respiratory function. Genetics 2000, 155:301-307.
76. Zardoya R., Meyer A. Phylogenetic performance of mitochondrial protein-coding genes in resolving relationships among vertebrates. Molecular Biology and Evolution 1996, 13:933-942.