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Fine Mapping QTLs Affecting Milk Production Traits on BTA6 in Chinese Holstein with SNP Markers |
LIU Rui, SUN Dong-xiao, WANG Ya-chun, YU Ying, ZHANG Yi, CHEN Hui-yong, ZHANG Qin, ZHANG Sheng-li , ZHANG Yuan |
1.College of Animal Science and Technology/Key Laboratory of Animal Genetics and Breeding, Ministry of Agriculture/National Engineering Laboratory of Animal Genetics/China Agricultural University, Beijing 100193, P.R.China
2.Sichuan Animal Science Academy, Chengdu 610066, P.R.China |
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摘要 Our previous studies demonstrated that the region around markers BMS470 and BMS1242 on BTA6 showed a linkage to 305-d milk yield and composition traits in the Chinese Holstein population. We herein focused on such narrow region to fine map milk production QTLs with 15 SNPs across 25 Mb with each SNP in 1 Mb within most regions in a Chinese Holstein population with daughter design. 1 449 Holstein cows and 11 sires were genotyped for such SNPs by using TaqMan probe and RFLP assays. Multipoint linkage analysis across family revealed a QTL affecting milk yield between PPARGC1A C4075T and SLC34A2 T1713C. Meanwhile, within family analysis found three milk yield QTLs (two in CR T60984131G-CEP135 C501T and one in PDLIM5 A106C-OPN T3907, a fat yield QTL in UGDH T1670C-CR T60984131G region, and two protein yield QTLs in TBC1D1 G501C-UGDH T1670C and PPARGC1A C4075T-SLC34A2 T1713C, respectively. Associations between aforementioned significant SNP markers and milk production traits were further implemented. We found significant associations of PPARGC1A C4075T, SLC34A2 T1713C with milk yield (P<0.05, P<0.01, P<0.01), UGDH T1670C, and CR T60984131G with fat yield (P<0.01, P<0.01), and PPARGC1A C4075T, SLC34A2 T1713C, UGDH T1670C and OPN T3907 with protein yield (P<0.01, P<0.01, P<0.01, P<0.01). Our findings implied that QTLs affecting milk production traits on BTA6 were pleictropism or multigenic effect and PPARGC1A and OPN may be the causal mutations behind milk production QTLs on BTA6 in the Chinese Holstein population.
Abstract Our previous studies demonstrated that the region around markers BMS470 and BMS1242 on BTA6 showed a linkage to 305-d milk yield and composition traits in the Chinese Holstein population. We herein focused on such narrow region to fine map milk production QTLs with 15 SNPs across 25 Mb with each SNP in 1 Mb within most regions in a Chinese Holstein population with daughter design. 1 449 Holstein cows and 11 sires were genotyped for such SNPs by using TaqMan probe and RFLP assays. Multipoint linkage analysis across family revealed a QTL affecting milk yield between PPARGC1A C4075T and SLC34A2 T1713C. Meanwhile, within family analysis found three milk yield QTLs (two in CR T60984131G-CEP135 C501T and one in PDLIM5 A106C-OPN T3907, a fat yield QTL in UGDH T1670C-CR T60984131G region, and two protein yield QTLs in TBC1D1 G501C-UGDH T1670C and PPARGC1A C4075T-SLC34A2 T1713C, respectively. Associations between aforementioned significant SNP markers and milk production traits were further implemented. We found significant associations of PPARGC1A C4075T, SLC34A2 T1713C with milk yield (P<0.05, P<0.01, P<0.01), UGDH T1670C, and CR T60984131G with fat yield (P<0.01, P<0.01), and PPARGC1A C4075T, SLC34A2 T1713C, UGDH T1670C and OPN T3907 with protein yield (P<0.01, P<0.01, P<0.01, P<0.01). Our findings implied that QTLs affecting milk production traits on BTA6 were pleictropism or multigenic effect and PPARGC1A and OPN may be the causal mutations behind milk production QTLs on BTA6 in the Chinese Holstein population.
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Received: 08 June 2011
Accepted:
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Fund: This work was supported by the National 948 Project of China (2006-G48), the National Key Technologies R&D Program of China (2006BAD04A01), the Key Development of New Transgenic Breeds Program of China (2009ZX08009-156B), and the National Natural Science Foundation of China (31072016). |
Corresponding Authors:
Correspondence ZHANG Yuan, Tel/Fax: +86-10-62733687, E-mail: changy@cau.edu.cn
E-mail: changy@cau.edu.cn
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About author: SUN Dong-xiao, Tel: +86-10-62734653, E-mail: sundx@cau.edu.cn |
Cite this article:
LIU Rui, SUN Dong-xiao, WANG Ya-chun, YU Ying, ZHANG Yi, CHEN Hui-yong, ZHANG Qin, ZHANG Sheng-li , ZHANG Yuan.
2013.
Fine Mapping QTLs Affecting Milk Production Traits on BTA6 in Chinese Holstein with SNP Markers. Journal of Integrative Agriculture, 12(1): 110-117.
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1.College of Animal Science and Technology/Key Laboratory of Animal Genetics and Breeding, Ministry of Agriculture/National Engineering Laboratory of Animal Genetics/China Agricultural University, Beijing 100193, P.R.China2.Sichuan Animal Science Academy, Chengdu 610066, P.R.China[1]Ashwell M S, Schnabel R S, Sonstegard T S, van TassellCP. 2002. Fine-mapping of QTL affecting protein percentand fat percent on BTA6 in a popular U.S. Holsteinfamily. In: Proceedings of the 7th World Congress onGeneti cs Appl ied to Livestock Produc t ion.Montpellier, France.[2]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 six in ChineseHolstein population by the daughter design. Journalof Dairy Science, 89, 782-790[3]Daetwyler H D, Schenkel FS, Sargolzaei M, Robinson J A2008. A genome scan to detect quantitative trait loci foreconomically important traits in Holstein cattle usingtwo methods and a dense single nucleot idepolymorphism map. Journal of Dairy Science, 91, 3225-3236[4]Everts-van der Wind A, Kata S R, Band M R, Rebeiz M,Larkin D M, Everts R E, Green, C A, Liu L, Natarajan S,Goldammer T, et al. 2004. A 1463 gene cattle-humancomparative map with anchor points defined by humangenome sequence coordinates. Genome Research, 14,1424-1437[5]Ewing B, Green P. 1998. Base-calling of automatedsequencer traces using phred. II. Error probabilities.Genome Research, 8, 186-194[6]Ewing B, Hillier L, Wendl M C, Green P. 1998. Base-callingof automated sequencer traces using phred. I. Accuracyassessment. Genome Research, 8, 175-185[7]Freyer G, Kühn C, Weikard R, Zhang Q, Mayer M,Hoeschele I. 2002. Multiple QTL on chromosome six indairy cattle affecting yield and content traits. Journalof Animal Breeding Genetics, 119, 69-82[8]Freyer G, Sorensen P, Kuhn C, Weikard R, Hoeschele I.2003. Search for pleiotropic QTL on chromosome BTA6affecting yield traits for milk production. Journal ofDairy Science, 86, 999-1008[9]Gordon D, Abajian C, Green P. 1998. Consed: a graphicaltool for sequence finishing. Genome Research, 8, 195-202[10]Heath S C. 1997. Markov chain Monte Carlo segregationand linkage analysis for oligogenic models. AmericanJournal of Human Genetics, 61, 748-760[11]Ihara N, Takasuga A, Mizoshita K, Takeda H, Sugimoto M,Mizoguchi Y, Hirano T, Itoh T, Watanabe T, Reed K M,et al. 2004. A comprehensive genetic map of the cattlegenome based on 3802 microsatellites. GenomeResearch, 14, 1987-1998[12]Khatib H, Zaitoun I, Wiebelhaus-Finger J, Chang Y M,Rosa G J. 2007. The association of bovine ppargc1aand opn genes with milk composition in twoindependent Holstein cattle populations. Journal ofDairy Science, 90, 2966-2670[13]Kolbehdari D, Wang Z, Grant J R, Murdoch B, Prasad A.2009. A whole genome scan to map QTL for milkproduction traits and somatic cell score in CanadianHolstein bulls. Journal of Animal Breeding andGenetics, 126, 216-227[14]Leonard S, Khatib H, Schutzkus V, Chang Y M, MalteccaC. 2005. Effects of the osteopontin gene variants onmilk production traits in dairy cattle. Journal DairyScience, 88, 4083-4086[15]Jiang L, Liu J F, Sun D X, Ma P P, Ding X D, Yu Y, Zhang Q.2010. Genome wide association studies for milkproduction traits in chinese holstein population.PLosONE, 5, e13661.[16]Mei G, Yin C C, Ding X D, Zhang Q. 2009. Fine mappingquantitative trait loci affecting milk production traitson bovine chromosome 6 in a Chinese Holsteinpopulation. Journal of Genetics and Genomics, 36, 653-660[17]Montgomery K T, Iartchouck O, Li L, Loomis S, Obourn V,Kucherlapati R. 2008. PolyPhred analysis software formutation detection from fluorescence-based sequencedata. In: Current Protocol in Human Genetics, doi: 10.1002/0471142905.hg0716s59Nickerson D A, Tobe V O, Taylor S L. 1997. PolyPhred:automating the detection and genotyping of singlenucleotide substitutions using fluorescencebasedresequencing. Nucleic Acids Research, 25, 2745-2751[18]Olsen H G, Lien S, GautierM, Nilsen H, Roseth A, Berg P R,Sundsaasen K K, Svendsen M, Meuwissen T H. 2005.Mapping of a milk production QTL to a 420 kb regionon bovine chromosome 6. Genetics, 169, 275-283[19]Olsen H G, Lien S, SvendsenM, Nilsen H, RosethA, AaslandOpsal M, Meuwissen T H. 2004. Fine mapping of milkproduction QTL on BTA6 by combined linkage andlinkage disequilibrium analysis. Journal of DairyScience, 87, 690-698[20]Schibler L, RoigA, Mahé M F, Save J C, Gautier M, TaouritS, Boichard D, Eggen A, Cribiu E P. 2004. A firstgeneration bovine BAC-based physical map. GeneticsSelection Evolotion, 36, 105-122[21]Schnabel R D, Kim J J, Ashwell M S, Sonstegard T S, vanTassell C P, Connor E E, Taylor J F. 2005. Fine-mappingmilk production quantitative trait loci on BTA6: analysisof the bovine osteopontin gene. Proceedings of theNational Academy of Sciences of the United States ofAmerica, 102, 6896-6901[22]Spelman R J, Coppieters W, Karim L, van Arendonk J A,Bovenhuis H. 1996. Quantitative trait loci analysis forfive milk production traits on chromosome six in theDutch Holstein-Friesian population. Genetics, 144,1799-1808[23]Teng X H. 2006. Studies of adjustment factors forstandardizing milking records of Chinese Holstein. MScthesis, China Agricultural University, China. (in Chinese)[24]Weikard R, Goldammer T, Laurent P, Womack J E, Kuehn C.2006. A gene-based high-resolution comparativeradiation hybrid map as a framework for genomesequence assembly of a bovine chromosome 6 regionassociated with QTL for growth, body composition,and milk performance traits. BMC Genomics, 7, 53.[25]Weikard R, Kühn C, Goldammer T, Freyer G, Schwerin M.2005. The bovine PPARGC1A gene: Molecularcharacterization and association of an SNP withvariation of milk fat synthesis. Physiological Genomics,21, 1-13[26]Weikard R, Kühn C, Goldammer T, Laurent P, Womack J E,Schwerin M. 2002. A high resolution comparative mapfor a bovine chromosome 6 (BTA6) region containingQTL for production, health and conformation traits. In:7th World Congress on Genetics Applied to LivestockProduction. Montpellier, France.[27]Wiener P, Maclean I, Williams J L, Woolliams J A. 2000.Testing for the presence of previously identified QTLfor milk production traits in new populations. AnimalGenetics, 31, 385-95 |
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