Browse > Article
http://dx.doi.org/10.7744/cnujas.2012.39.2.211

DNA markers in chicken for breed discrimination  

Hoque, Md. Rashedul (Department of Animal Science and Biotechnology, Chungnam National University)
Lee, Seung-Hwan (Hanwoo Experiment Station, National Institute of Animal Science, RDA)
Lee, Jun-Heon (Department of Animal Science and Biotechnology, Chungnam National University)
Publication Information
Korean Journal of Agricultural Science / v.39, no.2, 2012 , pp. 211-217 More about this Journal
Abstract
There is an emerging interest in using DNA markers for breed identification in animals. This article reviews the breed identification markers in chicken, mainly developed in Chungnam National University, with particular emphasis on the mitochondrial DNA markers and the nuclear DNA markers including the SNPs in MHC region and the plumage color related MC1R markers. This information would be very useful for an appropriate conservation breeding program as well as for the establishment of molecular markers for chicken breed identifications.
Keywords
DNA marker; MC1R gene; Microsatellite; Mitochondrial DNA;
Citations & Related Records
Times Cited By KSCI : 3  (Citation Analysis)
연도 인용수 순위
1 Avise JC. 1994. Molecular Markers, Natural History and Evolution. Chapman and Hall, New York.
2 Baker AJ, Marshall HD. 1997. Mitochondrial control region sequences as tools for understanding evolution. In: Avian molecular evolution and systematic (Ed. D. P. Mindell). Academic press, San Diego. 51-82.
3 Berthouly-Salazar C, Rognon X, Nhu-Van T, Gely M, Vu-Chi C, Tixier-Biochard M, Bed'Hom B, Bruneau N, Verrier E, Maillard JC, Michaux JR. 2010. Vietnamese chickens: a gate towards Asian genetic diversity. BMC Genetics. 11: 53.
4 Bruford MW, Bradley DG, Luikart G. 2003. DNA markers reveal the complexity of livestock domestication. Nature Rev. Genet. 4: 900-910.   DOI   ScienceOn
5 Coble MD, Just RS, O'Callaghan JE, Letmanyi IH, Peterson CT, Irwin JA, Parsons TJ. 2004. Single nucleotide polymorphisms over the entire mtDNA genome that increase the power of forensic testing in Caucasians. Int. J. Legal Med. 117: 137-146.
6 Cuc NTK, Simianer H, Groeneveld LF, Weigend S. 2011. Multiple Maternal Lineages of Vietnamese Local Chicken Inferred by Mitochondrial DNA D-loop Sequences. Asian-Aust. J. Anim. Sci. 24(2): 155-161.
7 Dancause KN, Vilar MG, Steffy R, Lum JK. 2011. Characterizing Genetic Diversity of Contemporary Pacific Chicken Using Mitochondrial DNA Analyses. PLoS ONE. 6(2): e16843. doi:10.1371/journal.pone. 0016843.   DOI   ScienceOn
8 FAO. 2007. Status of animal genetic resources. In: The State of the World's Animal Genetic Resources for Food and Agriculture (Ed. by B. Rischkowsky & D. Pilling), pp. 23- 49. Commission on Genetic Resources for Food and Agriculture, Rome.
9 Fumihito A, Miyake T, Sumi S, Takada M, Ohno S, Kondo N. 1994. One subspecies of the red jungle fowl (Gallus gallus gallus) suYces as the matriarchic ancestor of all domestic breeds. Proc. Natl. Acad. Sci. USA. 91: 12505-12509.   DOI   ScienceOn
10 Fulton JE, Juul-Madsen HR, Ashwell CM, McCarron AM, Arthur JA. 2006. Molecular genotype identification of the Gallus gallus major histocompatibility complex. Immunogenetics. 58: 407-421.   DOI   ScienceOn
11 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: 6792-6795.   DOI   ScienceOn
12 Guo XL, Li XL, Li Y, Gu ZL, Zheng CS, Wei ZH, Wang JS, Zhou RY, Li LH, Zheng HQ. 2010. Genetic variation of chicken MC1R gene in different plumage colour populations. Br. Poult. Sci. 51(6): 734-739.   DOI   ScienceOn
13 Harpending HC, Batzer MA, Gurven M, Jorde LB, Rogers AR, Sherry ST. 1998. Genetic traces of ancient demography. Proc. Natl. Acad. Sci. USA. 95: 1961-1967.   DOI
14 Harumi T, Sano A, Minematsu T, Naito M. 2011. Allele-specific PCR and sequencing of the mitochondrial D-loop region in four layer breeds. Animal Science Journal. 82: 223-226.   DOI   ScienceOn
15 Hebert PDN, Cywinska A, Ball SL, DeWaard JR. 2003. Biological identifications through DNA barcodes. Proc. R. Soc. B. 270: 313-321.   DOI   ScienceOn
16 Hoque MR, Jung KC, Park BK, Choi KD, Lee JH. 2009. Genetic Variability of mtDNA D-loop Region in Korean Native Chickens. Korean J. Poult. Sci. 37(4): 323-328.   과학기술학회마을   DOI   ScienceOn
17 Kerje S, Lind J, Schutz K, Jensen P, Andersson L. 2003. Melanocortin 1- receptor (MC1R) mutations are associated with plumage colour in chicken. Anim. Genet. 34: 241-248.   DOI   ScienceOn
18 Hoque MR, Lee SH, Jung KC, Kang BS, Park MN, Lim HK, Choi KD, Lee JH. 2011. Discrimination of Korean Native Chicken Populations Using SNPs from mtDNA and MHC Polymorphisms. Asian-Aust. J. Anim. Sci. 24(12): 1637-1643.   과학기술학회마을   DOI   ScienceOn
19 International Chicken Genome Sequencing Consortium. 2004. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate volution. Nature. 432: 695-716.   DOI   ScienceOn
20 Kaufman J, Milne S, Gobel TWF, Walker BA, Jacob JP, Auffray C, Zoorob R, Beck S. 1999. The chicken B locus s a minimal essential major histocompatibility complex. Nature. 401: 923-925.   DOI   ScienceOn
21 Kijas JMH, Moller M, Plastow G, Andersson L. 2001. A rameshift mutation in MC1R and a high frequency of omatic reversions cause black spotting in pigs. Genetics. 158: 779-785.
22 Kijas JMH, Wales R, Tornsten A, Chardon P, Moller M, Andersson L. 1998. Melanocortin receptor 1 (MC1R) mutations and coat color in pigs. Genetics. 150: 1177-1185.
23 Klungland H, Vage DI, Gomez-Raya L, Adalsteinsson S, Lien S. 1995. The role of melanocyte-stimulating hormone MSH) receptor in bovine coat color determination. Mamm. Genome. 6: 636-639.   DOI   ScienceOn
24 Liu WY, Zhao CJ. 2010. Comprehensive Genetic Analysis with Mitochondrial DNA Data Reveals the Population Evolution Relationship Between Chinese Gamecocks and Their Neighboring Native Chicken Breeds. Asian J. Anim. Vet. Adv. 5(6): 388-401.   DOI
25 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: 374-382.   DOI   ScienceOn
26 Marklund L, Moller MJ, Sandberg K, Andersson L. 1996. A missense mutation in the gene for melanocyte-stimulating hormone receptor (MC1R) is ssociated with the chestnut coat color in horses. Mamm. Genome. 7: 895-899.   DOI   ScienceOn
27 Moore WS, Defilippis VR. 1997. The window of taxonomic esolution for phylogenies based on mitochondrial ytochrome b. In: Avian molecular evolution and ystematic (Ed. D. P. Mindell). Academic press, San Diego. 84-119.
28 Muchadeyi FC, Eling H, Simianer H, Wollny CB, Groeneveld E, Weigend S. 2008. Mitochondrial DNA D-loop sequences suggest a Southeast Asian and Indian origin of Zimbabwean village chickens. Anim. Genet. 39: 615-622.   DOI   ScienceOn
29 Newton JM, Wilkie AL, He L, Jordan SA, Metallinos DL, Holmes NG, Jackson IJ, Barsh GS. 2000. Melanocortin 1 receptor variation in the domestic dog. Mamm. Genome. 11: 24-30.   DOI   ScienceOn
30 Nijman IJ, Otsen M, Verkaar EL, de Ruijter C, Hanekamp E. 2003. Hybridization of banteng (Bos javanicus) and zebu (Bos indicus) revealed by mitochondrial DNA, satellite DNA, AFLP and microsatellites. Heredity. 90: 10-16.   DOI   ScienceOn
31 Niu D, Fu Y, Luo J, Ruan H, Yu XP, Chen G, Zhang YP. 2002. The origin and genetic diversity of Chinese native chicken breeds. Biochem. Genet. 40: 163-174.   DOI   ScienceOn
32 Oka T, Ino Y, Nomura K, Kawashima S, Kuwayama T, Hanada H, Amano T, Takada M, Takahata N, Hayashi Y, Akishinonomiya F. 2007. Analysis of mtDNA sequences shows Japanese native chickens have multiple origins. Anim. Genet. 38: 287-293.   DOI   ScienceOn
33 Takeuchi S, SuzukiI S, Hirose S, Yabuuchi M, Sato C, Yamamoto H, Takahashi S. 1996. Molecular cloning and sequence analysis of the chick melanocortin 1-receptor gene. Biochimica et Biophysica Acta. 1306: 122-126.   DOI   ScienceOn
34 Pirany N, Romanov MN, Ganpule SP, Dewagowda G, Prasad DT. 2007. Microsatellite analysis of genetic diversity in Indian chicken population. J. Poult. Sci. 44: 19-28.   DOI
35 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(5): 548-550.   DOI   ScienceOn
36 Silva P, Guan X, Ho-Shing O, Jones J, Xu J, Hui D, Notter D, Smith E. 2008. 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.
37 Tixier-Biochard M. 2011. What can genomics tell us about chicken domestication and selection? 9th Asia Pacific Poultry Conference. 32-41.
38 Vage DI, Klungland H, Lu D, Cone RD. 1999. Molecular and pharmacological characterization of dominant black coat color in sheep. Mamm. Genome. 10: 39-43.   DOI   ScienceOn
39 Vage DI, Lu D, Klungland H, Lien S, Adalsteinsson S, Cone RD. 1997. A nonepistatic interaction of agouti and extension in the fox, Vulpes vulpes. Nat. Genet. 15: 311-315.   DOI   ScienceOn
40 Vallone PM, Just RS, Coble MD, Butler JM, Parsons TJ. 2004. A multiplex allele specific primer extension assay for forensically informative SNPs distributed throughout the mitochondrial genome. Int. J. Legal Med. 118: 147-157.   DOI
41 Weigend S, Groeneveld LF, Eding H. 2010. Mitochondrial DNA D-loop sequence variation among clusters of diverse chicken populations. Proc. Int. Conf.: ISAG, Edinburgh. 26-30.07. 2010.
42 Zhang DX, Hewitt GM. 2003. Nuclear DNA analyses in genetic studies of populations: practice, problems and prospects. Mol. Ecol. 12: 563-584.   DOI   ScienceOn