Advanced SearchSearch Tips
DNA Markers for the Genetic Diversity in Korean Native Chicken Breeds: A Review
facebook(new window)  Pirnt(new window) E-mail(new window) Excel Download
  • Journal title : Korean Journal of Poultry Science
  • Volume 43, Issue 2,  2016, pp.63-76
  • Publisher : The Korean Society of Poultry Science
  • DOI : 10.5536/KJPS.2016.43.2.63
 Title & Authors
DNA Markers for the Genetic Diversity in Korean Native Chicken Breeds: A Review
Seo, Dongwon; Lee, Jun Heon;
  PDF(new window)
The genetic diversity of Korean native chicken is important for conservation of native chicken breeds and developing economically valuable traits in Korea. In this review, various types of genetic markers using Korean native chickens were investigated, which are mtDNA variations, microsatellite markers, markers in Major Histocompatibility Complex (MHC), and single nucleotide polymorphisms (SNPs). These genetic markers are suitable for breed discrimination and diversity studies because of their high polymorphism status. Thus, the purpose of this study was to summarize the genetic markers developed in the Korean native chickens and diversity studies using these breeds. Ultimately, these markers can be used for the future studies for understanding of genetic characteristics.
Korean native chicken;mtDNA;microsatellite;SNP;genetic diversity;
 Cited by
Botstein D, White RL, Skolnick M, Davis RW 1980 Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am J Hum Biol 32:314.

Cahyadi M, Seo D, Jin S, Choi N, Park HB, Heo KN, Lee JH 2013 Association of SNPs in ODC and PRDM16 with body weight rraits in Korean native chicken. Korean J Poult Sci 40:157-162. crossref(new window)

Chazara O, Chang CS, Bruneau N, Benabdeljelil K, Fotsa JC, Kayang BB, Chen CF 2013 Diversity and evolution of the highly polymorphic tandem repeat LEI0258 in the chicken MHC-B region. Immunogenetics 65:447-459. crossref(new window)

Cheng HH, Crittenden LB 1994 Microsatellite markers for genetic-mapping in the chicken. Poult Sci 73:539-546. crossref(new window)

Cho CY, Lee PY, Ko YG, Kim HK, Park MN, Yeon SH 2011 Multiple maternal origins of Korean native chicken based on the mtDNA D-loop variation. Korean J Poult Sci 38:5-12. crossref(new window)

Choi NR, Hoque M, Seo DW, Sultana H, Park HB, Lim HT, Lee JH 2012 ISAG-recommended microsatellite marker analysis among five Korean native chicken lines. Korean J Anim Sci Tec 54:401-409. crossref(new window)

Choi JA, Lee JH, Jang HJ, L KT, Kim TH, Lee HJ, Heo KN, Kim CD, Han JY, Park MN 2014 Genetic variations of chicken TYR gene and associations with feather color of Korean native chicken (KNC). Korean J Poult Sci 41:5-14.

Choi NR, Seo DW, Ben Jemaa S, Sultana H, Heo KN, Jo C, Lee JH 2015 Discrimination of the commercial Korean native chicken population using microsatellite markers. Korea J Anim Sci Tec 57:5. crossref(new window)

Cummins JM 2000 Fertilization and elimination of the paternal mitochondrial genome. Hum Reprod 15:92-101. crossref(new window)

Fulton JE, Lund AR, McCarron AM, Pinegar KN, Korver DR, Classen HL, Berres ME 2016 MHC variability in heritage breeds of chickens. Poult Sci 95:393-399. crossref(new window)

Groenen MA, Megens HJ, Zare Y, Warren WC, Hillier LW, Crooijmans RP, Cheng HH 2011 The development and characterization of a 60K SNP chip for chicken. BMC Genomics 12:1. crossref(new window)

Hares DR 2012 Expanding the CODIS core loci in the United States. Forensic Sci Int-Gen 6:52-54. crossref(new window)

Hebert PDN, Cywinska A, Ball SL, DeWaard JR 2003 Biological identifications through DNA barcodes. P R Soc Lond B Biol Sci 270:313-321. crossref(new window)

Heo KN, Choo HJ, Seo BY, Park MN, Jung KC, Hwang BJ, Kang BS 2011 Investigation of TYR and MC1R polymorphisms in Korean native chickens and the commercial chickens. CNU J Agric Sci 38:465-471.

Hoque M, Jung KC, Park BK, Choi KD, Lee JH 2009 Genetic variability of mtDNA D-loop region in Korean native chickens. Korean J Poult Sci 36:323-328. crossref(new window)

Hoque MR, Lee SH, Jung KC, Kang BS, Park MN, Lim HK, Lee JH 2011 Discrimination of Korean native chicken populations using SNPs from mtDNA and MHC polymorphisms. Asian-Aust J Anim Sci 24:1637-1643. crossref(new window)

Hoque MR, Choi NR, Sultana H, Kang BS, Heo KN, Hong SK, Lee JH 2013a Phylogenetic analysis of a privatelyowned Korean native chicken population using mtDNA D-loop variations. Asian-Aust J Anim Sci 26: 157-162. crossref(new window)

Hoque MR, Seo DW, Jo C, Gotoh T, Lee JH 2013b Reconstruction of phylogenetic relationships of Korean chickens using mitochondrial D-loop sequences. J Fac Agr, Kyushu Univ 58:287-293.

Hoque MR, Jin S, Heo KN, Kang BS, Jo C, Lee JH 2013c Investigation of MC1R SNPs and their relationships with plumage colors in Korean native chicken. Asian-Aust J Anim Sci 26:625-629. crossref(new window)

ISAG/FAO Standing Committee 2004 Secondary guidelines for development of national farm animal genetic resources management plans. Measurement of Domestic Animal Diversity (MoDAD): Recommended Microsatellite markers.

Jin SD, Seo DW, Sim JM, Baek WK, Jung KC, Jang BK, Lee JH 2009 Single nucleotide polymorphism analysis of the COI gene in Korean native chicken. Korean J Poult Sci 36:85-88. crossref(new window)

Jin S, Park HB, Seo DW, Cahyadi M, Choi NR, Heo KN, Lee JH 2014 Association of MC1R genotypes with shank color traits in Korean native chicken. Livest Sci 170:1-7. crossref(new window)

Jung KC, Hoque M, Seo DW, Park BK, Choi KD, Lee JH 2009 Genotype analysis of the major histocompatibility complex region in Korean native chicken. Korean J Poult Sci 36:317-322. crossref(new window)

Kaya M, Yildiz MA 2008 Genetic diversity among Turkish native chickens, denizli and gerze, estimated by microsatellite markers. Biochem Genet 46:480-491. crossref(new window)

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. crossref(new window)

Kim MH, Seo DS, Ko Y 2004 Relationship between egg productivity and insulin-like growth factor-I genotypes in Korean native Ogol chickens. Poult Sci 83:1203-1208. crossref(new window)

Kim BK, Byun YH, Ha JJ, Jung DJ, Lee YS, Hyeong KE, Yeo JS, Oh DY 2014 Identification of SNP(Single nucleotide polymorphism) from MC1R, MITF and TYRP1 associated with feather color in chicken. Korean J Poult Sci 41:29-37. crossref(new window)

Komiyama T, Ikeo K, Gojobori T 2003 Where is the origin of the Japanese gamecock? Gene 317:195-202. crossref(new window)

Kong HS, Oh JD, Lee JH, Jo KJ, Sang BD, Choi CH, Lee HK 2006 Genetic variation and relationships of Korean native chickens and foreign breeds using 15 microsatellite markers. Asian-Aust J Anim Sci 19:1546-1550. crossref(new window)

Kranis A, Gheyas AA, Boschiero C, Turner F, Yu L, Smith S, Hocking PM 2013 Development of a high density 600K SNP genotyping array for chicken. BMC Genomics 14:59. crossref(new window)

Lee HK, Oh JD, Park CH, Lee KW, Lee JH, Jeon GJ, Kong HS 2010a Comparison for genetic diversity between Korean native commercial chicken brand groups using microsatellite markers. Korean J Poult Sci 37:355-360. crossref(new window)

Lee KW, Oh JD, Lee JA, Cho KH, Nam IS, Lee JH, Kong HS 2010b Estimation of genetic characteristic and cumulative power of discrimination using the microsatellite markers in Korean native chicken. Korean J Poult Sci 37:81-87. crossref(new window)

Lee PY, Yeon SH, Kim JH, Ko YG, Son JK, Lee HH, Cho CY 2011 Genetic composition of Korean native chicken populations-National scale molecular genetic evaluation based on microsatellite markers. Korean J Poult Sci 38: 81-87. crossref(new window)

Lee YJ, Bhuiyan MSA, Chung HJ, Jung WY, Choi KD, Jang BG, Lee JH 2007. Mitochondrial DNA diversity of Korean Ogol chicken. Asian-Aust J Anim Sci 20:477-481. crossref(new window)

Liu YP, Wu GS, Yao YG, Miao YW, Luikart G, Baig M, Pereira AB, Ding ZL, Palanichamy MG, Zhang YP 2006 Multiple maternal origins of chickens: Out of the Asian jungles. Mol Phylogenet Evol 38:12-19. crossref(new window)

Marklund L, Moller MJ, Sandberg K, Andersson L 1996 A missense mutation in the gene for melanocyte-stimulating hormone receptor (MCIR) is associated with the chestnut coat color in horses. Mamm Genome 7:895-899. crossref(new window)

Muir WM, Wong GKS, Zhang Y, Wang J, Groenen MA, Crooijmans RP, Jungerius A 2008 Genome-wide assessment of worldwide chicken SNP genetic diversity indicates significant absence of rare alleles in commercial breeds. P Natl Acad Sci 105:17312-17317. crossref(new window)

Nguyen-Phuc H, Fulton JE, Berres ME 2016 Genetic variation of major histocompatibility complex (MHC) in wild Red Junglefowl (Gallus gallus). Poult Sci 95:400-411. crossref(new window)

Notter DR 1999 The importance of genetic diversity in livestock populations of the future. J Anim Sci 77:61-69. crossref(new window)

Oh JD, Kang BS, Kim HK, Park MN, Chae EJ, Seo OS, Kong HS 2009 Genetic relationship between populations and analysis of genetic structure in the Korean native chicken and the endemic chicken breeds. Korean J Poult Sci 35: 361-366. crossref(new window)

Park MN, Kim TH, Lee HJ, Choi J, Heo KN, Kim CD, Lee KT 2013 Genetic variations of chicken MC1R gene and associations with feather color of Korean native chicken (KNC) 'Woorimatdag'. Korean J Poult Sci 40: 139-145. crossref(new window)

Reed DH, Frankham R 2003 Correlation between fitness and genetic diversity. Conserv Biol 17:230-237. crossref(new window)

Seo DW, Hoque MR, Choi NR, Sultana H, Park HB, Heo KN, Lee JH 2013 Discrimination of Korean native chicken lines using fifteen selected microsatellite markers. Asian-Aust J Anim Sci 26:316-322. crossref(new window)

Seo DW, Oh JD, Jin S, Song KD, Park HB, Heo KN, Lee HK 2015a Single nucleotide polymorphism analysis of Korean native chickens using next generation sequencing data. Mol Biol Rep 42:471-477. crossref(new window)

Seo JH, Oh JD, Lee JH, Seo DW, Seo DW, Kong HS 2015b Studies on genetic diversity and phylogenetic relationships of Korean native chicken using the microsatellite marker. Korean J Poult Sci 42:15-26. crossref(new window)

Suh S, Cho CY, Kim JH, Choi SB, Kim YS, Kim H, Ko YG 2013 Analysis of genetic characteristics and probability of individual discrimination in Korean indigenous chicken brands by microsatellite marker. Korean J Anim Sci Tec 55:185-194. crossref(new window)

Suh S, Sharma A, Lee S, Cho CY, Kim JH, Choi SB, Ko YG 2014 Genetic diversity and relationships of Korean chicken breeds based on 30 microsatellite markers. Asian-Aust J Anim Sci 27:1399-1405. crossref(new window)

Sultana H, Hoque M, Seo DW, Kang BS, Heo KN, Jo C, Lee JH 2012 Mitochondrial D-loop variations for discrimination of commercial Korean native chicken populations. Korean J Poult Sci 39:311-315. crossref(new window)

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. crossref(new window)

Venetsky A, Levy-Zamir A, Khasdan V, Domb K, Kashkush K 2015 Structure and extent of DNA methylation-based epigenetic variation in wild emmer wheat (T. turgidum ssp. dicoccoides) populations. BMC Plant Biol 15:1. crossref(new window)

Wallis JW, Aerts J, Groenen MA, Crooijmans RP, Layman D, Graves TA, Cardenas M 2004 A physical map of the chicken genome. Nature 432:761-764. crossref(new window)

Wang X, Chen H, Lei CZ 2007 Genetic diversity and phylogenetic analysis of the mtDNA D-loop region in Tibetan sheep. Asian-Aust J Anim Sci 20:313-315. crossref(new window)

Yi G, Qu L, Liu J, Yan Y, Xu G, Yang N 2014 Genomewide patterns of copy number variation in the diversified chicken genomes using next-generation sequencing. BMC Genomics 15:962. crossref(new window)

Zoorob R, Briles WE 2004 Nomenclature for the chicken major histocompatibility (B and Y) complex. Immunogenetics 56: 261279.