한국가금학회지 (Korean Journal of Poultry Science)

  • 제42권1호
  • /
  • Pages.77-86
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  • 2015
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  • 1225-6625(pISSN)
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  • 2287-5387(eISSN)
한국가금학회 (The Korean Society of Poultry Science)
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Microsatellite와 SNP Marker를 이용한 한국재래닭의 유전적 연관지도 작성

Construction of Genetic Linkage Map using Microsatellite and SNP Markers in Korean Native Chicken

  • 서동원 (충남대학교 동물자원생명과학과) ;
  • 박희복 (충남대학교 동물자원생명과학과) ;
  • 최누리 (충남대학교 동물자원생명과학과) ;
  • 진실 (충남대학교 동물자원생명과학과) ;
  • 유채경 (경상대학교 농업생명과학연구원) ;
  • 술타나 (충남대학교 동물자원생명과학과) ;
  • 허강녕 (농촌진흥청 국립축산과학원 가금과) ;
  • 조철훈 (서울대학교 농생명공학부) ;
  • 이준헌 (충남대학교 동물자원생명과학과)
  • Seo, Dong Won (Department of Animal Science and Biotechnology, College of Agriculture and Life Sciences, Chungnam National University) ;
  • Park, Hee Bok (Department of Animal Science and Biotechnology, College of Agriculture and Life Sciences, Chungnam National University) ;
  • Choi, Nu Ri (Department of Animal Science and Biotechnology, College of Agriculture and Life Sciences, Chungnam National University) ;
  • Jin, Shil (Department of Animal Science and Biotechnology, College of Agriculture and Life Sciences, Chungnam National University) ;
  • Yoo, Chae Kyoung (Institute of Agriculture and Life Science, Gyeongsang National University) ;
  • Sultana, Hasina (Department of Animal Science and Biotechnology, College of Agriculture and Life Sciences, Chungnam National University) ;
  • Heo, Kang Nyeong (Poultry Science Division, National Institute of Animal Science, RDA) ;
  • Jo, Cheorun (Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Science, Seoul National University) ;
  • Lee, Jun Heon (Department of Animal Science and Biotechnology, College of Agriculture and Life Sciences, Chungnam National University)
  • 투고 : 2015.02.16
  • 심사 : 2015.03.12
  • 발행 : 2015.03.31
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초록

닭은 전체 염기서열의 길이가 포유류에 비해 3분의 1 정도로 비교적 작은 유전체를 가지고 있기 때문에 인간의 주요한 단백질 공급원으로써의 중요성뿐 아니라, 동물의 형질연관 유전자 연구 및 발생유전학적 연구에 좋은 모델 동물이다. 따라서 본 연구에서는 한국재래닭 이용성을 증대시키는 목적으로 한국재래닭의 유전적 구조를 이해하고, 다양한 응용연구의 토대를 마련하기 위하여 131개의 microsatellite (MS) 마커와 8개의 SNP 마커 유전자형을 이용하여 한국재래닭의 유전적 연관지도를 작성하였다. 그 결과, 한국재래닭의 유전 연관지도의 총 길이는 2729.4 cM으로 확인되었고, 연관지도 작성에 사용된 각 마커 간의 거리는 평균 19.64 cM으로 계산되었다. 모든 마커의 유전적 거리와 물리적 거리의 순서는 GGA8의 ADL0278과 MCW0351의 물리적 거리의 순서가 바뀐 결과만 제외하고, 이전의 연구결과와 매우 유사한 결과를 나타내었다. 또한 macrochromosome과 microchromosome의 재조합률을 비교해 본 결과, macrochromosome이 microchromosome보다 3.7배 크게 나타나, 이전에 보고와 유사한 결과를 나타내었다. 유전 연관지도의 암수에 따른 차이에서는 GGA1, 7, 13, 27의 네 개의 염색체에서 암, 수의 성별에 따른 차이를 나타내었다. 각 마커의 평균 대립유전자 수와 이형접합도(Hexp), 다형성(PIC) 수치는 각각 5.5, 0.63, 0.58로 유전적 지도를 작성하기에 충분하 다형성을 가진 것을 확인하였다. 따라서 본 연구의 결과는 한국재래닭의 유전적 구조를 이해하고, 유전체 QTL 연구와 같은 응용연구에 기초자료로써 유용하게 사용될 수 있을 것으로 사료된다.

Chicken is one of the major livestock, especially for supplying proteins to human. The chicken genome size is approximately one-third compared with that of the human genome and regarded as a valuable model animal for genetics and development biology. In this study, we constructed the genetic linkage map for Korean native chicken (KNC) using 131 microsatellite (MS) and 8 single nucleotide polymorphism (SNP) markers. As a result, the total map length was calculated as 2729.4 cM and the average genetic distance between markers was 19.64 cM. The marker orders and genetic distances were well matched with the consensus linkage map except for the physical order of ADL0278 and MCW0351 in GGA8. In addition, the recombination rates in marcrochromosomes were 3.7 times higher than that of microchromosomes. The average numbers of alleles, expected heterozygosity (Hexp) and polymorphic information content (PIC) values were calculated as 5.5, 0.63 and 0.58, respectively. These results will give useful information for the understanding of genetic structure and QTL studies in KNC.

키워드

참고문헌

  1. Bumstead N, Palyga J 1992 A preliminary linkage map of the chicken genome. Genomics 13(3):690-697. https://doi.org/10.1016/0888-7543(92)90143-G
  2. Cahyadi M, Seo DW, Choi NR, Jin S, Maharani D, Heo KN, Kang BS, Jo C, Lee JH 2013 FABP3 and FABP4 genes are the potential candidates for body weights in Korean Native Chicken. Korean J Poult Sci 40(2):91-96. https://doi.org/10.5536/KJPS.2013.40.2.091
  3. Cahyadi M, Seo DW, Jin S, Choi NR, Park HB, Heo KN, Kang BS, Jo C, Lee JH 2013 Association of SNPs in ODC and PRDM16 with body weight traits in Korean Native Chicken. Korean J Poult Sci 40(2):157-162. https://doi.org/10.5536/KJPS.2013.40.2.157
  4. Cheng HH, Levin I, Vallejo RL, Khatib H, Dodgson JB, Crittenden LB, Hillel J 1995 Development of a genetic-map of the chicken with markers of high utility. Poultry Sci 74:1855-1874. https://doi.org/10.3382/ps.0741855
  5. Choe JH, Jung S, Yun HJ 2010 Article: Differences in the quality characteristics between commercial Korean native chickens and broilers. Korean J Food Sci Ani Resour 30: 13-19. https://doi.org/10.5851/kosfa.2010.30.1.13
  6. Green P 1992 Construction and comparison of chromosome 21 radiation hybrid and linkage maps using CRI-MAP. Cytogenet Genome Res 59:122-124. https://doi.org/10.1159/000133221
  7. Groenen MAM, Crooijmans RPMA, Veenendaal A, Cheng HH, Siwek M, van der Poel JJ 1998 A comprehensive microsatellite linkage map of the chicken genome. Genomics 49:265-274. https://doi.org/10.1006/geno.1998.5225
  8. Groenen MAM, Cheng HH, Bumstead N, Benkel BF, Briles WE, Burke T, Burt DW, Crittenden LB, Dodgson J, Hillel J, Lamont S, de Leon AP, Soller M, Takahash, H, Vignal A 2000 A consensus linkage map of the chicken genome. Genome Res 10:137-147.
  9. Groenen MAM, Wahlberg P, Foglio M, Cheng HH, Megens HJ, Crooijmans RPMA, Besnier F, Lathrop M, Muir WM, Wong GKS, Gut I, Andersson L 2009 A high-density SNPbased linkage map of the chicken genome reveals sequence features correlated with recombination rate. Genome Res 19:510-519.
  10. Jacobsson L, Park HB, Wahlberg P, Jiang S, Siegel PB, Andersson L 2004 Assignment of fourteen microsatellite markers to the chicken linkage map. Poultry Sci 83:1825-1831. https://doi.org/10.1093/ps/83.11.1825
  11. Jin S, Park HB, Seo DW, Cahyadi M, Choi NR, Heo KN, Jo C, Lee JH 2014 Association of MC1R genotypes with shank color traits in Korean native chicken. Livestock Sci 170:1-7. https://doi.org/10.1016/j.livsci.2014.10.001
  12. Kerje S, Carlborg O, Jacobsson L, Schutz K, Hartmann C, Jensen P, Andersson L 2003 The twofold difference in adult size between the red junglefowl and White Leghorn chickens is largely explained by a limited number of QTLs. Animal Genetics 34:264-274. https://doi.org/10.1046/j.1365-2052.2003.01000.x
  13. Kim HK, Oh JD, Kang BS, Park MN, Chae EJ, Jung HM, Seo OS, Choe HS, Jeon GJ, Lee HK, Kong HS 2008 Potential allelic association of microsatellite markers on chromosome 1 with economic traits in Korean native chicken. Korean J Poult Sci 35(2):163-169. https://doi.org/10.5536/KJPS.2008.35.2.163
  14. 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 base on microsatellite markers. Korean J Poult Sci 38(2): 81-87. https://doi.org/10.5536/KJPS.2011.38.2.081
  15. Lee HK, Oh JD, Park CH, Lee KW, Lee JH, Jeon GJ, Kong HS 2010. Comparison for genetic diversity between Korean native commercial chicken brand groups using microsatellite markers. Korean J Poult Sci 37(4):355-360. https://doi.org/10.5536/KJPS.2010.37.4.355
  16. Levin I, Crittenden LB, Dodgson JB 1993 Genetic-map of the chicken Z-chromosome using random amplified polymorphic DNA (Rapd) markers. Genomics 16:224-230. https://doi.org/10.1006/geno.1993.1163
  17. Levin I, Santangelo L, Cheng H, Crittenden LB, Dodgson JB. 1994. An autosomal genetic-linkage map of the chicken. J Hered 85:79-85. https://doi.org/10.1093/oxfordjournals.jhered.a111427
  18. Marshall TC, Slate J, Kruuk LE, Pemberton JM 1998 Statistical confidence for likelihood-based paternity inference in natural populations. Mol Ecol 7:639-655. https://doi.org/10.1046/j.1365-294x.1998.00374.x
  19. Miller SA, Dykes DD, Polesky HF. 1988 A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res 16:1215-1215. https://doi.org/10.1093/nar/16.3.1215
  20. Schimid M, Nanda I, Guttenbach M, Steinlein C, Hoehn H, Schartl M, Haaf T, Weigend S, Fries R, Buerstedde JM, Wimmers K, Burt DW, Smith J, A'Hara S, Law A, Griffin DK, Bumestead N, Kaufman J, Thomson PA, Burke T, Groenen MAM, Crooijmans RPMA, Vignal A, Fillon V, Morisson M, Pitel F, Tixier-Boichard M, Ladjali-Mohammedi K, Hillel J, Maki-Tanila A, Cheng HH, Delany ME, Burnside J, Mizuno S 2000 First report on chicken genes and chromosomes 2000. Cytogenet Cell Genet 90:171-218.
  21. Voorrips RE 2002 Map chart: Software for the graphical presentation of linkage maps and QTLs. J Hered 93:77-78. https://doi.org/10.1093/jhered/93.1.77
  22. Wong GKS, Liu B, Wang J, Zhang Y, Yang X, Zhang Z, Meng Q, Zhou J, Li D, Zhang J 2004 A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature 432:717-722. https://doi.org/10.1038/nature03156

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  1. Genome scan linkage analysis identifies quantitative trait loci affecting serum clinical–chemical traits in Korean native chicken vol.43, pp.7, 2016, https://doi.org/10.1007/s11033-016-3994-y
  2. QTL analyses of general compound, color, and pH traits in breast and thigh muscles in Korean native chicken vol.182, 2015, https://doi.org/10.1016/j.livsci.2015.09.020
  3. The breeding history and commercial development of the Korean native chicken vol.73, pp.01, 2017, https://doi.org/10.1017/S004393391600088X
  4. Variance Component Quantitative Trait Locus Analysis for Body Weight Traits in Purebred Korean Native Chicken vol.29, pp.1, 2016, https://doi.org/10.5713/ajas.15.0193