Genetic diversity of Asian water buffalo (Bubalus bubalis): Mitochondrial DNA D-loop and cytochrome b sequence variation

Animal Genetics

Volumn 29, Issue 4, 1998, Pages 253-264

  Lau, C H ^a   Drinkwater, R D ^b   Yusoff, K ^a   Tan, S G ^a   Hetzel, D J S ^b   Barker, J S F ^c  

^a UNIVERSITY PUTRA MALAYSIA   (Malaysia)

^b UNIVERSITY OF QUEENSLAND   (Australia)

^c UNIVERSITY OF NEW ENGLAND   (Australia)

Author keywords

Bubalus bulabis; Buffalo evolution; Control region; Cytochrome b; D loop; Genetic diversity; Mitochondrial DNA

Indexed keywords

BORNEO; BUBALUS ARNEE; CHINA; CYTOCHROME B; GENETIC DIVERSITY; HAPLOTYPE; INDONESIA; MAMMALIAN GENETICS; MITOCHONDRIAL DNA; NUCLEOTIDE SEQUENCE; PHILIPPINES; PHYLOGENY; TAIWAN;

ANIMALS; ASIA, SOUTHEASTERN; AUSTRALIA; BUFFALOES; CHROMOSOME MAPPING; CYTOCHROME B GROUP; DNA, MITOCHONDRIAL; GENETICS, POPULATION; HAPLOTYPES; MOLECULAR SEQUENCE DATA; POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS, DNA; SRI LANKA; VARIATION (GENETICS);

ANIMALIA; BUBALUS; BUBALUS BUBALIS; MAMMALIA;

EID: 0032143598     PISSN: 02689146     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-2052.1998.00309.x     Document Type: Article

References (39)

1. Amano T. (1983) Genetic differences between swamp and river buffaloes in biochemical and immunological characteristics. In: Proceedings of the Preconference Symposium of the 5th World Conference on Animal Production, Tsukuba, Japan (ed. by H. Shimizu), pp. 131-5.
2. Amano T., Namikawa T. & Natasasmita S. (1982) Blood protein polymorphisms of water buffaloes and anoas in Indonesia. In: The Origin and Phylogeny of Indonesian Native Livestock, Kagoshima, Japan. Part III (Report by Grant-in-Aid for Overseas Scientific Survey, no. 57043041), pp. 57-65.
3. Amano T., Miyakoshi Y., Takada T., Kikkawa Y. & Suzuki H. (1994) Genetic variants of ribosomal DNA and mitochondrial DNA between swamp and river buffaloes. Animal Genetics 25 (Suppl. 1), 29-36.
4. Anderson S., de Bruijn M.H.L., Coulson A.R., Eperon I.C., Sanger F. & Young I.G. (1982) Complete sequence of bovine mitochondrial DNA. Conserved features of the mammalian mitochondrial genome. Journal of Molecular Biology 156, 683-717.
5. Barker J.S.F., Tan S.G., Selvaraj O.S. & Mukherjee T.K. (1997a) Genetic variation within and relationships among populations of Asian water buffalo (Bubalus bubalis). Animal Genetics 28, 1-13.
6. Barker J.S.F., Moore S.S., Hetzel D.J.S., Evans D., Tan S.G. & Byrne K. (1997b) Genetic diversity of Asian water buffalo (Bubalus bubalis): microsatellite variation and a comparison with protein-coding loci. Animal Genetics 28, 103-15.
7. Bellwood P. (1992) Southeast Asia before history. In: The Cambridge History of Southeast Asia, Vol. 1 (ed. by N. Tarling), pp. 55-136. Cambridge University Press, Cambridge.
8. Bulmer M., Wolfe K.H. & Sharp P.M. (1991) Synonymous nucleotide substitution rates in mammalian genes: implications for the molecular clock and the relationship of mammalian orders. Proceedings of the National Academy of Sciences, USA 88, 5974-8.
9. Chen Y.C. & Li X.H. (1989) New evidence of the origin and domestication of the Chinese swamp buffalo (Bubalus bubalis). Buffalo Journal 1, 51-5.
10. Cockrill W.R. (1974) The Husbandry and Health of the Domestic Buffalo (ed. by W.R. Cockrill). FAO, Rome.
11. Excoffier L. (1995) AMOVA 1-55 (Analysis of Molecular Variance). http://acasunl.unige.ch/LGB/Software/Windoze/amova.
12. Excoffier L., Smouse P.E. & Quattro J.M. (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131, 479-91.
13. Felsenstein J. (1993) PHYLIP (Phytogeny Inference Package) version 3·5c. Distributed by the author. Department of Genetics, University of Washington, Seattle, WA.
14. Fischer H. & Ulbrich F. (1968) Chromosomes of the Murrah buffalo and its crossbreds with the Asiatic swamp buffalo (Bubalus bubalis). Zeitschrift für Tierzüchtung und Züchtungsbiologie 84, 110-4.
15. Hochberg Y. (1988) A sharper Bonferroni procedure for multiple tests of significance. Biometrika 75, 800-2.
16. Kimura M. (1980) A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16, 111-20.
17. Kumar S., Tamura K. & Nei M. (1993) MEGA: Molecular Evolutionary Genetics Analysis, version 1·01. The Pennsylvania State University, University Park, PA.
18. Lau C.H., Yusoff K., Tan S.G. & Yamada Y. (1995) A PCR cycle sequencing protocol for population mitochondrial cytochrome b analysis. BioTechniques 18, 262-5.
19. Lessios H.A. (1992) Testing electrophoretic data for agreement with Hardy-Weinberg expectations. Marine Biology 112, 517-23.
20. Li W.-H., Gouy M., Sharp P.M., O'hUigin C. & Yang Y.-W. (1990) Molecular phylogeny of rodentia, lagomorpha, primates, artiodactyla, and carnivora and molecular clocks. Proceedings of the National Academy of Sciences, USA 87, 6703-7.
21. Loftus R.T., MacHugh D.E., Bradley D.G., Sharp P.M. & Cunningham P. (1994) Evidence for two independent domestications of cattle. Proceedings of the National Academy of Sciences, USA 91, 2757-61.
22. Macgregor R. (1939) The domestic buffalo. Thesis presented to the Royal College of Veterinary Surgeons (quoted by I.L. Mason in Cockrill (1974), 1-47).
23. Mason I.L. (1974) Species, types and breeds. In: The Husbandry and Health of the Domestic Buffalo (ed. by W.R. Cockrill), pp. 1-47. Food and Agriculture Organization of the United Nations, Rome.
24. McElroy D., Moran P., Bermingham E. & Kornfield I. (1991) REAP The restriction enzyme analysis package. Version 4·0. Department of Zoology, Migratory Fish Research Institute and Centre for Marine Studies, University of Maine, ME.
25. Nei M. (1985) Human evolution at the molecular level. In: Population Genetics and Molecular Evolution (ed. by T. Ohta & K. Aoki), pp. 41-64. Springer-Verlag, Berlin.
26. Nei M. (1987) Molecular Evolutionary Genetics. Columbia University Press, New York.
27. Nei M. & Tajima F. (1981) DNA polymorphism detectable by restriction endonucleases. Genetics 97, 145-63.
28. Prim R.C. (1957) Shortest connection networks and some generalizations. Bell System Technical Journal 36, 1389-401.
29. Raymond M. & Rousset F. (1995a) An exact test for population differentiation. Evolution 49, 1280-3.
30. Raymond M. & Rousset F. (1995b) GENEPOP (Version 1·2): Population genetics software for exact tests and ecumenicism. Journal of Heredity 86, 248-9.
31. Raymond M. & Rousset F. (1997) GENEPOP (Version 3·1). ftp, ftp.cefe.cnrs-mop.fr, directory pub/pc/ msdos/genepop.
32. Rohlf F.J. (1988) NTSYS-pc. Numerical Taxonomy and Multivariate Analysis System. Version 1·50. Exeter Publications, New York.
33. Saitou N. & Nei M. (1987) The neighbour-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4, 406-25.
34. Stoneking M., Sherry S.T., Redd A.J. & Vigilant L. (1992) New approaches to dating suggest a recent age for the human mtDNA ancestor. Philosophical Transactions of the Royal Society, London B 337, 167-75.
35. Takahata N. & Nei M. (1985) Gene genealogy and variance of interpopulational nucleotide differences. Genetics 110, 325-44.
36. Tanaka K., Solis C.D., Masangkay J.S., Maeda K., Kawamoto Y. & Namikawa T. (1996) Phylogenetic relationship among all living species of the genus Bubalus based on DNA sequences of the cytochrome b gene. Biochemical Genetics 34, 443-52.
37. Tanaka K., Yamagata T., Masangkay J.S. et al. (1995) Nucleotide diversity of mitochondrial DNAs between the swamp and the river types of domestic water buffaloes, Bubalus bubalis, based on restriction endonuclease cleavage patterns. Biochemical Genetics 33, 137-48.
38. Thompson J.D., Higgins D.G. & Gibson T.J. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Research 22, 4673-80.
39. Ulbrich F. & Fischer H. (1967) The chromosomes of the Asiatic buffalo (Bubalus bubalis) and the African buffalo (Cyncerus caffer). Zeitschrift für Tierzüchtung und Züchtungsbiologie 83, 219-23.