The genetic variability and relationships of Japanese and foreign chickens assessed by microsatellite DNA profiling

Asian-Australasian Journal of Animal Sciences

Volumn 19, Issue 10, 2006, Pages 1369-1378

  Osman, S A M ^a   Sekino, M ^a,b   Nishihata, A ^a,c   Kobayashi, Y ^a,c   Takenaka, W ^a,c   Kinoshita, K ^a,d   Kuwayama, T ^a,e   Nishibori, M ^a   Yamamoto, Y ^a   Tsudzuki, M ^a  

^a HIROSHIMA UNIVERSITY   (Japan)

^b FISHERIES RESEARCH AGENCY   (Japan)

^c NATIONAL LIVESTOCK BREEDING CENTER   (Japan)

^d KAGOSHIMA UNIVERSITY   (Japan)

^e TOKYO UNIVERSITY OF AGRICULTURE   (Japan)

Author keywords

Genetic Relationship; Genetic Variability; Microsatellite; Native Japanese Chickens

Indexed keywords

GALLUS GALLUS;

EID: 33749824169     PISSN: 10112367     EISSN: None     Source Type: Journal    
DOI: 10.5713/ajas.2006.1369     Document Type: Article

References (52)

1. Buchanan, F. C., L. J. Adams, R. P. Littlejohn, J. F. Maddox and A. M. Crawford. 1994. Determination of evolutionary relationships among sheep breeds using microsatellites. Genom. 22:397-403.
2. Cavalli-Sforza, L. L. and A. W. F. Edwards. 1967. Phylogenetic analysis: Models and estimation procedures. Am. J. Hum. Genet. 19:233-257.
3. Cheng, H. H., I. Levin, R. L. Vallejo, H. Khatib, J. B. Dodgson, L. B. Crittenden and J. Hillel. 1995. Development of a genetic map of the chicken with markers of high utility. Poult. Sci. 74:1855-1874.
4. Cheng, G. H., X. S. Wu, D. Q. Wang, J. Qin, S. L. Wu, Q. L. Zhou, F. Xie, R. Cheng, Q. Xu, B. Liu, X. Y. Zhang and O. Olowofeso. 2004. Cluster analysis of 12 Chinese native chicken populations using microsatellite markers. Asian-Aust. J. Anim. Sci. 17:1047-1052.
5. Crooijmans, R. P. M. A., A. B. F. Groen, A. J. A. van Kampen, Van der S. Beek, J. J. van Der Poel and M. A. M. Groenen. 1996. Microsatellite polymorphism in commercial broiler and layer lines estimated using pooled blood samples. Poult. Sci. 75:904-909.
6. Crooijmans, R. P. M. A., A. J. A. van Kampen, J. J. van der Poel and M. A. M. Groenen. 1993. Highly polymorphic microsatellite markers in poultry. Anim. Genet. 24:441-443.
7. Dorji, T., O. Hanotte, M. Arbenz, J. E. O. Rege and W. Roder. 2003. Genetic diversity of indigenous cattle populations in Bhutan: Implications for conservation. Asian-Aust. J. Anim. Sci. 16:946-951.
8. Emara, M. G., H. Kim, J. J. Zhu, R. R. Lapierre, N. Lakshmanan and H. S. Lillehoj. 2002. Genetic diversity at the major histocompatibility complex (B) and microsatellite loci in three commercial broiler pure lines. Poult. Sci. 81:1609-1617.
9. Goldstein, D. B. and D. D. Pollock. 1997. Launching microsatellites: A review of mutation processes and methods of phylogenetic inference. J. Hered. 88:335-342.
10. Goldstein, D. B., L. A. Ruiz, L. L. Cavalli-Sforza and M. W. Feldman. 1995. Genetic absolute dating based on microsatellites and the origin of modern humans. Proc. Natl. Acad. Sci. USA 92:6723-6727.
11. Groenen, M. A. M., H. H. Cheng, N. Bumstead, B. F. Benkel, W. E. Briles, T. Burke, D. W. Burt, L. B. Crittenden, J. Dodgson, J. Hillel, S. Lament, A. P. de Leon, M. Soller, H. Takahashi and A. Vignal. 2000. A consensus linkage map of the chicken genome. Genome Res. 10:137-147.
12. Hashiguchi, T., M. Tsuneyoshi, T. Nishida, H. Higashiuwatoko and E. Hiraoka. 1981. Phylogenetic relationships determined by the blood protein types of fowls (in Japanese with English summary). Jpn. J. Zootech. Sci. 52:713-729.
13. Hillel, J., M. A. Groenen, M. Tixier-Boichard, A. B. Korol, L. David, V. M. Kirzhner, T. Burke, A. Barre-Dirie, R. P. Crooijmans, K. Elo, M. W. Feldman, P. J. Freidlin, A. Maki-Tanila, M. Oortwijn, P. Thomson, A. Vignal, K. Wimmers and S. Weigend. 2003. Biodiversity of 52 chicken populations assessed by microsatellite typing of DNA pools. Genet. Sel. Evol. 35:533-557.
14. Japan Chicken Association. 2003. The guidebook of special meat-type chickens (in Japanese). Zenkoku-Shokuchou-Shinbun Co. Ltd., Tokyo.
15. Kuroda, N. and T. Yamaguchi. 1987. Japanese Chickens as Natural Monuments (in Japanese). Kyoikusha, Tokyo.
16. Lewontin, R. C. and J. L. Hubby. 1966. A molecular approach to the study of genetic heterozygosity in natural populations of Drosophila pseduobscura. Genet. 54:595-609.
17. MacHugh, D. E., R. T. Loftus, D. G. Barley, P. M. Sharp and P. Cunningham. 1994. Microsatellite DNA variation within and among European cattle breeds. Proc. Royal Soc. Lond. Series B. 256:25-31.
18. Martinez, A. M., J. V. Delgado, A. Rodero and J. L. Vega-pla. 2000. Genetic structure of the Iberian pig breed using microsatellite. Anim. Genet. 31:295-301.
19. Milligan, B. G., J. Leebens-Mack and A. E. Strand. 1994. Conservation genetics: Beyond the maintenance of marker diversity. Mol. Ecol. 3:423-435.
20. Mitsui, T. 1979. General View of Japanese Native Chickens (in Japanese). Petlife-Sha, Tokyo.
21. Nei, M. 1978. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genet. 89:583-590.
22. Nei, M., F. Tajima and Y. Tateno. 1983. Accuracy of estimated phylogenetic trees from molecular data: 2. Gene frequency data. J. Mol. Evol. 19:153-170.
23. Nishida, T., Y. Hayashi, T. Fujioka, I. Tsugiyama and K. Mochizuki. 1985a. Osteometric studies on the phylogenetic relationships of Japanese native fowls. Jpn. J. Vet. Sci. 47:25-37.
24. Nishida, T., Y. Hayashi and T. Hashiguchi. 1985b. Somatometrical studies on the morphological relationships of Japanese native fowls. Jpn. J. Zootech. Sci. 56:645-657.
25. Oana, H. 1951. The Histories of Japanese Native Chickens (in Japanese). Nihonkei-Kenkyusha, Tokyo.
26. Okabayashi, H., S. Kamiya and Y. Tanabe. 1998. Phylogenetic relationships among Japanese native chicken breeds based on blood protein polymorphism (in Japanese with English summary). Jpn. Poult. Sci. 35:173-181.
27. Okada, I. 1991. The native chicken of Japan. In Catalogue of the Native Poultry of Southeast Asia. (Ed. J. Bay-Petersen). Taiwan Livestock Research Institute, Tainan, pp. 3-35.
28. Okada, I., K. Toyokawa and I. Takayasu. 1980. Genetic relationships of some native chicken breeds in the northern Tohoku district of Japan (in Japanese with English summary). Jpn. Poult. Sci. 17:337-343.
29. Okada, I., Y. Yamamoto, T. Hashiguchi and S. Ito. 1984. Phylogenetic studies on the Japanese native breeds of chickens. Jpn. Poult. Sci. 21:318-329.
30. Okada, I., Y. Yamamoto, A. Shinjo, S. Kimura and H. Hiraoka. 1989. Studies of genetic differentiation within breeds of Japanese indigenous chickens. Jpn. Poult. Sci. 26:207-215.
31. Osman, A.-M. S., M. Sekino, M. Nishibori, Y. Kawamoto, K. Kinoshita, Y. Yamamoto and M. Tsudzuki. 2004. Genetic variability and relationships of Japanese native chickens assessed by means of microsatellite profiling approach - Focusing on the Oh-Shamo (Japanese Large Game) and its related breeds. J. Poult. Sci. 41:94-109.
32. Osman, S. A. M., M. Sekino, M. Nishibori, Y. Yamamoto and M. Tsudzuki. 2005. Genetic variability and relationships of native Japanese chickens assessed by microsatellite DNA profiling-Focusing on the breeds established in Kochi Prefecture, Japan. Asian-Aust. J. Anim. Sci. 18:755-761.
33. Osman, S. A. M., M. Sekino, T. Kuwayama, K. Kinoshita, M. Nishibori, Y. Yamamoto and M. Tsudzuki. 2006. Genetic variability and relationships of native Japanese chickens based on microsatellite DNA polymorphisms - Focusing on the Natural Monuments of Japan. J. Poult. Sci. 43:12-22.
34. Ota, T. 2001. DISPAN: Genetic distance and phylogenetic analysis (last modified May 19, 2001) http://www.bio.psu.edu/people/faculty/nei/lab/programs. html.
35. Page, R. D. M. 2001. TREEVIEW (last modified Sept 3, 2001) http://taxonomy.zoology.gla.ac.uk/rod.
36. Pandey, A. K., M. S. Tantia, D. Kumar, B. Misra, P. Choudhary and R. K. Vijh. 2002. Microsatellite analysis of three poultry breeds of India. Asian-Aust. J. Anim. Sci. 15:1536-1542.
37. Park, S. D. E. 2005. The Excel Microsatellite Toolkit (last modified May 5, 2005). http://oscar.gen.tcd.ie/~sdepark/ms-toolkit/
38. Paszek, A. A., G. H. Flickinger, L. Fontanesi, C. W. Beattie, G. A. Rohrer, A. L. Alexander and L. B. Schook. 1998. Evolutionary divergence with microsatellites. J. Mol. Evol. 46:121-126.
39. Petit, E., S. Aulagnier, D. Vaiman, C. Bouissou and B. Crouauroy. 1997. Microsatellite variation in a introduced mouflon population. J. Hered. 88:517-520.
40. Ponsuksili, S., K. Wimmers and P. Horst. 1996. Genetic variability in chickens using polymorphic microsatellite markers. Thai J. Agr. Sci. 29:571-580.
41. Roberts, V. 1997. British Pultry Standards. Blackwell Science Ltd., Oxford.
42. Saitou, N. and M. Nei. 1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
43. Sawada, Y. 1978. My grandfather, I, and Miyadi-dori (in Japanese). Nippon-no-Aigankei 55:8-9.
44. Schmid, M., I. Nanda, M. Guttenbach, C. Steinlein, M. Hoehn, M. Schartl, T. Haaf, S. Weigend, R. Fries, J. M. Buerstedde, K. Wimmers, D. W. Burt, J. Smith, S. A'Hara, A. Law, D. K. Griffin, N. Bumstead, J. Kaufman, P. A. Thomson, T. Burke, M. A. Groenen, R. P. Crooijmans, A. Vignal, V. Fillon, M. Morisson, F. Pitel, M. Tixier-Boichard, K. Ladjali-Mohammedi, J. Hillel, A. Maki-Tanila, H. H. Cheng, M. E. Delany, J. Burnside and S. Mizuno. 2000. First report on chicken genes and chromosomes 2000. Cytogenet. Cell Genet. 90:169-218.
45. Shriver, M. D., L. Jin, E. Boerwinkle, R. Deka and R. E. Ferrell. 1995. A novel measure of genetic distance for highly polymorphic tandem repeat loci. Mol. Biol. Evol. 12:914-920.
46. Takezaki, N. and M. Nei. 1996. Genetic distances and reconstruction of phylogenetic trees from microsatellite DNA. Genet. 144:389-399.
47. Tanabe, Y. and M. Mizutani. 1980. Studies on the phylogenetic relationships of the Japanese native fowl breeds: 3. Genetic distances among the 16 breeds based on 16 loci, and their dendrogram (in Japanese with English sumarry). Jpn. Poult. Sci. 17:116-121.
48. Tanabe, Y., T. Iida, H. Yoshino, A. Shinjo and S. Muramatsu. 1991. Studies on the phylogenetic relationships of the Japanese native fowl breeds: 5. The comparisons among native fowl breeds in Japan and its adjacent areas and European and American fowl breeds (in Japanese with English summary). Jpn. Poult. Sci. 28:266-277.
49. Tautz, D. 1989. Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res. 17:6463-6471.
50. Tsudzuki, M. 2003. Japanese native chickens. In The Relationship between Indigenous Animals and Humans in APEC Region. (Ed. H. L. Chang and Y. C. Huang). The Chinese Society of Animal Science, Taiwan, Tainan, pp. 91-116.
51. Vanhala, T., M. Tuiskula-Haavisto, K. Elo, J. Vilkki and A. A. Mäki-Tanil. 1998. Evaluation of genetic variability and genetic distances between eight chicken lines using microsatellite markers. Poult. Sci. 77:783-790.
52. van Marle-Köster, E. and L. H. Nel. 2000. Genetic characterization of native southern African chicken populations: Evaluation and selection of polymorphic microsatellite markers. South Afrc. J. Anim. Sci. 30:1-6.