Mapping QTLs Affecting Economic Traits on BTA3 in Chinese Holstein with Microsatellite Markers
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摘要
It had been demonstrated that the strong and highly significant quantitative trait locus(QTL) can affect protein percentage on Bos Taurus Autosome 3(BTA3) at the position 52 cM, near the microsatellite DIK4353, with the 95% confidence interval spanning from 25 to 57 cM in Chinese Holstein population using QTL-express, MQREML, and GRIDQTL softwares. This study herein focused on such region of fine mapping QTLs for milk production and functional traits with 16 microsatellite markers with coverage of 33 cM between the markers BMS2904 and MB099 on BTA3 in a daughter-designed Chinese Holstein population. A total of 1 298 Holstein cows and 7 sires were genotyped for 16 microsatellites with ABI 3700 DNA sequencer. The variance components QTL linkage analysis(LA) and linkage-disequilibrium(LD) analysis(LA/LD) was performed to map QTLs for 7 traits, i.e., 305-d milk yield, fat yield, protein yield, fat percentage, protein percentage, somatic cell score and persistency of milk yield. Four strong and highly significant QTLs were detected for fat yield, fat percentage, protein percentage and somatic cell score at the position 40, 30, 27 and 26 cM, respectively. Two minor QTLs for milk yield and persistency of milk yield were identified at 42 and 46 cM, respectively. These findings provided a general idea for the fine mapping of the causal mutation for milk production and functional traits on BTA3 in the future.
It had been demonstrated that the strong and highly significant quantitative trait locus(QTL) can affect protein percentage on Bos Taurus Autosome 3(BTA3) at the position 52 cM, near the microsatellite DIK4353, with the 95% confidence interval spanning from 25 to 57 cM in Chinese Holstein population using QTL-express, MQREML, and GRIDQTL softwares. This study herein focused on such region of fine mapping QTLs for milk production and functional traits with 16 microsatellite markers with coverage of 33 cM between the markers BMS2904 and MB099 on BTA3 in a daughter-designed Chinese Holstein population. A total of 1 298 Holstein cows and 7 sires were genotyped for 16 microsatellites with ABI 3700 DNA sequencer. The variance components QTL linkage analysis(LA) and linkage-disequilibrium(LD) analysis(LA/LD) was performed to map QTLs for 7 traits, i.e., 305-d milk yield, fat yield, protein yield, fat percentage, protein percentage, somatic cell score and persistency of milk yield. Four strong and highly significant QTLs were detected for fat yield, fat percentage, protein percentage and somatic cell score at the position 40, 30, 27 and 26 cM, respectively. Two minor QTLs for milk yield and persistency of milk yield were identified at 42 and 46 cM, respectively. These findings provided a general idea for the fine mapping of the causal mutation for milk production and functional traits on BTA3 in the future.
It had been demonstrated that the strong and highly significant quantitative trait locus(QTL) can affect protein percentage on Bos Taurus Autosome 3(BTA3) at the position 52 cM, near the microsatellite DIK4353, with the 95% confidence interval spanning from 25 to 57 cM in Chinese Holstein population using QTL-express, MQREML, and GRIDQTL softwares. This study herein focused on such region of fine mapping QTLs for milk production and functional traits with 16 microsatellite markers with coverage of 33 cM between the markers BMS2904 and MB099 on BTA3 in a daughter-designed Chinese Holstein population. A total of 1 298 Holstein cows and 7 sires were genotyped for 16 microsatellites with ABI 3700 DNA sequencer. The variance components QTL linkage analysis(LA) and linkage-disequilibrium(LD) analysis(LA/LD) was performed to map QTLs for 7 traits, i.e., 305-d milk yield, fat yield, protein yield, fat percentage, protein percentage, somatic cell score and persistency of milk yield. Four strong and highly significant QTLs were detected for fat yield, fat percentage, protein percentage and somatic cell score at the position 40, 30, 27 and 26 cM, respectively. Two minor QTLs for milk yield and persistency of milk yield were identified at 42 and 46 cM, respectively. These findings provided a general idea for the fine mapping of the causal mutation for milk production and functional traits on BTA3 in the future.
引文
Ahwell M S,Heyen D W,Sonstegard T S,van Tassell C P,Da Y,VanRaden P M,Ron M,Weller J I,Lewin H A.2004.Detection of quantitative trait loci affecting milkproduction,health,and reproductive traits in Holsteincattle.Journal of Dairy Science,87,468-475.
Ashwell M S,van Tassell C P,Sonstegard T S.2001.Genome scan to identify quantitative trait loci affectingeconomically important traits in a US Holstein population.Journal of Dairy Science,84,2535-2342.
Bagnato A,Schiavini F,Rossoni A,Maltecca C,DolezalM,Medugorac I,S?lkner J,Russo V,Fontanesi L,Friedmann A,Soller M,Lipkin E.2008.Quantitativetrait loci affecting milk yield and protein percentage in athree-country Brown Swiss population.Journal of DairyScience,91,767-783.
Boichard D,Grohs C,Bourgeois F,Cerqueira F,FaugerasR,Neau A,Rupp R,Amigues Y,Boscher M Y,LevézielH.2003.Detection of genes influencing economic traitsin three French dairy cattle breeds.Genetics SelectionEvolution,35,77-101.
Calvo J H,Martínez-Royo A,Silveri L,Floriot S,Eggen A,Marcos-Carcavilla A,Serrano M.2006.Isolation,mappingand identification of SNPs for four genes(ACP6,CGN,ANXA9,SLC27A3)from a bovine QTL region on BTA3.Cytogenet Genome Research,114,39-43.
Chen H Y,Zhang Q,Yin C C,Wang C K,Gong W J,Mei G.2006.Detection of quantitative trait loci affecting milkproduction traits on bovine chromosome 6 in a ChineseHolstein population by the daughter design.Journal ofDairy Science,89,782-790.
Chu Q.2008.QTL mapping of important economic traits onBTA3 in Chinese Holstein.Ph D thesis,China AgriculturalUniversity,China.(in Chinese)
Cohen-Zinder M,Donthu R,Larkin D M,Kumar C G,Rodriguez-Zas S L,Andropolis K E,Oliveira R,Lewin HA.2011.Multisite haplotype on cattle chromosome 3 isassociated with quantitative trait locus effects on lactationtraits.Physiological Genomics,43,1185-1197.
Daetwyler H D,Schenkel F S,Sargolzaei M,Robinson J A.2008.A genome scan to detect quantitative trait loci foreconomically important traits in Holstein cattle using twomethods and a dense single nucleotide polymorphism map.Journal of Dairy Science,91,3225-3236.
Duet T,Fritz S,Boucher M,Ben-Jamaal S,Guillaume F,Durable D,Hellenic D,Lecher D,Chiron C,BoucherD,Gut I G,Egan A,Gautier M.2008.Fine mappingof quantitative trait loci affecting female fertility indairy cattle on BTA3 using a dense single-nucleotidepolymorphism map.Genetics,178,2227-2235.
Geldermann H.1975.Investigation on inheritance ofquantitative characters in animals by gene markers.Genetics,46,300-319.
Heyen D W,Weller J I,Ron M,Band M,Beaver J E,RedresserE,Ad Y,Wiggins G R,van Aden P M,Levin H A.1999.A genome scan for QTL influencing milk production andhealth traits in dairy cattle.Physiological Genomics,1,165-175.
Ihara N,Tamaqua A,Mizoshita K,Takeda H,Sugimoto M,Mizoguchi Y,Hirano T,Itoh T,Watanabe T,Reed K M,Snelling W M,Kappes S M,Beattie C W,Bennett G L,Sugimoto Y.2004.A comprehensive genetic map of thecattle genome based on 3802 microsatellites.GenomeResearch,14,1987-1998.
Khatkar M S,Thomson P C,Tammen I,Raadsma H W.2004.Quantitative trait loci mapping in dairy cattle:Review andmeta-analysis.Genetics Selection Evolution,36,163-190.
Liu R,Sun D X,Wang Y C,Yu Y,Zhang Y,Chen H Y,Zhang Q,Zhang S L,Zhang Y.2013.Fine mapping QTLsaffecting milk production traits on BTA6 in ChineseHolstein with SNP markers.Journal of IntegrativeAgriculture,12,110-117.
Martinez-Royo A,Ordovas L,Zaragoza P,Altarriba J,SerranoM,Rodellar C,Calvo J H.2010.The bovine annexin9(ANXA9)is significantly associated with milk-fat yieldin a Spanish Holstein-Friesian population.Research inVeterinary Science,88,452-455.
Mei G,Yin C C,Ding X D,Zhang Q.2009.Fine mappingquantitative trait loci affecting milk production traits onbovine chromosome 6 in a Chinese Holstein population.Journal of Genetics and Genomics,36,653-660.
Olsen H G,Gomez-Raya L,V?ge D I,Olsaker I,Klungland H,Svendsen M,Adn?y T,Sabry A,Klemetsdal G,SchulmanN,Kr?mer W,Thaller G,R?nningen K,Lien S.2002.A genome scan for quantitative trait loci affecting milkproduction in Norwegian dairy cattle.Journal of DairyScience,85,3124-3130.
Patton S,Gendler S J,Spicer A P.1995.The epithelialmucin,MUC1,of milk,mammary gland and othertissues.Biochimica et Biophysica Acta(Reviews onBiomembranes),1241,407-423.
Perucatti A,Floriot S,di Meo G P.2006.Comparative FISHmapping of mucin 1,transmembrane(MUC1)among cattle,river buffalo,sheep and goat chromosomes:Comparisonbetween bovine chromosome 3 and human chromosome1.Cytogenet Genome Research,112,103-105.
Plante Y,Gibson J P,Nadesalingam J,Mehrabani-Yeganeh H,Lefebvre S,Vandervoort G,Jansen G B.2001.Detectionof quantitative trait loci affecting milk production traitson 10 chromosomes in Holstein cattle.Journal of DairyScience,84,1516-1524.
Rodriguez-Zas S L,Southey B R,Heyen D W,Lewin H A.2002.Interval and composite interval mapping of somaticcell score,yield,and components of milk in dairy cattle.Journal of Dairy Science,85,3081-3091.
Ron M,Weller J I.2007.From QTL to QTN identificationin livestock-Winning by points rather than knock-out:Areview.Animal Genetics,38,429-439.
Rupp R,Boucher D.2003.Genetics of resistance to mastitisin dairy cattle.Veterinary Research,34,671-688.
Russo V,Fontanesi L,Dolezal M,Lipkin E,Scotti E,Zambonelli P,Dall’Olio S,Bigi D,Davoli R,Canavesi F,Medugorac I,F?ster M,S?lkner J,Schiavini F,Bagnato A,Soller M.2012.A whole genome scan for QTL affectingmilk protein percentage in Italian Holstein cattle,applyingselective milk DNA pooling and multiple marker mappingin a daughter design.Animal Genetics,43,72-86.
Schulman N F,Viitala S M,de Koning D J,Virta J,MakiTanila A,Vilkki J H.2004.Quantitative trait loci for healthtraits in Finnish Ayshire cattle.Journal of Dairy Science,87,443-449.
Seaton G,Hernandez J,Brunches J A,White I,Allen J,deConing D J,Weir W,Berry D,Haley C,Knott S.2006.GridQTL:A Grid portal for QTL mapping of computeintensive datasets.In:Proceedings of the 8th WorldCongress on Genetics Applied to Livestock Production.Belo Horizontal,Minas Gerais,Brazil.
Tal-Stein R,Fontanesi L,Dolezal M,Scotti E,Bagnato A,Russo V,Canavesi F,Friedmann A,Soller M,Lipkin E.2010.A genome scan for quantitative trait loci affectingmilk somatic cell score in Israeli and Italian Holsteincows by means of selective DNA pooling with single-andmultiple-marker mapping.Journal of Dairy Science,93,4913-4927.
Viitala S M,Schulman N F,de Koning D J,Elo K,KinosR,Virta A,Virta J,M?ki-Tanila A,Vilkki J H.2003.Quantitative trait loci affecting milk production traits inFinnish Ayrshire dairy cattle.Journal of Dairy Science,86,1828-1836.
Zhang Q,Boichard D,Hoeschele I,Ernst C,Eggen A,MurkveB,Pfister-Genskow M,Witte LA,Grignola F E,Uimari P,Thaller G,Bishop M D.1998.Mapping quantitative traitloci for milk production and health of dairy cattle in a largeoutbreed pedigree.Genetics,149,1959-1973.
Ashwell M S,van Tassell C P,Sonstegard T S.2001.Genome scan to identify quantitative trait loci affectingeconomically important traits in a US Holstein population.Journal of Dairy Science,84,2535-2342.
Bagnato A,Schiavini F,Rossoni A,Maltecca C,DolezalM,Medugorac I,S?lkner J,Russo V,Fontanesi L,Friedmann A,Soller M,Lipkin E.2008.Quantitativetrait loci affecting milk yield and protein percentage in athree-country Brown Swiss population.Journal of DairyScience,91,767-783.
Boichard D,Grohs C,Bourgeois F,Cerqueira F,FaugerasR,Neau A,Rupp R,Amigues Y,Boscher M Y,LevézielH.2003.Detection of genes influencing economic traitsin three French dairy cattle breeds.Genetics SelectionEvolution,35,77-101.
Calvo J H,Martínez-Royo A,Silveri L,Floriot S,Eggen A,Marcos-Carcavilla A,Serrano M.2006.Isolation,mappingand identification of SNPs for four genes(ACP6,CGN,ANXA9,SLC27A3)from a bovine QTL region on BTA3.Cytogenet Genome Research,114,39-43.
Chen H Y,Zhang Q,Yin C C,Wang C K,Gong W J,Mei G.2006.Detection of quantitative trait loci affecting milkproduction traits on bovine chromosome 6 in a ChineseHolstein population by the daughter design.Journal ofDairy Science,89,782-790.
Chu Q.2008.QTL mapping of important economic traits onBTA3 in Chinese Holstein.Ph D thesis,China AgriculturalUniversity,China.(in Chinese)
Cohen-Zinder M,Donthu R,Larkin D M,Kumar C G,Rodriguez-Zas S L,Andropolis K E,Oliveira R,Lewin HA.2011.Multisite haplotype on cattle chromosome 3 isassociated with quantitative trait locus effects on lactationtraits.Physiological Genomics,43,1185-1197.
Daetwyler H D,Schenkel F S,Sargolzaei M,Robinson J A.2008.A genome scan to detect quantitative trait loci foreconomically important traits in Holstein cattle using twomethods and a dense single nucleotide polymorphism map.Journal of Dairy Science,91,3225-3236.
Duet T,Fritz S,Boucher M,Ben-Jamaal S,Guillaume F,Durable D,Hellenic D,Lecher D,Chiron C,BoucherD,Gut I G,Egan A,Gautier M.2008.Fine mappingof quantitative trait loci affecting female fertility indairy cattle on BTA3 using a dense single-nucleotidepolymorphism map.Genetics,178,2227-2235.
Geldermann H.1975.Investigation on inheritance ofquantitative characters in animals by gene markers.Genetics,46,300-319.
Heyen D W,Weller J I,Ron M,Band M,Beaver J E,RedresserE,Ad Y,Wiggins G R,van Aden P M,Levin H A.1999.A genome scan for QTL influencing milk production andhealth traits in dairy cattle.Physiological Genomics,1,165-175.
Ihara N,Tamaqua A,Mizoshita K,Takeda H,Sugimoto M,Mizoguchi Y,Hirano T,Itoh T,Watanabe T,Reed K M,Snelling W M,Kappes S M,Beattie C W,Bennett G L,Sugimoto Y.2004.A comprehensive genetic map of thecattle genome based on 3802 microsatellites.GenomeResearch,14,1987-1998.
Khatkar M S,Thomson P C,Tammen I,Raadsma H W.2004.Quantitative trait loci mapping in dairy cattle:Review andmeta-analysis.Genetics Selection Evolution,36,163-190.
Liu R,Sun D X,Wang Y C,Yu Y,Zhang Y,Chen H Y,Zhang Q,Zhang S L,Zhang Y.2013.Fine mapping QTLsaffecting milk production traits on BTA6 in ChineseHolstein with SNP markers.Journal of IntegrativeAgriculture,12,110-117.
Martinez-Royo A,Ordovas L,Zaragoza P,Altarriba J,SerranoM,Rodellar C,Calvo J H.2010.The bovine annexin9(ANXA9)is significantly associated with milk-fat yieldin a Spanish Holstein-Friesian population.Research inVeterinary Science,88,452-455.
Mei G,Yin C C,Ding X D,Zhang Q.2009.Fine mappingquantitative trait loci affecting milk production traits onbovine chromosome 6 in a Chinese Holstein population.Journal of Genetics and Genomics,36,653-660.
Olsen H G,Gomez-Raya L,V?ge D I,Olsaker I,Klungland H,Svendsen M,Adn?y T,Sabry A,Klemetsdal G,SchulmanN,Kr?mer W,Thaller G,R?nningen K,Lien S.2002.A genome scan for quantitative trait loci affecting milkproduction in Norwegian dairy cattle.Journal of DairyScience,85,3124-3130.
Patton S,Gendler S J,Spicer A P.1995.The epithelialmucin,MUC1,of milk,mammary gland and othertissues.Biochimica et Biophysica Acta(Reviews onBiomembranes),1241,407-423.
Perucatti A,Floriot S,di Meo G P.2006.Comparative FISHmapping of mucin 1,transmembrane(MUC1)among cattle,river buffalo,sheep and goat chromosomes:Comparisonbetween bovine chromosome 3 and human chromosome1.Cytogenet Genome Research,112,103-105.
Plante Y,Gibson J P,Nadesalingam J,Mehrabani-Yeganeh H,Lefebvre S,Vandervoort G,Jansen G B.2001.Detectionof quantitative trait loci affecting milk production traitson 10 chromosomes in Holstein cattle.Journal of DairyScience,84,1516-1524.
Rodriguez-Zas S L,Southey B R,Heyen D W,Lewin H A.2002.Interval and composite interval mapping of somaticcell score,yield,and components of milk in dairy cattle.Journal of Dairy Science,85,3081-3091.
Ron M,Weller J I.2007.From QTL to QTN identificationin livestock-Winning by points rather than knock-out:Areview.Animal Genetics,38,429-439.
Rupp R,Boucher D.2003.Genetics of resistance to mastitisin dairy cattle.Veterinary Research,34,671-688.
Russo V,Fontanesi L,Dolezal M,Lipkin E,Scotti E,Zambonelli P,Dall’Olio S,Bigi D,Davoli R,Canavesi F,Medugorac I,F?ster M,S?lkner J,Schiavini F,Bagnato A,Soller M.2012.A whole genome scan for QTL affectingmilk protein percentage in Italian Holstein cattle,applyingselective milk DNA pooling and multiple marker mappingin a daughter design.Animal Genetics,43,72-86.
Schulman N F,Viitala S M,de Koning D J,Virta J,MakiTanila A,Vilkki J H.2004.Quantitative trait loci for healthtraits in Finnish Ayshire cattle.Journal of Dairy Science,87,443-449.
Seaton G,Hernandez J,Brunches J A,White I,Allen J,deConing D J,Weir W,Berry D,Haley C,Knott S.2006.GridQTL:A Grid portal for QTL mapping of computeintensive datasets.In:Proceedings of the 8th WorldCongress on Genetics Applied to Livestock Production.Belo Horizontal,Minas Gerais,Brazil.
Tal-Stein R,Fontanesi L,Dolezal M,Scotti E,Bagnato A,Russo V,Canavesi F,Friedmann A,Soller M,Lipkin E.2010.A genome scan for quantitative trait loci affectingmilk somatic cell score in Israeli and Italian Holsteincows by means of selective DNA pooling with single-andmultiple-marker mapping.Journal of Dairy Science,93,4913-4927.
Viitala S M,Schulman N F,de Koning D J,Elo K,KinosR,Virta A,Virta J,M?ki-Tanila A,Vilkki J H.2003.Quantitative trait loci affecting milk production traits inFinnish Ayrshire dairy cattle.Journal of Dairy Science,86,1828-1836.
Zhang Q,Boichard D,Hoeschele I,Ernst C,Eggen A,MurkveB,Pfister-Genskow M,Witte LA,Grignola F E,Uimari P,Thaller G,Bishop M D.1998.Mapping quantitative traitloci for milk production and health of dairy cattle in a largeoutbreed pedigree.Genetics,149,1959-1973.