Estimation of genetic parameters and detection of quantitative trait loci for metabolites in Danish Holstein milk

Journal of Dairy Science

Volumn 96, Issue 5, 2013, Pages 3285-3295

  Buitenhuis, A J ^a   Sundekilde, U K ^a   Poulsen, N A ^a   Bertram, H C ^a   Larsen, L B ^a   Sorensen P ^a  

^a AARHUS UNIVERSITY   (Denmark)

Author keywords

Bovine milk; Metabolite; Nuclear magnetic resonance spectroscopy; Quantitative trait loci

Indexed keywords

ANIMAL; ANIMAL DISEASE; ARTICLE; CATTLE; CHEMISTRY; DNA MICROARRAY; FEMALE; GENETICS; GENOTYPING TECHNIQUE; LACTATION; MILK; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; QUANTITATIVE TRAIT LOCUS; SINGLE NUCLEOTIDE POLYMORPHISM;

ANIMALS; CATTLE; FEMALE; GENOTYPING TECHNIQUES; LACTATION; MAGNETIC RESONANCE SPECTROSCOPY; MILK; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; POLYMORPHISM, SINGLE NUCLEOTIDE; QUANTITATIVE TRAIT LOCI;

BOS; BOS TAURUS; BOVINAE;

EID: 84876732714     PISSN: 00220302     EISSN: 15253198     Source Type: Journal    
DOI: 10.3168/jds.2012-5914     Document Type: Article

References (49)

1. Ahmed A.A., Porter G.A., McCarthy R.D. Isolation, quantification, and biosynthetic origin of orotic acid in milk. J. Dairy Sci 1978, 61:39-43.
2. Åkerstedt M., Forsbäck L., Larsen T., Svennersten-Sjaunja K. Natural variation in biomarkers indicating mastitis in healthy cows. J. Dairy Res 2011, 78:88-96.
3. Alizadeh A.R., Alikhani M., Ghorbani G.R., Rahmani H.R., Rashidi L., Loor J.J. Effect of feeding roasted safflower seeds (variety IL-111) and fish oil on dry matter intake, performance and milk fatty acid profiles in dairy cattle. J. Anim. Physiol. Anim. Nutr. (Berl.) 2012, 96:466-473.
4. Bertram H.C., Hoppe C., Petersen B.O., Duus J.Ø., Mølgaard C., Michaelsen K.F. An NMR-based metabonomic investigation on effects of milk and meat protein diets given to 8-year-old boys. Br. J. Nutr 2007, 97:758-763.
5. Boichard D., Brochard M. New phenotypes for new breeding goals in dairy cattle. Animal 2012, 6:544-550.
6. Boudonck K.J., Mitchell M.W., Wulff J., Ryals J.A. Characterization of the biochemical variability of bovine milk using metabolomics. Metabolomics 2009, 5:375-386.
7. Bouwman A.C., Schopen G.C.B., Bovenhuis H., Visker M.H.P.W., van Arendonk J.A.M. Genome-wide scan to detect quantitative trait loci for milk urea nitrogen in Dutch Holstein-Friesian cows. J. Dairy Sci 2010, 93:3310-3319.
8. Butler W.R. Review: Effect of protein nutrition on ovarian and uterine physiology in dairy cattle. J. Dairy Sci 1998, 81:2533-2539.
9. Enjalbert F., Nicot M.C., Bayourthe C., Monocoulon R. Ketone bodies in milk and blood of dairy cows: Relationship between concentrations and utilization for detection of subclinical ketosis. J. Dairy Sci 2001, 84:583-589.
10. Frederiksen P.D., Andersen K.K., Hammershøj M., Poulsen H.D., Sørensen J., Bakman M., Qvist K.B., Larsen L.B. Composition and effect of blending of non-, poorly and well coagulating bovine milk from individual Danish Holstein cows. J. Dairy Sci 2011, 94:4787-4799.
11. Geishauser T., Leslie K., Tenhag J., Bashir A. Evaluation of eight cow-side ketone tests in milk for detection of subclinical ketosis in dairy cows. J. Dairy Sci 2000, 83:296-299.
12. Hu F., Furihata K., Ito-Ishida M., Kaminogawa S., Tanokura M. Nondestructive observation of bovine milk by NMR spectroscopy: Analysis of existing states of compounds and detection of new compounds. J. Agric. Food Chem 2004, 52:4969-4974.
13. Jackson R.A., Wills J.R., Kendall N.R., Green M.J., Murray R.D., Dobson H. Energy metabolites in pre- and postpartum dairy cattle as predictors of reproductive disorders. Vet. Rec 2011, 168:562.
14. Jensen H.B., Holland J.W., Poulsen N.A., Larsen L.B. Milk protein variants and isoforms identified in bovine milk representing extremes in coagulation properties. J. Dairy Sci 2012, 95:2891-2903.
15. Jesse B.W., Anderson C.R., Robinson J.L. Bovine milk orotate: Differences between cows and changes during lactation. J. Dairy Sci 1980, 63:235-242.
16. Jones M.E. Pyrimidine nucleotide biosynthesis in animals: Genes, enzymes, and regulation of UMP biosynthesis. Annu. Rev. Biochem 1980, 49:253-279.
17. Katz M.L. Decreased plasma carnitine and trimethyl-l-lysine levels associated with lysosomal accumulation of trimethyl-l-lysine containing protein in Batten disease. Biochim. Biophys. Acta 1996, 1317:192-198.
18. Kettunen J., Tukiainen T., Sarin A.P., Ortega-Alonso A., Tikkanen E., Lyytikäinen L.P., Kangas A.J., Soininen P., Würtz P., Silander K., Dick D.M., Rose R.J., Savolainen M.J., Viikari J., Kähönen M., Lehtimäki T., Pietiläinen K.H., Inouye M., McCarthy M.I., Jula A., Eriksson J., Raitakari O.T., Salomaa V., Kaprio J., Järvelin M.R., Peltonen L., Perola M., Freimer N.B., Ala-Korpela M., Palotie A., Ripatti S. Genome-wide association study identifies multiple loci influencing human serum metabolite levels. Nat. Genet 2012, 44:269-276.
19. Klein M.S., Almstetter M.F., Schlamberger G., Nürnberger N., Dettmer K., Oefner P.J., Meyer H.H.D., Wiedermann S., Gronwald W. Nuclear magnetic resonance and mass spectrometry-based milk metabolomics in dairy cows during early and late lactation. J. Dairy Sci 2010, 93:1539-1550.
20. Klein M.S., Buttchereit N., Miemczyk S.P., Immervoll A.K., Louis C., Wiedemann S., Junge W., Thaller G., Oefner P.J., Gronwald W. NMR metabolic analysis of dairy cows reveals milk glycerophosphocholine to phosphocholine ratio as prognostic biomarker for risk of ketosis. J. Proteome Res 2012, 11:1373-1381.
21. Linzell J.L., Mepham T.B., Peaker M. The secretion of citrate into milk. J. Physiol 1976, 260:739-750.
22. Liu Y., Qin X., Song X.Z., Jiang H., Shen Y., Durbin K.J., Lien S., Kent M.P., Sodeland M., Ren Y., Zhang L., Sodergren E., Havlak P., Worley K.C., Weinstock G.M., Gibbs R.A. Bos taurus genome assembly. BMC Genomics 2009, 10:180.
23. Madsen, P., and J. Jensen. 2007. A User's Guide to DMU: A Package for Analysing Multivariate Mixed Models. Version 6, release 4.7. Aarhus University, Tjele, Denmark.
24. McJarrow P., van Amelsfort-Schoonbeek J. Bovine sialyl oligosaccharides: Seasonal variations in their concentrations in milk and a comparison to the colostrums of Jersey and Friesian cows. Int. Dairy J 2004, 14:571-579.
25. Miglior F., Sewalem A., Jamrozik J., Bohmanova J., Lefebvre D.M., Moore R.K. Genetic analysis of milk urea nitrogen and lactose and their relationship with other production traits in Canadian Holstein cattle. J. Dairy Sci 2007, 90:2468-2479.
26. Mucha S., Strandberg E. Genetic analysis of milk urea nitrogen and relationships with yield and fertility across lactation. J. Dairy Sci 2011, 94:5665-5672.
27. Nicholson G., Rantalainen M., Li J.V., Maher A.D., Malmodin D., Ahmadi K.R., Faber J.H., Barrett A., Min J.L., Rayner N.W., Toft H., Krestyaninova M., Viksna J., Neogi S.G., Dumas M.E., Sarkans U., Donnelly P., Illig T., Adamski J., Suhre K., Allen M., Zondervan K.T., Spector T.D., Nicholson J.K., Lindon J.C., Baunsgaard D., Holmes E., McCarthy M.I., Holmes C.C. A genome-wide metabolic QTL analysis in Europeans implicates two loci shaped by recent positive selection. PLoS Genet 2011, 7:e1002270.
28. Novak A.F., Hauge S.M. Isolation of the unidentified growth factor (Vitamin B13) in distillers' dried solubles. J. Biol. Chem 1948, 174:647-651.
29. Oikonomou G., Valergakis G.E., Arsenos G., Roubies N., Banos G. Genetic profile of body energy and blood metabolic traits across lactation in primiparous Holstein cows. J. Dairy Sci 2008, 91:2814-2822.
30. Page M.A., Williamson D.H. Lactating mammary gland of the rat: A potential major site of ketone-body utilization. Biochem. J 1972, 128:459-460.
31. Pimentel E.C.G., Erbe M., König S., Simianer H. Genome partitioning of genetic variation for milk production and composition traits in Holstein cattle. Front. Genet 2011, 2:19.
32. Reinecke D., Burhenne H., Sandner P., Kaever V., Seifert R. Human cyclic nucleotide phosphodiesterases possess a much broader substrate-specificity than previously appreciated. FEBS Lett 2011, 585:3259-3262.
33. Robinson J.L., Dombrowski D.B., Clark J.H., Shanks R.D. Orotate in milk and urine of dairy cows with a partial deficiency of uridine monophosphate synthase. J. Dairy Sci 1984, 67:1024-1029.
34. Shennan D.B., Peaker M. Transport of milk constituents by the mammary gland. Physiol. Rev 2000, 80:925-951.
35. Stoop W.M., Bovenhuis H., van Arendonk J.A.M. Genetic parameters for milk urea nitrogen in relation to milk production traits. J. Dairy Sci 2007, 90:1981-1986.
36. Stoop W.M., van Arendonk J.A.M., Heck J.M.L., van Valenberg H.J.F., Bovenhuis H. Genetic parameters for major milk fatty acids and milk production traits of Dutch Holstein-Friesians. J. Dairy Sci 2008, 91:385-394.
37. Sundekilde U.K., Frederiksen P.D., Clausen M.R., Larsen L.B., Bertram H.C. Relationship between the metabolite profile and technological properties of bovine milk from two dairy breeds elucidated by NMR-based metabolomics. J. Agric. Food Chem 2011, 59:7360-7367.
38. Sundekilde U.K., Poulsen N., Larsen L.B., Bertram H.C. Nuclear magnetic resonance metabonomics reveals strong association between milk metabolites and somatic cell count in bovine milk. J. Dairy Sci 2013, 96:291-299.
39. Teo Y.Y., Inouye M., Small K.S., Gwilliam R., Deloukas P., Kwiatkowski D.P., Clark T.G. A genotype calling algorithm for the Illumina BeadArray platform. Bioinformatics 2007, 23:2741-2746.
40. Udabage P., McKinnon I.R., Augustin M.A. Effects of mineral salts and calcium chelating agents on the gelation of renneted skim milk. J. Dairy Sci 2001, 84:1569-1575.
41. Ulrich E.L., Akutsu H., Doreleijers J.F., Harano Y., Ioannidis Y.E., Lin J., Livny M., Mading S., Maziuk D., Miller Z., Nakatani E., Schulte C.F., Tolmie D.E., Wenger R.K., Yao H., Markley J.L. BioMagResBank. Nucleic Acids Res 2008, 36(Suppl. 1):D402-D408.
42. Van Tassell C.P., Smith T.P.L., Matukumalli L.K., Taylor J.F., Schnabel R.D., Lawley C.T., Haudenschild C.D., Moore S.S., Warren W.C., Sonstegard T.S. SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries. Nat. Methods 2008, 5:247-252.
43. VanRaden P.M. Efficient methods to compute genomic predictions. J. Dairy Sci 2008, 91:4414-4423.
44. Wishart D.S., Knox C., Guo A.C., Eisner R., Young N., Gautam B., Hau D.D., Psychogios H., Dong E., Bouatra S., Mandal R., Sinelnikov I., Xia J., Jia L., Cruz J.A., Lim E., Sobsey C.A., Shravastava S., Huang P., Liu P., Fang L., Peng J., Fradette R., Cheng D., Tzur D., Clements M., Lewis A., De Souza A., Zuniga A., Dawe M., Xiong Y., Clive D., Greiner R., Nazyrova A., Shaykhutdinov R., Li L., Vogel H.J., Forsythe I. HMDB: A knowledgebase for the human metabolome. Nucleic Acids Res 2009, 37(Suppl. 1):D603-D610.
45. Wood G.M., Boettcher P.J., Kelton D.F., Jansen G.B. Phenotypic and genetic influences on test-day measures of acetone concentration in milk. J. Dairy Sci 2004, 87:1108-1114.
46. Yang J., Benyamin B., McEvoy B.P., Gordon S., Henders A.K., Nyholt D.R., Madden P.A., Heath A.C., Martin N.G., Montgomery G.W., Goddard M.E., Visscher P.M. Common SNPs explain a large proportion of the heritability for human height. Nat. Genet 2010, 42:565-569.
47. Yip M.C., Knox W.E. Function of arginase in lactating mammary gland. Biochem. J 1972, 127:893-899.
48. Zeisel S.H. Choline: Critical role during fetal development and dietary requirements in adults. Annu. Rev. Nutr 2006, 26:229-250.
49. Zeisel S.H., Mar M.H., Howe J.C., Holden J.M. Concentrations of choline-containing compounds and betaine in common foods. J. Nutr 2003, 133:1302-1307.