Detection of genetic association and functional polymorphisms of UGDH affecting milk production trait in Chinese Holstein cattle

BMC Genomics

Volumn 13, Issue 1, 2012, Pages

  Xu, Qing ^b   Mei, Gui ^c   Sun, Dongxiao ^a   Zhang, Qin ^a   Zhang, Yuan ^a   Yin, Cengceng ^a   Chen, Huiyong ^a   Ding, Xiangdong ^a   Liu, Jianfeng ^a  

^a CHINA AGRICULTURAL UNIVERSITY   (China)

^b BEIJING JIAOTONG UNIVERSITY   (China)

^c INSTITUTE OF ANIMAL SCIENCE   (China)

Author keywords

BTA6; Dairy cattle; Function validation; Milk traits; Positional candidate; UGDH

Indexed keywords

COMPLEMENTARY DNA; URIDINE DIPHOSPHATE GLUCOSE DEHYDROGENASE;

ANIMAL CELL; ANIMAL GENETICS; ARTICLE; BLOOD SAMPLING; CATTLE; CHINESE HOLSTEIN CATTLE; CHROMOSOME 6; CONTROLLED STUDY; DNA POLYMORPHISM; EXON; GENE; GENE FUNCTION; GENE MAPPING; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC ASSOCIATION; GENETIC VARIABILITY; HAPLOTYPE; KLF3 GENE; LIAS GENE; LOC511583 GENE; LOC514842 GENE; LOC514925 GENE; LOC528668 GENE; MILK PRODUCTION; NONHUMAN; PHENOTYPE; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN LOCALIZATION; QUANTITATIVE TRAIT LOCUS; RPL9 GENE; SINGLE NUCLEOTIDE POLYMORPHISM; TBC1D1 GENE; TLR1 GENE; TLR10 GENE; TLR6 GENE; TMEM156 GENE; UGDH GENE; WRD19 GENE;

ALLELES; ANIMALS; CATTLE; CERCOPITHECUS AETHIOPS; CHINA; CHROMOSOME MAPPING; CLONING, MOLECULAR; COS CELLS; FEMALE; GENOME; GENOTYPE; HAPLOTYPES; MILK; MUTAGENESIS; POLYMORPHISM, SINGLE NUCLEOTIDE; QUANTITATIVE TRAIT LOCI; TRANSFECTION; URIDINE DIPHOSPHATE GLUCOSE DEHYDROGENASE;

BOS; BOVINAE;

EID: 84868255400     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-13-590     Document Type: Article

References (28)

1. Khatkar MS, Thomson PC, Tammen I, Raadsma HW. Quantitative trait loci mapping in dairy cattle: review and meta-analysis. Genet Sel Evol 2004, 36:163-190. 10.1186/1297-9686-36-2-163, 2697184, 15040897.
2. Georges M, Nielsen D, Mackinnon M, Mishra A, Okimoto R, Pasquino AT, Sargeant LS, Sorensen A, Steele MR, Zhao X. Mapping quantitative trait loci controlling milk production in dairy cattle by exploiting progeny testing. Genetics 1995, 139:907-920. 1206390, 7713441.
3. Watanabe M, Nikaido M, Tsuda TT, Kobayashi T, Mindell D, Cao Y, Okada N, Hasegawa M. New candidate species most closely related to penguins. Gene 2006, 378:65-73.
4. Grisart B, Farnir F, Karim L, Cambisano N, Kim JJ, Kvasz A, Mni M, Simon P, Frère JM, Coppieters W, Georges M. Genetic and functional confirmation of the causality of the DGAT1 K232A quantitative trait nucleotide in affecting milk yield and composition. Proc Natl Acad Sci USA 2004, 101:2398-2403. 10.1073/pnas.0308518100, 356962, 14983021.
5. Blott S, Kim JJ, Moisio S, Schmidt-Kuntzel A, Cornet A, Berzi P, Cambisano N, Ford C, Grisart B, Johnson D, Karim L, Simon P, Snell R, Spelman R, Wong J, Vilkki J, Georges M, Farnir F, Coppieters W. Molecular dissection of a quantitative trait locus: a phenylalanine-to-tyrosine substitution in the transmembrane domain of the bovine growth hormone receptor is associated with a major effect on milk yield and composition. Genetics 2003, 163:253-266. 1462408, 12586713.
6. Schnabel RD, Kim JJ, Ashwell MS, Sonstegard TS, Van Tassell CP, Connor EE, Taylor JF. Fine-mapping milk production quantitative trait loci on BTA6: analysis of the bovine osteopontin gene. Proc Natl Acad Sci USA 2005, 102:6896-6901. 10.1073/pnas.0502398102, 1100795, 15867146.
7. Cohen-Zinder M, Seroussi E, Larkin DM, Loor JJ, Everts-van der Wind A, Lee JH, Drackley JK, Band MR, Hernandez AG, Shani M, Lewin HA, Weller JI, Ron M. Identification of a missense mutation in the bovine ABCG2 gene with a major effect on the QTL on chromosome 6 affecting milk yield and composition in Holstein cattle. Genome Res 2005, 15:936-944. 10.1101/gr.3806705, 1172037, 15998908.
8. Chen HY, Zhang Q, Wang CK, Shu J, Mei G, Yin CC, Hu F, Xu JJ, Gong WJ, Li HJ, Qiu XT. Mapping QTLs on BTA6 affecting milk production traits in a Chinese Holstein population. Chin Sci Bull 2005, 50:1737-1742.
9. Chen HY, Zhang Q, Yin CC, Wang CK, Gong WJ, Mei G. Detection of quantitative trait loci affecting milk production traits on bovine chromosome 6 in a Chinese Holstein population by the daughter design. J Dairy Sci 2006, 89:782-790. 10.3168/jds.S0022-0302(06)72140-3, 16428646.
10. Zhang Q, Boichard D, Hoeschele I, Ernst C, Eggen A, murkve B, Pfister-Genskow M, Witte LA, Grignola FE, Uimari P, Thaller G, Bishop MD. Mapping quantitative trait loci for milk production and health of dairy cattle in a large outbred pedigree. Genetics 1998, 149:1959-1973. 1460288, 9691050.
11. 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, 30:136-143. 10.1046/j.1365-2052.1999.00435.x, 10376304.
12. Szyda J, Liu Z, Reinhardt F, Reents R. Estimation of quantitative trait loci parameters for milk production traits in German Holstein dairy cattle population. J Dairy Sci 2005, 88:356-367. 10.3168/jds.S0022-0302(05)72695-3, 15591400.
13. Harder B, Bennewitz J, Reinsch N, Thaller G, Thomsen H, Kuhn C, Schwerin M, Erhardt G, Förster M, Reinhardt F, Kalm E. Mapping of quantitative trait loci for lactation persistency traits in German Holstein dairy cattle. J Anim Breed Genet 2006, 123:89-96. 10.1111/j.1439-0388.2006.00577.x, 16533362.
14. Mei G, Yin C, Ding X, Zhang Q. Fine mapping quantitative trait loci affecting milk production traits on bovine chromosome 6 in a Chinese Holstein population. J Genet Genomics 2009, 36:653-660. 10.1016/S1673-8527(08)60157-5, 19932461.
15. Weikard R, Goldammer T, Laurent P, Womack JE, Kuehn C. A gene-based high-resolution comparative radiation hybrid map as a framework for genome sequence assembly of a bovine chromosome 6 region associated with QTL for growth, body composition, and milk performance traits. BMC Genomics 2006, 7:53. 10.1186/1471-2164-7-53, 1475854, 16542434.
16. Everts-van der Wind A, Kata SR, Band MR, Rebeiz M, Larkin DM, Everts RE, Green CA, Liu L, Natarajan S, Goldammer T, Lee JH, McKay S, Womack JE, Lewin HA. A 1463 gene cattle-human comparative map with anchor points defined by human genome sequence coordinates. Genome Res 2004, 14:1424-1437. 10.1101/gr.2554404, 442159, 15231756.
17. Everts-van der Wind A, Larkin DM, Green CA, Elliott JS, Olmstead CA, Chiu R, Schein JE, Marra MA, Womack JE, Lewin HA. A high-resolution whole-genome cattle-human comparative map reveals details of mammalian chromosome evolution. Proc Natl Acad Sci USA 2005, 102:18526-18531. 10.1073/pnas.0509285102, 1317968, 16339895.
18. Trochon V, Mabilat C, Bertrand P, Legrand Y, Smadja-Joffe F, Soria C, Delpech B, Lu H. Evidence of involvement of CD44 in endothelial cell proliferation, migration and angiogenesis in vitro. Int J Cancer 1996, 66:C664-668.
19. Iozzo RV, Murdoch AD. Proteoglycans of the extracellular environment: clues from the gene and protein side offer novel perspectives in molecular diversity and function. FASEB J 1996, 10:598-614.
20. Ropponen K, Tammi M, Parkkinen J, Eskelinen M, Tammi R, Lipponen P, Agren U, Alhava E, Kosma VM. Tumor cell-associated hyaluronan as an unfavorable prognostic factor in colorectal cancer. Cancer Res 1998, 58:342-347.
21. Auvinen P, Tammi R, Parkkinen J, Tammi M, Agren U, Johansson R, Hirvikoski P, Eskelinen M, Kosma VM. Hyaluronan in peritumoral stroma and malignant cells associates with breast cancer spreading and predicts survival. Am J Pathol 2000, 156:529-536. 10.1016/S0002-9440(10)64757-8, 1850058, 10666382.
22. Aaltomaa S, Lipponen P, Tammi R, Tammi M, Viitanen J, Kankkunen JP, Kosma VM. Strong Stromal Hyaluronan Expression Is Associated with PSA Recurrence in Local Prostate Cancer. Urol Int 2002, 69:266-272. 10.1159/000066123, 12444281.
23. Barrett JC, Fry B, Maller J, Daly MJ. Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics 2005, 21:263-265. 10.1093/bioinformatics/bth457, 15297300.
24. Ding X, Zhang Q, Flury C, Simianer H. Haplotype reconstruction and estimation of haplotype frequencies from nuclear families with only one parent available. Hum Hered 2006, 62:12-19. 10.1159/000095598, 16954697.
25. Winer J, Jung CK, Shackel I, Williams PM. Development and validation of real-time quantitative reverse transcriptase-polymerase chain reaction for monitoring gene expression in cardiac myocytes in vitro. Anal Biochem 1999, 270:41-9. 10.1006/abio.1999.4085, 10328763.
26. Kanda A, Chen W, Othman M, Branham KE, Brooks M, Khanna R, He S, Lyons R, Abecasis GR, Swaroop A. A variant of mitochondrial protein LOC387715/ARMS2, not HTRA1, is strongly associated with age-related macular degeneration. Proc Natl Acad Sci USA 2007, 104:16227-16232. 10.1073/pnas.0703933104, 1987388, 17884985.
27. Kimchi-Sarfaty C, Oh JM, Kim IW, Sauna ZE, Calcagno AM, Ambudkar SV, Gottesman MM. A "silent" polymorphism in the MDR1 gene changes substrate specificity. Science 2007, 315:525-528. 10.1126/science.1135308, 17185560.
28. Nackley AG, Shabalina SA, Tchivileva IE, Satterfield K, Korchynskyi O, Makarov SS, Maixner W, Diatchenko L. Human catechol-O-methyltransferase haplotypes modulate protein expression by altering mRNA secondary structure. Science 2006, 314:1930-1933. 10.1126/science.1131262, 17185601.