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Mitochondrial DNA Part A
DNA Mapping, Sequencing, and Analysis
Volume 28, 2017 - Issue 1
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Review Article

Mitochondrial DNA study in domestic chicken

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Pages 25-29 | Received 01 May 2015, Accepted 07 Oct 2015, Published online: 18 Dec 2015

References

  • Achilli A, Bonfiglio S, Olivieri A, Malusa A, Pala M, Kashani BH, Perego UA, et al. (2009). The multifaceted origin of taurine cattle reflected by the mitochondrial genome. PloS One 4:e5753.
  • Achilli A, Olivieri A, Pellecchia M, Uboldi C, Colli L, Al-Zahery N, Accetturo M, et al. (2008). Mitochondrial genomes of extinct aurochs survive in domestic cattle. Curr Biol 18:R157–8.
  • Achilli A, Olivieri A, Soares P, Lancioni H, Kashani BH, Perego UA, Nergadze SG, et al. (2012). Mitochondrial genomes from modern horses reveal the major haplogroups that underwent domestication. Proc Natl Acad Sci 109:2449–54.
  • Al-Qamashoui B, Al-Ansari A, Simianer H, Weigend S, Mahgoub O, Costa V, Weigend A, et al. (2014). From India to Africa across Arabia: An mtDNA assessment of the origins and dispersal of chicken around the Indian Ocean Rim. In: Towards Conservation of Omani Local Chicken: Management. Performance and Genetic Diversity, vol. 43.
  • Altshuler DL, Dudley R. (2006). The physiology and biomechanics of avian flight at high altitude. Integr Comp Biol 46:62–71.
  • Bao H, Zhao C, Li J, Wu C. (2007). Association of MT‐ND5 gene variation with mitochondrial respiratory control ratio and NADH dehydrogenase activity in Tibet chicken embryos. Anim Genet 38:514–16.
  • Bao H, Zhao C, Li J, Wu C. (2008a). Sequencing and alignment of mitochondrial genomes of Tibetan chicken and two lowland chicken breeds. Sci China C Life Sci 51:47–51.
  • Bao H, Zhao C, Zhang L, Li J, Wu C. (2008b). Single-nucleotide polymorphisms of mitochondrially coded subunit genes of cytochrome c oxidase in five chicken breeds. Mitochondrial DNA 19:461–4.
  • Bhuiyan M, Chen S, Faruque S, Bhuiyan A, Beja-Pereira A. (2013). Genetic diversity and maternal origin of Bangladeshi chicken. Mol Biol Rep 40:4123–8.
  • Bonfiglio S, Achilli A, Olivieri A, Negrini R, Colli L, Liotta L, Ajmone-Marsan P, et al. (2010). The enigmatic origin of bovine mtDNA haplogroup R: Sporadic interbreeding or an independent event of Bos primigenius domestication in Italy? PloS One 5:e15760.
  • Broughton RE, Milam JE, Roe BA. (2001). The complete sequence of the zebrafish (Danio rerio) mitochondrial genome and evolutionary patterns in vertebrate mitochondrial DNA. Genome Res 11:1958–67.
  • Chaix L. (2001). The origins and development of African livestock. In: Blench RM, Macdonald KC, editors. Archaeology, genetics, linguistics and ethnography. University College London Press, Taylor & Francis Group, 2000. 546 p. WileyOnlineLibrary.
  • Chandel NS, Schumacker PT. (2000). Cellular oxygen sensing by mitochondria: Old questions, new insight. J Appl Physiol 88:1880–9.
  • Chang YS, Huang FL, Lo TB. (1994). The complete nucleotide sequence and gene organization of carp (Cyprinus carpio) mitochondrial genome. J Mol Evol 38:138–55.
  • Crawford RD. (1990). Poultry breeding and genetics. Amsterdam: Elsevier.
  • Desjardins P, Morais R. (1990). Sequence and gene organization of the chicken mitochondrial genome. A novel gene order in higher vertebrates. J Mol Biol 212:599–634.
  • Englund T, Stromstedt L, Johansson AM. (2014). Relatedness and diversity of nine Swedish local chicken breeds as indicated by the mtDNAD-loop. Hereditas 151:229–33.
  • Flink LG, Allen R, Barnett R, Malmstrm H, Peters J, Eriksson J, Andersson L, et al. (2014). Establishing the validity of domestication genes using DNA from ancient chickens. Proc Natl Acad Sci 111:6184–9.
  • Fumihito A, Miyake T, Sumi S, Takada M, Ohno S, Kondo N. (1994). One subspecies of the red junglefowl (Gallus gallus gallus) suffices as the matriarchic ancestor of all domestic breeds. Proc Natl Acad Sci 91:12505–9.
  • Fumihito A, Miyake T, Takada M, Shingu R, Endo T, Gojobori T, Kondo N, Ohno S. (1996). Monophyletic origin and unique dispersal patterns of domestic fowls. Proc Natl Acad Sci USA 93:6792–5.
  • Galtier N, Nabholz B, Glémin S, Hurst GD. (2009). Mitochondrial DNA as a marker of molecular diversity: A reappraisal. Mol Ecol 18:4541–50.
  • Hunt TL, Lipo CP. (2006). Late colonization of Easter island. Science 311:1603–6.
  • Kiple KF, Ornelas KC. (2000). The Cambridge world history of food. Cambridge: Cambridge University Press.
  • Kirch PV. (2000). On the road of the winds: An archaeological history of the Pacific Islands before European contact. California: University of California Press.
  • Kryger KN, Thomsen K, Whyte M, Dissing M. (2010). Small holder poultry production: Livelihoods, food security and sociocultural significance. Quebec City, Canada: Food and Agriculture Organization of the United Nations, FAO.
  • Larson G, Li U, Zhao R, Yuan X, Fuller J, Barton D, (2010). Patterns of East Asian pig domestication, migration, and turnover revealed by modern and ancient DNA. Proc Natl Acad Sci USA 107:7686–91.
  • Lemonde H, Rahman S. (2015). Inherited mitochondrial disease. Paediatr Child Health 25:133–8.
  • 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.
  • Miao Y, Peng M, Wu G, Ouyang Y, Yang Z, Yu N, Liang J, et al. (2013). Chicken domestication: An updated perspective based on mitochondrial genomes. Heredity 110:277–82.
  • Muchadeyi F, Eding H, Simianer H, Wollny C, Groeneveld E, Weigend S. (2008). Mitochondrial DNA D‐loop sequences suggest a Southeast Asian and Indian origin of Zimbabwean village chickens. Anim Genet 39:615–22.
  • Mwacharo JM, Bjornstad 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.
  • 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.
  • Ottoni C, Flink LG, Evin A, Gerg C, Eecupere B, Vanneer W, Bartosiewicz L, et al. (2012). Pig domestication and human-mediated dispersal in western Eurasia revealed through ancient DNA and geometric morphometrics. Mol Biol Evol 30:824–32.
  • Pang JF, Kluetsch C, Zou XJ, Zhang AB, Luo LY, Angleby H, Ardalan A, et al. (2009). mtDNA data indicate a single origin for dogs south of Yangtze River, less than 16,300 years ago, from numerous wolves. Mol Biol Evol 26:2849–64.
  • Peng MS, Shi NN, Yao YG, Zhang YP. (2015). Caveats about interpretation of ancient chicken mtDNAs from northern China. Proc Natl Acad Sci 112:E1970–1.
  • Pilling D, Rischkowsky B. (2007). The state of the world's animal genetic resources for food and agriculture. Cananda: Food & Agriculture Org
  • Scott GR. (2011). Elevated performance: The unique physiology of birds that fly at high altitudes. J Exp Biol 214:2455–62.
  • Scott GR, Milsom WK. (2006). Flying high: A theoretical analysis of the factors limiting exercise performance in birds at altitude. Respir Physiol Neurobiol 154:284–301.
  • Silva P, Guan X, Shing HO, Jones J, Xu J, Hui D, Notter D, Smith DE. (2009). Mitochondrial DNA-based analysis of genetic variation and relatedness among Sri Lankan indigenous chickens and the Ceylon junglefowl (Gallus lafayetti). Anim Genet 40:1–9.
  • Storey AA, Athens JS, Bryant D, Carson M, Emery K, Higham C, Huynen L, et al. (2012). Investigating the global dispersal of chickens in prehistory using ancient mitochondrial DNA signatures. PloS One 7:e39171.
  • Storey AA, Ramírez JM, Quiroz D, Burley DV, Addison DJ, Walter R, Anderson AJ, Hunt TL et al. (2007). Radiocarbon and DNA evidence for a pre-Columbian introduction of Polynesian chickens to Chile. Proc Natl Acad Sci USA 104:10335–9.
  • Sun J, Zhong H, Chen SY, Yao YG, Liu YP. (2013). Association between MT-CO3 haplotypes and high-altitude adaptation in Tibetan chicken. Gene 529:131–7.
  • Tabebi M, Mkaouar-Rebai E, Mnif M, Kallabi F, Mahmoud AB, Saad WB, Charfi N, et al. (2015). A novel mutation MT-COIII m. 9267G > C and MT-COI m. 5913G > A mutation in mitochondrial genes in a Tunisian family with maternally inherited diabetes and deafness (MIDD) associated with sever nephropathy. Biochem Biophys Res Commun 459:353–60.
  • Thalmann O, Shapiro B, Cui P, Schuenemann V, Sawyer S, Greenfield D, Germonpr M, et al. (2013). Complete mitochondrial genomes of ancient canids suggest a European origin of domestic dogs. Science 342:871–4.
  • Thomson VA, Lebrasseur O, Austin JJ, Hunt TL, Burney DA, Denham T, Rawlence NJ, et al. (2014). Using ancient DNA to study the origins and dispersal of ancestral Polynesian chickens across the Pacific. Proc Natl Acad Sci USA 111:4826–31.
  • Tzeng CS, Hui CF, Shen SC, Huang P. (1992). The complete nucleotide sequence of the Crossostoma lacustre mitochondrial genome: Conservation and variations among vertebrates. Nucleic Acids Res 20:4853–8.
  • Vanbruggen E, Borst P, Ruttenberg G, Gruber M, Kroon A. (1966). Circular mitochondrial DNA. Biochim Biophys Acta 119:437–9.
  • Viscomi C, Bottani E, Zeviani M. (2015). Emerging concepts in the therapy of mitochondrial disease. Biochim Biophys Acta 1847:544–57.
  • Wragg D, Mwacharo J, Alcalde J, Hocking P, Hanotte O. (2012). Analysis of genome-wide structure, diversity and fine mapping of Mendelian traits in traditional and village chickens. Heredity 109:6–18.
  • Wu GS, Yao YG, Qu KX, Ding ZL, Li H, Palanichamy MG, Duan ZY, et al. (2007). Population phylogenomic analysis of mitochondrial DNA in wild boars and domestic pigs revealed multiple domestication events in East Asia. Genome Biol 8:R245.
  • Wu Z, Kaiser P. (2011). Antigen presenting cells in a non-mammalian model system, the chicken. Immunobiology 216:1177–83.
  • Xiang H, Gao J, Yu B, Zhou H, Cai D, Zhang Y, Chen X, et al. (2014). Early Holocene chicken domestication in northern China. Proc Natl Acad Sci USA 111:17564–9.
  • Xiang H, Hofreiter M, Zhao X. (2015). Reply to Peng et al.: Archaeological contexts should not be ignored for early chicken domestication. Proc Natl Acad Sci USA 112:E1972–3.
  • Xie Z, Zhang Y, Deng X, Xie Z, Liu J, Huang L, Huang J, et al. (2015). Molecular characterization of the Cenxi classical three-buff chicken (Gallus gallus domesticus) based on mitochondrial DNA. Mitochondrial DNA 1–3.
  • Xu S, Luosang J, Hua S, He J, Ciren J, Wang A, Tong W, et al. (2007). High altitude adaptation and phylogenetic analysis of Tibetan horse based on the mitochondrial genome. J Genet Genomics 34:720–9.
  • Yan ML, Ding SP, Ye SH, Wang CG, He BL, Yuan ZD, Liu LL. (2014). The complete mitochondrial genome sequence of the Daweishan Mini chicken. Mitochondrial DNA 1–2.
  • Zhao X, Wu N, Zhu Q, Gaur U, Gu T, Li D. (2015). High-altitude adaptation of Tibetan chicken from MT-COI and ATP-6 perspective. Mitochondrial DNA 1–9.
  • Zhou T, Shen X, Irwin DM, Shen Y, Zhang Y. (2014). Mitogenomic analyses propose positive selection in mitochondrial genes for high-altitude adaptation in galliform birds. Mitochondrion 18:70–5.

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