Phylogeography and origin of Chinese domestic chicken

References

• Avise JC, Arnold J, Ball RM, Bermingham E, Lamb T, Neigel JE, Reeb CA, Saunders NC. (1987). Intraspecific phylogeography: The mitochondrial DNA bridge between population genetics and systematics. Annu Rev Ecol Syst 18:489--522
   Google Scholar
• Baker AJ, Marshall HD. (1997). Mitochondrial control region sequences as tools for understanding evolution. Avian Mol Evol Systemat. California, Academic Press
   Google Scholar
• Bandelt HJ, Forster P, Rohl A. (1999). Median-joining networks for inferring intraspecific phylogenies. Mol Biol Evol 16:37–48
   PubMed Web of Science ®Google Scholar
• Berthouly C, Bed’hom B, Tixier-Boichard M, Chen CF, Lee YP, Laloë D, Legros H, et al. (2008). Using molecular and multivariate methods to study the genetic diversity of local European and Asian chickens breeds. Anim Genet 39:121–9
   PubMed Web of Science ®Google Scholar
• Cadahía L, Negro JJ, Urios V. (2007). Low mitochondrial DNAdiversity in the endangered Bonelli’a eagle (Hieraaetus fasciatus) from SW Europe(Iberia) and NW Africa. J Ornithol 148:99–104
   Web of Science ®Google Scholar
• Dana N, Megens HJ, Crooijmans RP, Hanotte O, Mwacharo J, Groenen MA. (2010). Van Arendonk JA.East Asian contributions to Dutch traditional and western commercial chickens inferred from mtDNA analysis. Anim Genet 10:1365–2052
   Google Scholar
• Dancause KN, Vilar MG, Steffy R, Lum JK. (2011). Characterizing genetic diversity of contemporary pacific chickens using mitochondrial DNA analyses. PLoS One 2:e16843
   Google Scholar
• Darwin CR (1868) The variation of animals and plants under domestication. London: John Murray
   Google Scholar
• Excoffier LGL, Schneider S. (2005). Arlequin ver. 3.0: An integrated software package for population genetics data analysis. Evol Bioinform Online 1:47–50
   PubMed Web of Science ®Google Scholar
• Fu YX. (1997). Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics 147:915–25
   PubMed Web of Science ®Google Scholar
• Granevitze Z, Hillel J, Chen GH, Cuc NTK, Feldman M, Eding H, Weigend S. (2007). Genetic diversity within chicken populations from different continents and management histories. Anim Genet 38:576–83
   PubMed Web of Science ®Google Scholar
• Hall TA. (1999). BioEdit: A user-friendly biological sequence alignment editor and analysis program for windows 95/98/NT. Nucleic Acids Symp Ser 41:95–8
   Google Scholar
• Hammond K. (1996). The status of global farm animal genetic resources. Proceedings of the symposium on the economics of valuation and conservation of genetic resources for agriculture. Rome: Centre for International Studies on Economic Growth, Tor Vergata University
   Google Scholar
• Haunshi S, Basumatary R, Girish PS, Doley S, Bardoloi RK, Kumar A. (2009). Identification of chicken, duck, pigeon and pig meat by species-specific markers of mitochondrial origin. Meat Sci 83:454–9
   PubMed Web of Science ®Google Scholar
• Hie LK, Kaori K, Sayaka S, Hideo G, Masaru T, Naoyuki T, Yoko S, Fumihito A. (2010). The origin and genetic variation of domestic chickens with special reference to junglefowls Gallus g. gallus and G. varius. PLoS One 5:e10639
   Google Scholar
• Hillel J, Groenen MAM, Tixier-Boichard M, Korol AB, David L, Kirzhner VM, Burke T, et al. (2003). Biodiversity of 52 chicken populations assessed by microsatellite typing of DNA pools. Genet Sel Evol 35:533–57
   PubMed Web of Science ®Google Scholar
• Khaliq I, Tejedor T, Luis M, Monteagudo V, Riaz M, Khan AA. (2011). Mitochondrial DNA diversity in Francolinus pondicerianus interpositus (grey francolin, Galliformes) from Pakistan. Hereditas 148:70–6
   PubMed Web of Science ®Google Scholar
• Kirchman JJ, Franklin JD. (2007). Comparative phylogeography and genetic structure of Vanuatu birds: Control region variation in a rail, a dove, and a passerine. Mol Phylogenet Evol 43:14–23
   PubMed Web of Science ®Google Scholar
• Kumar S, Tamura K, Nei M. (2004). MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5:150–63
   PubMed Web of Science ®Google Scholar
• Liu YP, Wu GS, Yao YG, Miao YW, Luikart G, Baig M, Beja-Pereira A, et al. (2006). Multiple maternal origins of chickens: Out of the Asian jungles. Mol Phylogenet Evol 38:12–19
   PubMed Web of Science ®Google Scholar
• Luikart G, Gielly L, Excoffier L, Vigne JD, Bouvet J, Taberlet P. (2001). Multiple maternal origins and weak phylogeographic structure in domestic goats. Proc Natl Acad Sci U S A 98:5927–32
   PubMed Web of Science ®Google Scholar
• Mtileni BJ, Muchadeyi FC, Maiwashe A, Groeneveld E, Groeneveld LF, Dzama K, Weigend S. (2011). Genetic diversity and conservation of South African indigenous chicken populations. J Anim Breed Genet 128:209–18
   PubMed Web of Science ®Google Scholar
• Muchadeyi FC, Eding H, Wollny CBA, Groeneveld E, Makusa SM, Shamseldin R, Simianer H, Weigend S. (2007). Absence of population substructuring in Zimbabwe chicken ecotypes inferred using microsatellites analysis. Anim Genet 38:332–9
   PubMed Web of Science ®Google Scholar
• Mwacharo JM, Bjørnstad G, Mobegi V, Nomura K, Hanada H, Amano T, Jianlin H, Hanotte O. (2011). Mitochondrial DNA reveals multiple introductions of domestic chicken in East Africa. Mol Phylogenet Evol 58:374–82
   PubMed Web of Science ®Google Scholar
• Oka T, Ino Y, Nomura K, Kawashima S, Kuwayama T, Hanada H, Amano T, et al. (2007). Analysis of mtDNA sequences shows Japanese native chickens have multiple origins. Anim Genet 38:287–93
   PubMed Web of Science ®Google Scholar
• Pinard-Van Der Laan MH, Monvoisin JL, Pery P, Hamet N, Thomas M. (1998). Comparison of outbred lines of chickens for resistance to experimental infection with coccidiosis (Eimeria tenella). Poul Sci 77:185–91
   Web of Science ®Google Scholar
• Revay T, Bodzsar N, Mobegi VE, Hanotte O, Hidas A. (2010). Origin of Hungarian indigenous chicken breeds inferred from mitochondrial DNA D-loop sequences. Anim Genet 41:548–50
   PubMed Web of Science ®Google Scholar
• Sawai H, Kim HL, Kuno K, Suzuki S, Gotoh H, Takada M, Takahata N, Satta Y. (2010). The origin and genetic variation of domestic chickens with special reference to junglefowls Gallus g. Gallus and G. Varius. PLoS One 5:e10639
   PubMed Web of Science ®Google Scholar
• Storey AA, Athens JS, Bryant D, Carson M, Emery K, Defrance S, Higham C, et al. (2012). Investigating the global dispersal of chickens in prehistory using ancient mitochondrial DNA signatures. PLoS One 7:e39171
   PubMed Web of Science ®Google Scholar
• Wenink PW, Baker AJ, Tilanus MJ. (1994). Mitochondrial control-region in two shorebird species, the turnstone and the dunlin, and their utility in population genetic studies. Mol Biol Evol 11:22–31
   PubMed Web of Science ®Google Scholar
• West B, Zhou BX. (1988). Did chickens go north? New evidence for domestication. J Archaeol Sci 15:515–33
   Web of Science ®Google Scholar
• Zhang YP, Shi LM. (1993a). Phylogenetic relationships of macaques as inferred from restriction endonuclease analysis of mitochondrial DNA. Folia Primatol 60:7--17
   PubMedGoogle Scholar
• Zhang YP, Shi LM. (1993b). Phylogeny of the slow lories (genus Nycticebus): An approach using mitochondrial DNA restriction enzyme analysis. Int J Primatol 14:167--175
   Google Scholar