Interpopulation and intrapopulation maternal lineage genetics of the Lanyu pig (Sus scrofa) by analysis of mitochondrial cytochrome b and control region sequences

Journal of Animal Science

Volumn 86, Issue 10, 2008, Pages 2461-2470

  Jiang, Y N ^a   Wu, C Y ^a   Huang, C Y ^a   Chu, H P ^b   Ke, M W ^a   Kung, M S ^a   Li, K Y ^a   Wang, C H ^b   Li, S H ^c   Wang, Y ^c   Ju, Y T ^a  

^a NATIONAL TAIWAN UNIVERSITY   (Taiwan)

^b Taiwan Livestock Research Institute   (Taiwan)

^c NATIONAL TAIWAN NORMAL UNIVERSITY   (Taiwan)

Author keywords

Control region; Cytochrome b; Genetic diversity; Lanyu pig; Mitochondrial DNA; Phylogenetic relationship

Indexed keywords

CYTOCHROME B; MITOCHONDRIAL DNA;

ANIMAL; ARTICLE; ENVIRONMENTAL PROTECTION; FEMALE; GENETIC VARIABILITY; GENETICS; MALE; NUCLEOTIDE SEQUENCE; PHYLOGENY; SWINE; TAIWAN;

ANIMALS; BASE SEQUENCE; CONSERVATION OF NATURAL RESOURCES; CYTOCHROMES B; DNA, MITOCHONDRIAL; FEMALE; GENETIC VARIATION; MALE; PHYLOGENY; SUS SCROFA; TAIWAN;

ANIMALIA; SUIDAE; SUS SCROFA;

EID: 54449088571     PISSN: 00218812     EISSN: None     Source Type: Journal    
DOI: 10.2527/jas.2007-0049     Document Type: Article

References (26)

1. Anderson, S., A. T. Bankier, B. G. Barrell, M. H. L. de Bruijn, A. R. Coulson, J. Drouin, I. C. Eperon, D. P. Nierlich, B. A. Roe, F. Sanger, P. H. Schreier, A. J. H. Smith, R. Staden, and I. G. Young. 1981. Sequence and organization of the human mitochondrial genome. Nature 290:457-464.
2. Chao, J. T., and K. Y. Fang. 1988. A preliminary study on the biology of Formosan wild pig, Sus scrofa taivanus. Taiwan J. Forest Sci. 3:353-362. (in Chinese)
3. Cheng, W. H., H. P. Chu, Y. N. Jiang, S. H. Li, Y. Wang, C. H. Chen, K. J. Chen, C. Y. Lin, and Y. T. Ju. Genetic variation and phylogenetics of Lanyu and exotic pig breeds in Taiwan analyzed by nineteen microsatellite markers. J. Anim. Sci. In press, doi:10.2527/jas.2007-0562
4. Chyr, S. C., K. J. Lin, H. L. Chang, T. S. Yang, and H. T. Yen. 2001. Guidelines in Animal Science - Swine Production. Chin. Soc. Anim. Sci. Publisher, Taipei, Taiwan.
5. Felsenstein, J. 2006. PHYLIP version 3.66 executables for Power-Mac. Univ. Washington, Seattle.
6. Gerber, A. S., R. Loggins, S. Kumar, and T. E. Bowling. 2001. Does nonneutral evolution shape observed patterns of DNA variation in animal mitochondrial genomes? Annu. Rev. Genet. 35:539-566.
7. Hein, J., and J. Stevlbaek. 1996. Combined DNA and protein alignment. Methods Enzymol. 266:402-418.
8. Kim, K I., J. H. Lee, K Li, Y. P. Zhang, S. S. Lee, J. Gongora, and C. Moran. 2002. Phylogenetic relationships of Asian and European pig breeds determined by mitochondrial DNA D-loop sequence polymorphism. Anim. Genet. 33:19-25.
9. Larson, G., T. Cucchi, M. Fujita, E. Matisoo-Smith, J. Robins, A. Anderson, B. Rolett, M. Spriggs, G. Dolman, T.-H. Kim, N. T. D. Thuy, E. Randi, M. Doherty, R. A. Due, R. Bolt, T. Djubiantono, B. Griffin, M. Intoh, E. Keane, P. Kirch, K.-T. Li, M. Morwood, L. M. Pedrina, P. J. Piper, R. J. Rabett, P. Shooter, G. Van den Bergh, E. West, S. Wickler, J. Yuan, A. Cooper, and K Dobney. 2007. Phylogeny and ancient DNA of Sus provides insights into neolithic expansion in island Southeast Asia and Oceania. Proc. Natl. Acad. Sci. USA 104:4834-4839.
10. Larson, G., K. Dobney, U. Albarella, M. Fang, E. Matisoo-Smith, J. Robins, S. Lowden, H. Finlayson, T. Brand, E. Willerslev, P. Rowley-Conwy, L. Andersson, and A. Cooper. 2005. Worldwide phylogeography of wild boar reveals multiple centers of pig domestication. Science 307:1618-1621.
11. Lin, C. S., Y. L. Sun, C. Y. Liu, P. C. Yang, L. C. Chang, I. C. Cheng, S. J. T. Mao, and M. C. Huang. 1999. Complete nucleotide sequence of pig (Sus scrofa) mitochondrial genome and dating evolutionary divergence within Artiodactyla. Gene 236:107-114.
12. Lucchini, V., E. Meijaard, C. H. Diong, C. P. Groves, and E. Randi. 2005. New phylogenetic perspectives among species of South-east Asian wild pig (Sus spp.) based on mtDNA sequences and morphometric data. J. Zool. (Lond.) 266:25-35.
13. Meijaard, E. 2003. Mammals of South-East Asian islands and their late Pleiostocene environments. J. Biogeogr. 30:1245-1257.
14. Ojala, D., J. Montoya, and G. Attardi. 1981. tRNA punctuation model of RNA processing in human mitochondria. Nature 290:470-474.
15. Posada, D., and K, A. Crandall. 1998. MODELTEST: Testing the model of DNA substitution. Bioinformatics 14:817-818.
16. Rozas, J., J. C. Sánchez-Delbarrio, X. Messeguer, and R. Rozas. 2003. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19:2496-2497.
17. Saccone, C., C. Gissi, C. Lanave, A. Larizza, G. Pesole, and A, Reyes. 2000. Evolution of the mitochondrial genetic system: An overview. Gene 261:153-159.
18. Saunders, M. A., and S. V. Edwards. 2000. Dynamics and phylogenetic implications of mtDNA control region sequences in New World Jays (Aves: Corvidae). J. Mol. Evol. 51:97-109.
19. Schmidt, H. A., K. Strimmer, M. Vingron, and A. von Haeseler. 2002. TREE-PUZZLE: Maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 18:502-504.
20. Strimmer, K., and A. von Haeseler. 1996. Quartet puzzling: A quartet maximum- likelihood method for reconstructing tree topologies. Mol. Biol. Evol. 13:964-969.
21. Swofford, D. L. 2002. PAUP*. Phylogenetic Analysis Using Parsimony (*and other Methods), version 4.0 B10. Sinauer Associates Inc. Sunderland, MA.
22. Ursing, B. M., and U. Arnason. 1998. The complete mitochondrial DNA sequence of the pig (Sus scrofa). J. Mol. Evol. 47:302-306.
23. Watanobe, T., N. Okumura, N. Isbiguro, M. Nakano, A. Matsui, M. Sahara, and M. Komatsu. 1999. Genetic relationship and distribution of the Japanese wild boar (Sue scrofa leucomystax) and Ryukyu wild boar (Sus scrofa riukiuanus) analysed by mitochondrial DNA. Mol. Ecol. 8:1509-1512.
24. Wolstenholme, D. R. 1992. Animal mitochondrial DNA: Structure and evolution. Int. Rev. Cytol. 141:173-216.
25. Wu, C. Y., Y. N. Jiang, H. P. Chu, S. H. Li, Y. Wang, Y. H. Li, Y. Chang, and Y. T. Ju. 2007. Type I Lanyu pig has a maternal genetic lineage distinct from Asian and European pigs. Anim. Genet. 38:499-505.
26. Yang, J., J. Wang, J. Kijas, B. Liu, H. Ran, M. Yu, H. Yang, S. Zhao, and K. Li. 2003. Genetic diversity present within the near-complete mtDNA genome of 17 breeds of indigenous Chinese pigs. J. Hered. 94:381-385.