Heringstad B, Chang YM, Gianola D, Klemetsdal G: Genetic association between susceptibility to clinical mastitis and protein yield in norwegian dairy cattle. J Dairy Sci. 2005, 88 (4): 1509-1514. 10.3168/jds.S0022-0302(05)72819-8.
Article
CAS
PubMed
Google Scholar
Heringstad B, Klemetsdal G, Ruane J: Selection for mastitis resistance in dairy cattle: a review with focus on the situation in the Nordic countries. Livestock Production Science. 2000, 64 (2-3): 95-106. 10.1016/S0301-6226(99)00128-1.
Article
Google Scholar
Heringstad B, Chang YM, Gianola D, Klemetsdal G: Genetic analysis of clinical mastitis, milk fever, ketosis, and retained placenta in three lactations of Norwegian red cows. J Dairy Sci. 2005, 88 (9): 3273-3281. 10.3168/jds.S0022-0302(05)73010-1.
Article
CAS
PubMed
Google Scholar
Lund MS, Jensen J, Petersen PH: Estimation of genetic and phenotypic parameters for clinical mastitis, somatic cell production deviance, and protein yield in dairy cattle using Gibbs sampling. J Dairy Sci. 1999, 82 (5): 1045-1051. 10.3168/jds.S0022-0302(99)75325-7.
Article
CAS
PubMed
Google Scholar
Lien S, Gomez-Raya L, Steine T, Fimland E, Rogne S: Associations between casein haplotypes and milk yield traits. J Dairy Sci. 1995, 78 (9): 2047-2056. 10.3168/jds.S0022-0302(95)76830-8.
Article
CAS
PubMed
Google Scholar
Nilsen H, Olsen HG, Hayes B, Nome T, Sehested E, Svendsen M, Meuwissen TH, Lien S: Characterization of a QTL region affecting clinical mastitis and protein yield on BTA6. Anim Genet. 2009, 40 (5): 701-712. 10.1111/j.1365-2052.2009.01908.x.
Article
CAS
PubMed
Google Scholar
Nilsen H, Olsen HG, Hayes B, Sehested E, Svendsen M, Nome T, Meuwissen T, Lien S: Casein haplotypes and their association with milk production traits in Norwegian Red cattle. Genet Sel Evol. 2009, 41: 24-10.1186/1297-9686-41-24.
Article
PubMed Central
PubMed
Google Scholar
Bovenhuis H, Weller JI: Mapping and analysis of dairy cattle quantitative trait loci by maximum likelihood methodology using milk protein genes as genetic markers. Genetics. 1994, 137 (1): 267-280.
PubMed Central
CAS
PubMed
Google Scholar
Velmala RJ, Vilkki HJ, Elo KT, de Koning DJ, Maki-Tanila AV: A search for quantitative trait loci for milk production traits on chromosome 6 in Finnish Ayrshire cattle. Anim Genet. 1999, 30 (2): 136-143. 10.1046/j.1365-2052.1999.00435.x.
Article
CAS
PubMed
Google Scholar
Schopen GC, Koks PD, van Arendonk JA, Bovenhuis H, Visker MH: Whole genome scan to detect quantitative trait loci for bovine milk protein composition. Anim Genet. 2009, 40 (4): 524-537. 10.1111/j.1365-2052.2009.01880.x.
Article
CAS
PubMed
Google Scholar
Farrell HM, Jimenez-Flores R, Bleck GT, Brown EM, Butler JE, Creamer LK, Hicks CL, Hollar CM, Ng-Kwai-Hang KF, Swaisgood HE: Nomenclature of the proteins of cows' milk--sixth revision. J Dairy Sci. 2004, 87 (6): 1641-1674. 10.3168/jds.S0022-0302(04)73319-6.
Article
CAS
PubMed
Google Scholar
Martin P, Szymanowska M, Zwierzchowski L, Leroux C: The impact of genetic polymorphisms on the protein composition of ruminant milks. Reprod Nutr Dev. 2002, 42 (5): 433-459. 10.1051/rnd:2002036.
Article
CAS
PubMed
Google Scholar
Caroli AM, Chessa S, Erhardt GJ: Invited review: milk protein polymorphisms in cattle: effect on animal breeding and human nutrition. J Dairy Sci. 2009, 92 (11): 5335-5352. 10.3168/jds.2009-2461.
Article
CAS
PubMed
Google Scholar
Schild TA, Geldermann H: Variants within the 5'-flanking regions of bovine milk-protein-encoding genes. III. Genes encoding the Ca-sensitive caseins αs1, αs2 and β. Theoretical and Applied Genetics. 1996, 93: 887-893. 10.1007/BF00224090.
Article
CAS
PubMed
Google Scholar
Hallen E, Wedholm A, Andren A, Lunden A: Effect of beta-casein, kappa-casein and beta-lactoglobulin genotypes on concentration of milk protein variants. J Anim Breed Genet. 2008, 125 (2): 119-129. 10.1111/j.1439-0388.2007.00706.x.
Article
CAS
PubMed
Google Scholar
Szymanowska M, Siadkowska E, Lukaszewicz M, Zwierzchowski L: Association of nucleotide-sequence polymorphism in the 5'-flanking regions of bovine casein genes with casein content in cow's milk. Le Lait. 2004, 84: 579-590. 10.1051/lait:2004030.
Article
CAS
Google Scholar
Mardis ER: The impact of next-generation sequencing technology on genetics. Trends Genet. 2008, 24 (3): 133-141. 10.1016/j.tig.2007.12.007.
Article
CAS
PubMed
Google Scholar
Stratton M: Genome resequencing and genetic variation. Nat Biotechnol. 2008, 26 (1): 65-66. 10.1038/nbt0108-65.
Article
CAS
PubMed
Google Scholar
Albert TJ, Molla MN, Muzny DM, Nazareth L, Wheeler D, Song X, Richmond TA, Middle CM, Rodesch MJ, Packard CJ: Direct selection of human genomic loci by microarray hybridization. Nat Methods. 2007, 4 (11): 903-905. 10.1038/nmeth1111.
Article
CAS
PubMed
Google Scholar
Weaver TA: High-throughput SNP discovery and typing for genome-wide genetic analysis. Trends in Genetics. 2000, 2000: 36-42.
Google Scholar
Vignal A, Milan D, SanCristobal M, Eggen A: A review on SNP and other types of molecular markers and their use in animal genetics. Genet Sel Evol. 2002, 34 (3): 275-305. 10.1186/1297-9686-34-3-275.
Article
PubMed Central
CAS
PubMed
Google Scholar
Lindholm E, Zhang J, Hodge SE, Greenberg DA: The reliability of haplotyping inference in nuclear families: misassignment rates for SNPs and microsatellites. Hum Hered. 2004, 57 (3): 117-127. 10.1159/000079242.
Article
CAS
PubMed
Google Scholar
Gao G, Allison DB, Hoeschele I: Haplotyping methods for pedigrees. Hum Hered. 2009, 67 (4): 248-266. 10.1159/000194978.
Article
PubMed Central
PubMed
Google Scholar
Nothnagel M, Ellinghaus D, Schreiber S, Krawczak M, Franke A: A comprehensive evaluation of SNP genotype imputation. Hum Genet. 2009, 125 (2): 163-171. 10.1007/s00439-008-0606-5.
Article
CAS
PubMed
Google Scholar
Hao K, Chudin E, McElwee J, Schadt EE: Accuracy of genome-wide imputation of untyped markers and impacts on statistical power for association studies. BMC Genet. 2009, 10: 27-
Article
PubMed Central
PubMed
Google Scholar
Pei YF, Zhang L, Li J, Deng HW: Analyses and comparison of imputation-based association methods. PLoS One. 2010, 5 (5): e10827.-
Article
PubMed Central
PubMed
Google Scholar
Browning SR: Missing data imputation and haplotype phase inference for genome-wide association studies. Hum Genet. 2008, 124 (5): 439-450. 10.1007/s00439-008-0568-7.
Article
PubMed Central
CAS
PubMed
Google Scholar
Vallejo RL, Li YL, Rogers GW, Ashwell MS: Genetic diversity and background linkage disequilibrium in the North American Holstein cattle population. J Dairy Sci. 2003, 86 (12): 4137-4147. 10.3168/jds.S0022-0302(03)74028-4.
Article
CAS
PubMed
Google Scholar
Odani M, Narita A, Watanabe T, Yokouchi K, Sugimoto Y, Fujita T, Oguni T, Matsumoto M, Sasaki Y: Genome-wide linkage disequilibrium in two Japanese beef cattle breeds. Anim Genet. 2006, 37 (2): 139-144. 10.1111/j.1365-2052.2005.01400.x.
Article
CAS
PubMed
Google Scholar
Khatkar MS, Nicholas FW, Collins AR, Zenger KR, Cavanagh JA, Barris W, Schnabel RD, Taylor JF, Raadsma HW: Extent of genome-wide linkage disequilibrium in Australian Holstein-Friesian cattle based on a high-density SNP panel. BMC Genomics. 2008, 9: 187-10.1186/1471-2164-9-187.
Article
PubMed Central
PubMed
Google Scholar
Liu Y, Qin X, Song XZ, Jiang H, Shen Y, Durbin KJ, Lien S, Kent MP, Sodeland M, Ren Y: Bos taurus genome assembly. BMC Genomics. 2009, 10: 180-10.1186/1471-2164-10-180.
Article
PubMed Central
PubMed
Google Scholar
Strömberg M: Mosaik 1.0 Documentation. 2009
Google Scholar
Marth GT: GigaBayes: SNP and Short-INDEL Polymorphism Discovery Tool. 2009
Google Scholar
Farnir F, Coppieters W, Arranz JJ, Berzi P, Cambisano N, Grisart B, Karim L, Marcq F, Moreau L, Mni M: Extensive genome-wide linkage disequilibrium in cattle. Genome Res. 2000, 10 (2): 220-227. 10.1101/gr.10.2.220.
Article
CAS
PubMed
Google Scholar
Tenesa A, Knott SA, Ward D, Smith D, Williams JL, Visscher PM: Estimation of linkage disequilibrium in a sample of the United Kingdom dairy cattle population using unphased genotypes. J Anim Sci. 2003, 81 (3): 617-623.
CAS
PubMed
Google Scholar
Gabriel SB, Schaffner SF, Nguyen H, Moore JM, Roy J, Blumenstiel B, Higgins J, DeFelice M, Lochner A, Faggart M: The structure of haplotype blocks in the human genome. Science. 2002, 296 (5576): 2225-2229. 10.1126/science.1069424.
Article
CAS
PubMed
Google Scholar
Wang N, Akey JM, Zhang K, Chakraborty R, Jin L: Distribution of recombination crossovers and the origin of haplotype blocks: the interplay of population history, recombination, and mutation. Am J Hum Genet. 2002, 71 (5): 1227-1234. 10.1086/344398.
Article
PubMed Central
CAS
PubMed
Google Scholar
Boettcher PJ, Caroli A, Stella A, Chessa S, Budelli E, Canavesi F, Ghiroldi S, Pagnacco G: Effects of casein haplotypes on milk production traits in Italian Holstein and Brown Swiss cattle. J Dairy Sci. 2004, 87 (12): 4311-4317. 10.3168/jds.S0022-0302(04)73576-6.
Article
CAS
PubMed
Google Scholar
Ikonen T, Bovenhuis H, Ojala M, Ruottinen O, Georges M: Associations between casein haplotypes and first lactation milk production traits in Finnish Ayrshire cows. J Dairy Sci. 2001, 84 (2): 507-514. 10.3168/jds.S0022-0302(01)74501-8.
Article
CAS
PubMed
Google Scholar
Velmala R, Vilkki J, Elo K, Maki-Tanila A: Casein haplotypes and their association with milk production traits in the Finnish Ayrshire cattle. Anim Genet. 1995, 26 (6): 419-425.
Article
CAS
PubMed
Google Scholar
Wyszomierski SL, Rosen JM: Cooperative effects of STAT5 (signal transducer and activator of transcription 5) and C/EBPbeta (CCAAT/enhancer-binding protein-beta) on beta-casein gene transcription are mediated by the glucocorticoid receptor. Mol Endocrinol. 2001, 15 (2): 228-240. 10.1210/me.15.2.228.
CAS
PubMed
Google Scholar
Robinson GW, Johnson PF, Hennighausen L, Sterneck E: The C/EBPbeta transcription factor regulates epithelial cell proliferation and differentiation in the mammary gland. Genes Dev. 1998, 12 (12): 1907-1916. 10.1101/gad.12.12.1907.
Article
PubMed Central
CAS
PubMed
Google Scholar
Rosen JM, Wyszomierski SL, Hadsell D: Regulation of milk protein gene expression. Annu Rev Nutr. 1999, 19: 407-436. 10.1146/annurev.nutr.19.1.407.
Article
CAS
PubMed
Google Scholar
Bevilacqua C, Helbling JC, Miranda G, Martin P: Translational efficiency of casein transcripts in the mammary tissue of lactating ruminants. Reprod Nutr Dev. 2006, 46 (5): 567-578. 10.1051/rnd:2006028.
Article
CAS
PubMed
Google Scholar
Kozak M: Recognition of AUG and alternative initiator codons is augmented by G in position +4 but is not generally affected by the nucleotides in positions +5 and +6. EMBO J. 1997, 16 (9): 2482-2492. 10.1093/emboj/16.9.2482.
Article
PubMed Central
CAS
PubMed
Google Scholar
Yu H, Riederer B, Stieger N, Boron WF, Shull GE, Manns MP, Seidler UE, Bachmann O: Secretagogue stimulation enhances NBCe1 (electrogenic Na(+)/HCO(3)(-) cotransporter) surface expression in murine colonic crypts. Am J Physiol Gastrointest Liver Physiol. 2009, 297 (6): G1223-1231. 10.1152/ajpgi.00157.2009.
Article
PubMed Central
CAS
PubMed
Google Scholar
Igarashi T, Sekine T, Watanabe H: Molecular basis of proximal renal tubular acidosis. J Nephrol. 2002, 15 (Suppl 5): S135-141.
CAS
PubMed
Google Scholar
Tang BL: ADAMTS: a novel family of extracellular matrix proteases. Int J Biochem Cell Biol. 2001, 33 (1): 33-44. 10.1016/S1357-2725(00)00061-3.
Article
CAS
PubMed
Google Scholar
Yu C, Shi ZR, Chu CY, Lee KH, Zhao X, Lee JW: Expression of bovine granulocyte chemotactic protein-2 (GCP-2) in neutrophils and a mammary epithelial cell line (MAC-T) in response to various bacterial cell wall components. Vet J. 2010, 186 (1): 89-95. 10.1016/j.tvjl.2009.07.012.
Article
CAS
PubMed
Google Scholar
Griesbeck-Zilch B, Meyer HH, Kuhn CH, Schwerin M, Wellnitz O: Staphylococcus aureus and Escherichia coli cause deviating expression profiles of cytokines and lactoferrin messenger ribonucleic acid in mammary epithelial cells. J Dairy Sci. 2008, 91 (6): 2215-2224. 10.3168/jds.2007-0752.
Article
CAS
PubMed
Google Scholar
McClenahan D, Krueger R, Lee HY, Thomas C, Kehrli ME, Czuprynski C: Interleukin-8 expression by mammary gland endothelial and epithelial cells following experimental mastitis infection with E. coli. Comp Immunol Microbiol Infect Dis. 2006, 29 (2-3): 127-137. 10.1016/j.cimid.2006.03.001.
Article
PubMed
Google Scholar
Mount JA, Karrow NA, Caswell JL, Boermans HJ, Leslie KE: Assessment of bovine mammary chemokine gene expression in response to lipopolysaccharide, lipotechoic acid + peptidoglycan, and CpG oligodeoxynucleotide 2135. Can J Vet Res. 2009, 73 (1): 49-57.
PubMed Central
CAS
PubMed
Google Scholar
Østeras O, Solbu H, Refsdal AO, Roalkvam T, Filseth O, Minsaas A: Results and evaluation of thirty years of health recordings in the Norwegian dairy cattle population. J Dairy Sci. 2007, 90 (9): 4483-4497. 10.3168/jds.2007-0030.
Article
PubMed
Google Scholar
Svendsen M, Heringstad B: New Genetic Evaluation for Clinical Mastitis in Multiparous Norwegian Red Cows. Interbull Bulletine. 2006, 35: 8-11.
Google Scholar
Weller JI, Kashi Y, Soller M: Power of daughter and granddaughter designs for determining linkage between marker loci and quantitative trait loci in dairy cattle. J Dairy Sci. 1990, 73 (9): 2525-2537. 10.3168/jds.S0022-0302(90)78938-2.
Article
CAS
PubMed
Google Scholar
Green P, Falls K, Crooks S: Documentation for CRI-MAP, version 2.4. Washington University School of Medicine, St. Louis, Mo., USA. 1990
Google Scholar
Qian D, Beckmann L: Minimum-recombinant haplotyping in pedigrees. Am J Hum Genet. 2002, 70 (6): 1434-1445. 10.1086/340610.
Article
PubMed Central
CAS
PubMed
Google Scholar
Gilmour AR, Cullis BR, Welham SJ, Thompson R: ASREML reference manual. 2000
Google Scholar
Barrett JC, Fry B, Maller J, Daly MJ: Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics. 2005, 21 (2): 263-265. 10.1093/bioinformatics/bth457.
Article
CAS
PubMed
Google Scholar
Gao X, Starmer J, Martin ER: A multiple testing correction method for genetic association studies using correlated single nucleotide polymorphisms. Genet Epidemiol. 2008, 32 (4): 361-369. 10.1002/gepi.20310.
Article
PubMed
Google Scholar
MacLeod IM, Hayes BJ, Savin KW, Chamberlain AJ, McPartlan HC, Goddard ME: Power of a genome scan to detect and locate quantitative trait loci in cattle using dense single nucleotide polymorphisms. J Anim Breed Genet. 2010, 127 (2): 133-142. 10.1111/j.1439-0388.2009.00831.x.
Article
CAS
PubMed
Google Scholar
FASTX-Toolkit. [http://hannonlab.cshl.edu/fastx_toolkit/index.html]
Li H, Durbin R: Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics. 2009, 25 (14): 1754-1760. 10.1093/bioinformatics/btp324.
Article
PubMed Central
CAS
PubMed
Google Scholar
Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R: The Sequence Alignment/Map format and SAMtools. Bioinformatics. 2009, 25 (16): 2078-2079. 10.1093/bioinformatics/btp352.
Article
PubMed Central
PubMed
Google Scholar