Chapter 11 – Marker-<strong>assisted</strong> <strong>selection</strong> <strong>in</strong> poultry 195de Kon<strong>in</strong>g, D.J., W<strong>in</strong>dsor, D., Hock<strong>in</strong>g, P.M., Burt, D.W., Law, A., Haley, C.S., Morris, A., V<strong>in</strong>cent,J. & Griff<strong>in</strong>, H. 2003. Quantitative trait locus detection <strong>in</strong> commercial broiler l<strong>in</strong>es us<strong>in</strong>g candidateregions. J. Anim. Sci. 81:1158–1165.Dekkers, J.C.M. 2004. Commercial application of <strong>marker</strong>- and gene-<strong>assisted</strong> <strong>selection</strong> <strong>in</strong> livestock:strategies and lessons. J. Anim. Sc. 82 E-Suppl: E313–E328.Dunn, I.C., Miao, Y.W., Morris, A., Romanov, M.N., Wilson, P.W. & Wadd<strong>in</strong>gton, D. 2004. A studyof association between genetic <strong>marker</strong>s <strong>in</strong> candidate genes and reproductive traits <strong>in</strong> one generationof a commercial broiler breeder hen population. Heredity 92: 128–134.Evans, G.J., Giuffra, E., Sanchez, A., Kerje, S., Davalos, G., Vidal, O., Illan, S., Noguera, J.L.,Varona, L., Velander, I., Southwood, O.I., de Kon<strong>in</strong>g, D.J., Haley, C.S., Plastow, G.S. &Andersson, L. 2003. Identification of quantitative trait loci for production traits <strong>in</strong> commercial pigpopulations. Genetics 164: 621–627.Feng, X.P., Kuhnle<strong>in</strong>, U., Aggrey, S.E., Gavora, J.S. & Zadworny, D. 1997. Trait association ofgenetic <strong>marker</strong>s <strong>in</strong> the growth hormone and the growth hormone receptor gene <strong>in</strong> a White Leghornstra<strong>in</strong>. Poultry Science 76: 1770–1775.Feng, X.P., Kuhnle<strong>in</strong>, U., Fairfull, R.W., Aggrey, S.E., Yao, J. & Zadworny, D. 1998. A genetic<strong>marker</strong> <strong>in</strong> the growth hormone receptor gene associated with body weight <strong>in</strong> chickens. J. Heredity89: 355–359.Flock, D.K. & Preis<strong>in</strong>ger, R. 2002. Breed<strong>in</strong>g plans for poultry with emphasis on susta<strong>in</strong>ability. 7thWorld Congress on Genetics Applied to Livestock Production, 19–23 August, 2002, Montpellier,France, Session 24: Susta<strong>in</strong>able breed<strong>in</strong>g plans <strong>in</strong> developed countries. Communication 24-02.Fotouhi, N., Karatzas, C.N., Kuhnle<strong>in</strong>, U. & Zadworny, D. 1993. Identification of growth-hormoneDNA polymorphisms which respond to divergent <strong>selection</strong> for abdom<strong>in</strong>al fat-content <strong>in</strong>chickens. Theor. Appl. Genet. 85: 931–936.Groenen, M.A., Cheng, H.H., Bumstead, N., Benkel, B.F., Briles, W.E., Burke, T., Burt, D.W.,Crittenden, L.B., Dodgson, J., Hillel, J., Lamont, S., de Leon, A.P., Soller, M., Takahashi, H. &Vignal, A. 2000. A consensus l<strong>in</strong>kage map of the chicken genome. Genome Research 10: 137–147.Groenen, M.A., Crooijmans, R.P., Veenendaal, A., Cheng, H.H., Siwek, M. & van der Poel, J.J.1998. A comprehensive microsatellite l<strong>in</strong>kage map of the chicken genome. Genomics 49: 265–274.Hillier, L.W., Miller, W., Birney, E., Warren, W., Hardison, R.C., Pont<strong>in</strong>g, C.P., Bork, P., Burt,D.W., Groenen, M.A., Delany, M.E., Dodgson, .J.B., Ch<strong>in</strong>walla, A.T., Cliften, P.F., Clifton,S.W., Delehaunty, K.D., Fronick, C., Fulton, R.S., Graves, T.A., Kremitzki, C., Layman, D.,Magr<strong>in</strong>i, V., McPherson, J.D., M<strong>in</strong>er, T.L., M<strong>in</strong>x, P., Nash, W.E., Nhan, M.N., Nelson, J.O.,Oddy, L.G., Pohl, C.S., Randall-Maher, J., Smith, S.M., Wallis, J.W., Yang, S.P., Romanov,M.N., Rondelli, C.M., Paton, B., Smith, J., Morrice, D., Daniels, L., Tempest, H.G., Robertson,L., Masabanda, J.S., Griff<strong>in</strong>, D.K., Vignal, A., Fillon, V., Jacobbson, L., Kerje, S., Andersson,L., Crooijmans, R.P., Aerts, J., van der Poel, J.J., Ellegren, H.. Caldwell, R.B., Hubbard, S.J.,Grafham, D.V., Kierzek, A.M., McLaren, S.R., Overton, I.M., Arakawa, H., Beattie, K.J.,Bezzubov, Y., Boardman, P.E., Bonfield, J.K., Cron<strong>in</strong>g, M.D., Davies, R.M., Francis, M.D.,Humphray, S.J., Scott, C.E., Taylor, R.G., Tickle, C., Brown, W.R., Rogers, J., Buerstedde, J.M.,Wilson, S.A., Stubbs, L., Ovcharenko, I., Gordon, L., Lucas, S., Miller, M.M., Inoko, H., Shi<strong>in</strong>a,T., Kaufman, J., Salomonsen, J., Skjoedt, K., Wong, G.K., Wang, J., Liu, B., Wang, J., Yu, J.,Yang, H., Nefedov, M., Koriab<strong>in</strong>e, M., Dejong, P.J., Goodstadt, L., Webber, C., Dickens, N.J.,Letunic, I., Suyama, M., Torrents, D., Von, M.C., Zdobnov, E.M., Makova, K., Nekrutenko, A.,
196Marker-<strong>assisted</strong> <strong>selection</strong> – Current status and future perspectives <strong>in</strong> crops, livestock, forestry and fishElnitski, L., Eswara, P., K<strong>in</strong>g, D.C., Yang, S., Tyekucheva, S., Radakrishnan, A., Harris, R.S.,Chiaromonte, F., Taylor, J., He, J., Rijnkels, M., Griffiths-Jones, S., Ureta-Vidal A., Hoffman,M.M., Sever<strong>in</strong>, J., Searle, S.M., Law, A.S., Speed, D., Wadd<strong>in</strong>gton, D., Cheng, Z., Tuzun, E.,Eichler, E., Bao, Z., Flicek, P., Shteynberg, D.D., Brent, M.R., Bye, J.M., Huckle, E.J., Chatterji,S., Dewey, C., Pachter, L., Kouranov, A., Mourelatos, Z., Hatzigeorgiou, A.G., Paterson, A.H.,Ivarie, R., Brandstrom, M., Axelsson, E., Backstrom, N., Berl<strong>in</strong>, S.,Webster, M.T., Pourquie, O.,Reymond, A., Ucla, C., Antonarakis, S.E., Long, M.J.J., Emerson, J.J Betran, E., Dupanloup,I., Kaessmann, H., H<strong>in</strong>richs, A.S., Bejerano, G., Furey, T.S., Harte, R.A., Raney, B., Siepel, A.,Kent, W.J., Haussler, D., Eyras, E., Castelo, R., Abril, J.F., Castellano, S., Camara, F., Parra, G.,Guigo, R., Bourque, G., Tesler, G., Pevzner, P.A., Smit, A., Fulton, L.A., Mardis, E.R. & Wilson,R.K. 2004. Sequence and comparative analysis of the chicken genome provide unique perspectiveson vertebrate evolution. Nature 432: 695–716.Hock<strong>in</strong>g, P.M. 2005. Review of QTL results <strong>in</strong> chicken. Wld. Poultry Sci. J. 61: 215–226.Hu, J.X., Bumstead, N., Barrow, P., Sebaste<strong>in</strong>, G., Olien, L., Morgan, K. & Malo, D. 1997. Resistanceto salmonellosis <strong>in</strong> the chicken is l<strong>in</strong>ked to NRAMP1 and TNC. Genome Res. 7: 693–704.Iqbal, M., Philb<strong>in</strong>, V.J., Withanage, G.S.K., Wigley, P., Beal, R.K., Goodchild, M.J., Barrow,P., McConnell, I., Maskell, D.J., Young, J., Bumstead, N., Boyd, Y. & Smith A.L. 2005.Identification and functional characterization of chicken Toll-like receptor 5 reveals a fundamentalrole <strong>in</strong> the biology of <strong>in</strong>fection with Salmonella enterica serovar typhimurium. Infect. & Immunity73: 2344–2350.Jiang, R., Li, J.,Qu, Li, H. & Yang, N. 2004. A new s<strong>in</strong>gle nucleotide polymorphism <strong>in</strong> the chickenpituitary- specific transcription factor (POULF1) gene associated with growth rate. Anim. Genet.35: 344–346.Kuhnle<strong>in</strong>, U., Ni, L., Weigend, S., Gavora, J.S., Fairfull, W. & Zadworny, D. 1997. DNA polymorphisms<strong>in</strong> the chicken growth hormone gene: response to <strong>selection</strong> for disease resistance andassociation with egg production. Anim. Genet. 28: 116–123.Lamont, S.J., Kaiser, M.G. & Liu, W. 2002. Candidate genes for resistance to Salmonella enteritidiscolonization <strong>in</strong> chickens as detected <strong>in</strong> a novel genetic cross. Vet. Immun. & Immunopath. 87:423–428.Leveque, G., Forgetta, V., Morroll, S., Smith, A.L., Bumstead, N., Barrow, P., Loredo-Osti, J.C. ,Morgan, K. & Malo, D. 2003. Allelic variation <strong>in</strong> TLR4 is l<strong>in</strong>ked to susceptibility to Salmonellaenterica serovar typhimurium <strong>in</strong>fection <strong>in</strong> chickens. Infect. & Immunity 71: 1116–1124.Li, S., Aggrey, S.E., Zadworny, D., Fairfull, W. & Kuhnle<strong>in</strong>, U. 1998a. Evidence for a geneticvariation <strong>in</strong> the mitochondrial genome affect<strong>in</strong>g traits <strong>in</strong> White Leghorn chickens. J. Hered. 89:222–226.Li, S., Zadworny, D., Aggrey, S.E. & Kuhnle<strong>in</strong>, U. 1998b. Mitochondrial pepck: A highly polymorphicgene with alleles co- selected with Marek’s disease resistance <strong>in</strong> chickens. Anim. Genet. 29:395–397.Li, H., Deeb, N., Zhou, H., Mitchell, A.D., Ashwell, C.M. & Lamont, S.J. 2003. Chicken quantitativetrait loci for growth and body composition associated with transform<strong>in</strong>g growth factor-betagenes. Poult. Sci. 82: 347–356.Li, H., Deeb, N., Zhou, H., Ashwell, C.M. & Lamont, S.J. 2005. Chicken quantitative trait loci forgrowth and body composition associated with the very low density apolipoprote<strong>in</strong>-II gene. Poult.Sci. 84: 697–703.
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iiiContentsAcknowledgementsForeword
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Section v - marker-assisted selecti
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viiForewordSince almost the beginni
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ixAbbreviations and acronymsAATFAB-
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xiFIVIMSFNPFSCFSILGABIGASGCAGCPGDPG
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xiiiOBMOECDOIEOPVPAGEPBRsPCRPGRFAPI
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xvContributorsAmalia BaroneProfesso
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xviiElcio Perpétuo GuimarãesSenio
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xixAndrea SonninoSenior Agricultura
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Chapter 1Marker-assisted selection
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Chapter 1 - An overview of the issu
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This book provides a comprehensive