Professor David MacHugh

Research

Professor David MacHugh BA PHD

Book Chapters:

Hill EW, Katz LM, MacHugh DE (2011) 'Genomics of Performance' In: Equine Genomics. unknown: unknown. [Details]

Meghen, C.,MacHugh, D.E.,Sauveroche, B.,Kana, G.,Bradley, D.G. (2000) 'Characterisation of the Kuri cattle of Lake Chad using molecular genetic techniques' In: The origins and development of African livestock : archaeology, genetics, linguistics, and ethnography. London ; New York, NY: UCL Press. [Details]

MacHugh, D.E.,Loftus, R.T.,Troy, C.S.,Bradley, D.G. (1998) 'DNA analysis and the origins and history of domesticated cattle' In: Archaeozoology of the Near East III. Groningen, The Netherlands: ARC-Publications 18. [Details]

Bradley, D.G.,MacHugh, D.E.,Loftus, R.T.,Meghen, C.,Sharp, P.M.,Cunningham, E. P. (1993) 'Genetic characterisation of indigenous cattle breeds: first results and implications for genetic improvement' In: Amélioration génétique des bovins en Afrique de l'Ouest. Rome: FAO Animal Production and Health Paper. [Details]

Peer Reviewed Journals:

Hill, E.W., Fonseca, R.G., McGivney, B.A., Gu, J., MacHugh, D.E., Katz, L.M. (2011) 'MSTN genotype (g. 66493737 C>T) association with speed indices in Thoroughbred racehorses'. Journal of Applied Physiology, .

[DOI] [Details]

Eivers, S.S., McGivney, B.A., Gu J., MacHugh, D.E., Katz, L.M., Hill, E.W. (2011) 'PGC-1α encoded by the PPARGC1A gene regulates oxidative energy metabolism in equine skeletal muscle during exercise'. Animal Genetics, .

[DOI] [Details]

Taraktsoglou, M., Szalabska, U., Magee, D.A., Browne, J.A., Sweeney, T., Gormley, E., MacHugh, D.E. (2011) 'Transcriptional profiling of immune genes in bovine monocyte-derived macrophages exposed to bacterial antigens'. Veterinary Immunology and Immunopathology, 140 :130-139.

[DOI] [Details]

Magee, D.A.,Berry, D.P., Berkowicz, E.W., Sikora, K.M., Howard, D.J., Mullen, M.P., Evans, R.D.,Spillane, C., MacHugh, D.E. (2011) 'Single nucleotide polymorphisms within the bovine DLK1-DIO3 imprinted domain are associated with economically important production traits in cattle'. JOURNAL OF HEREDITY, 102 :94-101.

[DOI] [Details]

Sikora K.M., Magee D.A., Berkowicz E.W., Berry D.P., Howard D.J., Mullen M.P., Evans R.D., Machugh D.E., Spillane C. (2011) 'DNA sequence polymorphisms within the bovine guanine nucleotide-binding protein Gs subunit alpha (Gsα)-encoding (GNAS) genomic imprinting domain are associated with performance traits'. BMC Genetics, 12 .

[DOI] [Details]

Berkowicz, E.W., Magee, D.A., Sikora, K.M., Berry, D.P., Howard, D.J., Mullen, M.P., Evans, R.D., Spillane, C., MacHugh, D.E. (2011) 'Single nucleotide polymorphisms at the imprinted bovine insulin-like growth factor 2 (IGF2) locus are associated with dairy performance in Irish Holstein-Friesian cattle'. Journal of Dairy Research, 78 :1-8.

[DOI] [Details]

Waters, S.M., McCabe, M.S., Howard, D.J., Giblin, L., Magee, D.A., MacHugh, D.E., Berry, D.P. (2011) 'Associations between newly discovered polymorphisms in the Bos taurus growth hormone receptor gene and performance traits in Holstein-Friesian dairy cattle'. Animal Genetics, 42 :39-49. [DOI] [Details]
Mullen, MP,Berry, DP,Howard, DJ,Diskin, MG,Lynch, CO,Berkowicz, EW,Magee, DA,MacHugh, DE,Waters, SM (2010) 'Associations between novel single nucleotide polymorphisms in the Bos taurus growth hormone gene and performance traits in Holstein-Friesian dairy cattle'. Journal of dairy science, 93 :5959-5969. [DOI] [Details]
Magee, DA,Berkowicz, EW,Sikora, KM,Berry, DP,Park, SDE,Kelly, AK,Sweeney, T,Kenny, DA,Evans, RD,Wickham, BW,Spillane, C,MacHugh, DE (2010) 'A catalogue of validated single nucleotide polymorphisms in bovine orthologs of mammalian imprinted genes and associations with beef production traits'. Animal, 4 :1958-1970. [DOI] [Details]
Edwards CJ, Magee DA, Park SD, McGettigan PA, Lohan AJ, Murphy A, Finlay EK, Shapiro B, Chamberlain AT, Richards MB, Bradley DG, Loftus BJ, Machugh DE. (2010) 'A complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius)'. PLoS ONE, . [Details]
Hill, E.W., Gu, J., McGivney, B.A., MacHugh, D.E. (2010) 'Targets of selection in the Thoroughbred genome contain exercise-relevant gene SNPs associated with elite racecourse performance'. Animal Genetics, 41 (Suppl 2):56-63. [DOI] [Details]
Orr N, Back W, Gu J, Leegwater P, Govindarajan P, Conroy J, Ducro B, Van Arendonk JAM, MacHugh DE, Ennis S, Hill EW, Brama PAJ (2010) 'Genome-wide SNP association-based localization of a dwarfism gene in Friesian dwarf horses'. Animal Genetics, 41 (suppl. 2):2-7. [DOI] [Details]
Magee, D.A., Sikora, K.M., Berkowicz, E.W., Berry, D.P., Howard, D.J., Mullen, M.P., Evans, R.D., Spillane, C., MacHugh, D.E. (2010) 'DNA sequence polymorphisms in a panel of eight candidate bovine imprinted genes and their association with performance traits in Irish Holstein-Friesian cattle'. BMC Genetics, 11 . [DOI] [Details]
Magee, D.A., Berry, D.P., Berkowicz, E.W., Sikora, K.M., Howard, D.J., Mullen, M.P., Evans, R.D., Spillane, C., Machugh, D.E. (2010) 'Single nucleotide polymorphisms within the bovine DLK1-DIO3 imprinted domain are associated with economically important production traits in cattle'. J Hered, . [Details]
Hill, E.W., Eivers, S.S., McGivney, B.A., Fonseca, R.G., Gu, J., Smith, N.A., Browne, J.A., MacHugh, D.E., Katz, L.M. (2010) 'Moderate and high intensity sprint exercise induce differential responses in COX4I2 and PDK4 gene expression in Thoroughbred horse skeletal muscle'. Equine Veterinary Journal, 42 :576-581576. [DOI] [Details]
Gu, J., MacHugh, D.E., McGivney, B.A., Park, S.D.E., Katz, L.M., Hill, E.W. (2010) 'Association of sequence variants in CKM (creatine kinase, muscle) and COX4I2 (cytochrome c oxidase, subunit 4, isoform 2) genes with racing performance in Thoroughbred horses'. Equine Veterinary Journal, 42 :569-575569. [DOI] [Details]
Magee, D.A., Berkowicz, E.W., Sikora, K.M., Sweeney, T., Kenny, D.A., Kelly, A.K., Evans, R.D., Wickham, B.W., Bradley, D.G., Spillane, C., MacHugh, D.E. (2010) 'High concordance of bovine single nucleotide polymorphism genotypes generated using two independent genotyping strategies'. Animal biotechnology, 21 (4):257-262. [DOI] [Details]
Murphy, AM,Meade, KG,Hayes, PA,Park, SDE,Evans, ACO,Lonergan, P,MacHugh, DE (2008) 'Transmission ratio distortion at the growth hormone gene (GH1) in bovine preimplantation embryos: An in vitro culture-induced phenomenon?'. Molecular Reproduction and Development, 75 (NA):715-722. [DOI] [Details]
McGivney, B.A., McGettigan, P.A., Browne, J.A., Evans, A.C., Fonseca, R.G., Loftus, B.J., Lohan, A., MacHugh, D.E., Murphy, B.A., Katz, L. M., Hill, E.W. (2010) 'Characterization of the equine skeletal muscle transcriptome identifies novel functional responses to exercise training'. BMC Genomics, 11 (null):398398-null. [DOI] [Details]
Magee, D.A., Park, S.D., Scraggs, E., Murphy, A.M., Doherty, M.L., Kijas, J.W., International Sheep Genomics, Consortium, Machugh, D.E. (2010) 'Technical note: High fidelity of whole-genome amplified sheep (Ovis aries) DNA using a high-density single nucleotide polymorphism array-based genotyping platform'. Journal of Animal Science, . [Details]
Hill EW, Gu J, Eivers SS, Fonseca RG, McGivney BA, Govindarajan P, Orr N, Katz LM, MacHugh DE (2010) 'A sequence polymorphism in MSTN predicts sprinting ability and racing stamina in thoroughbred horses'. PLoS ONE, 5 (1):null-null. [DOI] [Details]
Machugh DE, Edwards CJ, Magee DA, Park SD, McGettigan PA, Lohan AJ, Murphy A, Finlay EK, Shapiro B, Chamberlain AT, Richards MB, Bradley DG, Loftus BJ, (2010) 'A complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius)'. PLoS ONE, 5 (2). [DOI] [Details]
Eivers SS, McGivney BA, Fonseca RG, MacHugh DE, Menson K, Park SD, Rivero JLL, Taylor CT, Katz LM, Hill EW (2010) 'Alterations in oxidative gene expression in equine skeletal muscle following exercise and training'. Physiological Genomics, 40 (2):83-93. [DOI] [Details]
Meade KG, O'Gorman GM, Hill EW, Narciandi F, Agaba M, Kemp SJ, O'Farrelly C, MacHugh DE (2009) 'Divergent antimicrobial peptide (AMP) and acute phase protein (APP) responses to Trypanosoma congolense infection in trypanotolerant and trypanosusceptible cattle'. Molecular immunology, 47 :196-204. [DOI] [Details]
McGivney BA, Eivers SS, MacHugh DE, MacLeod JN, O'Gorman GM, Park SD, Katz LM, Hill EW (2009) 'Transcriptional adaptations following exercise in thoroughbred horse skeletal muscle highlights molecular mechanisms that lead to muscle hypertrophy'. BMC Genomics, 10 . [DOI] [Details]
Berry DP, McParland S, Kearney JF, Machugh DE, (2008) 'Inbreeding effects on postweaning production traits, conformation, and calving performance in Irish beef cattle'. Journal of Animal Science, 86 (12):3338-3347. [DOI] [Details]
O¿Gorman, G.M., Park, S.D.E. Hill, E.W. Meade, K.G. Coussens, P.M. Agaba, M., Naessens, J., Kemp, S.J., MacHugh, D.E. (2008) 'Gene expression changes in peripheral blood mononuclear cells (PBMC) from African cattle infected with Trypanosoma congolense0 revealed by transcriptional profiling'. BMC Genomics, (in press) . [Details]
MacHugh DE, Meade KG, Gormley E, O'Farrelly C, Park SD, Costello E, Keane J, Zhao Y, (2008) 'Antigen stimulation of peripheral blood mononuclear cells from Mycobacterium bovis infected cattle yields evidence for a novel gene expression program'. BMC Genomics, 9 . [DOI] [Details]
Gu J, Orr N, Park SD, Katz LM, Sulimova G, MacHugh DE, Hill EW (2009) 'A genome scan for positive selection in thoroughbred horses'. PLoS ONE, 4 (6). [DOI] [Details]
Machugh DE, Gormley E, Park SD, Browne JA, Taraktsoglou M, O'Farrelly C, Meade KG (2009) 'Gene Expression Profiling of the Host Response to Mycobacterium bovis Infection in Cattle'. Transboundary and emerging diseases, . [DOI] [Details]
Hill EW, McGivney BA, Gu J, Whiston R, MacHugh DE (2010) 'A genome-wide SNP-association study confirms a sequence variant (g.66493737C>T) in the equine myostatin (MSTN) gene as the most powerful predictor of optimum racing distance for Thoroughbred racehorses'. BMC Genomics, 11 (1):552-null. [DOI] [Details]
Mc Parland, S., Kearney, J.F., MacHugh, D.E., Berry, D.P. (2008) 'Inbreeding effects on post-weaning production traits, conformation, and calving performance in Irish beef cattle'. Journal of Animal Science, . [Details]
Meade, K.G., Gormley, E. O¿Farrelly, C. Park, S.D., Costello, E., Keane, J., Zhao, Y., MacHugh, D.E. (2008) 'Antigen stimulation of peripheral blood mononuclear cells from Mycobacterium bovis0 infected cattle yields evidence for a novel gene expression program'. BMC Genomics, 9 . [DOI] [Details]
Bahar, B., Monahan, F.J., Moloney, A.P., Schmidt, O., Machugh, D.E., Sweeney, T. (2007) 'Long-term stability of RNA in post-mortem bovine skeletal muscle, liver and subcutaneous adipose tissues'. BMC Molecular Biology, 8 :108-115. [Details]
Meade, K.G., Gormley, E., Doyle, M.B., Fitzsimons, T., O' Farrelly C., Costello, E., Keane, J., Zhao, Y., MacHugh, D.E. (2007) 'Innate gene repression associated with Mycobacterium bovis infection in cattle: toward a gene signature of disease'. BMC Genomics, 8 (1). [Details]
Edwards, C.J., Baird, J.F., MacHugh, D.E. (2007) 'Taurine and zebu admixture in Near Eastern cattle: a comparison of mitochondrial, autosomal and Y-chromosomal data'. Animal Genetics, 38 (5):520-524. [Details]
Murphy, A.M., MacHugh, D.E., Park, S.D.E., Scraggs, E., Haley, C.S., Lynn, D.J., Boland, M.P., Doherty, M.L. (2007) 'Linkage mapping of the locus for inherited ovine arthrogryposis (IOA) to sheep Chromosome 5'. Mammalian Genome, 18 (1):43-52. [Details]
O'Gorman, GM; Park, SDE; Hill, EW; Meade, KG; Mitchell, LC; Agaba, M; Gibson, JP; Hanotte, O; Naessens, J; Kemp, SJ; MacHugh, DE; (2006) 'Cytokine mRNA profiling of peripheral blood mononuclear cells from trypanotolerant and trypanosusceptible cattle infected with Trypanosoma congolense'. Physiological genomics, 28 (1):53-61. [Details]
McGahern, A.M., Edwards, C.J., Bower, M.A., Heffernan, A., Park, S.D.E., Brophy, P.O., Bradley, D.G., MacHugh, D.E., Hill, E.W. (2006) 'Mitochondrial DNA sequence diversity in extant Irish horse populations and in ancient horses'. Animal Genetics, 37 (5):498-502. [Details]
Meade, K.G., Gormley, E., Park, S.D.E., Fitzsimons, T., Rosa, G.J.M., Costello, E., Keane, J., Coussens, P.M., MacHugh, D.E. (2006) 'Gene expression profiling of peripheral blood mononuclear cells (PBMC) from Mycobacterium bovis infected cattle after in vitro antigenic stimulation with purified protein derivative of tuberculin (PPD)'. Veterinary Immunology and Immunopathology, 113 (1-2):73-89. [Details]
Edwards, CJ; MacHugh, DE; Dobney, KM; Martin, L; Russell, N; Horwitz, LK; McIntosh, SK; MacDonald, KC; Helmer, D; Tresset, A; Vigne, JD; Bradley, DG; (2004) 'Ancient DNA analysis of 101 cattle remains: limits and prospects'. JOURNAL OF ARCHAEOLOGICAL SCIENCE, 31 (6):695-710. [Details]
Edwards, CJ; Connellan, J; Wallace, PF; Park, SDE; McCormick, FM; Olsaker, I; Eythorsdottir, E; MacHugh, DE; Bailey, JF; Bradley, DG; (2003) 'Feasibility and utility of microsatellite markers in archaeological cattle remains from a Viking Age settlement in Dublin'. Animal Genetics, 34 (6):410-416. [Details]
Troy, CS; MacHugh, DE; Bailey, JF; Magee, DA; Loftus, RT; Cunningham, P; Chamberlain, AT; Sykes, BC; Bradley, DG; (2001) 'Genetic evidence for Near-Eastern origins of European cattle'. Nature, 410 (6832):1088-1091. [Details]
Fitzgerald, D.C., Meade, K.G., McEvoy, A.N., Lillis, L., Murphy, E.P., Machugh, D.E., Baird, A.W. (2007) 'Tumour necrosis factor-alpha (TNF-alpha) increases nuclear factor kappaB (NFkappaB) activity in and interleukin-8 (IL-8) release from bovine mammary epithelial cells'. Veterinary Immunology and Immunopathology, 116 (1-2):59-68. [Details]
McGahern, A., Bower, M.A., Edwards, C.J., Brophy, P.O., Sulimova, G., Zakharov, I., Vizuete-Forster, M., Levine, M., Li, S., Machugh, D.E., Hill, E.W. (2006) 'Evidence for biogeographic patterning of mitochondrial DNA sequences in Eastern horse populations'. Animal Genetics, 37 (5):494-7. [Details]
Hill, EW; O'Gorman, GM; Agaba, M; Gibson, JP; Hanotte, O; Kemp, SJ; Naessens, J; Coussens, PM; MacHugh, DE; (2005) 'Understanding bovine trypanosomiasis and trypanotolerance: the promise of functional genomics'. Veterinary Immunology and Immunopathology, 105 (3-4):247-258. [Details]
Meade, K.G., Hill, E.W., Buckley, F., MacHugh, D.E. (2005) 'Convenient detection of single nucleotide polymorphism (SNP) haplotypes in the bovine growth hormone gene using amplification-created restriction sites (ACRS)'. Animal Genetics, 36 (2):175-177. [Details]
Freeman, A. R.,Meghen, C. M.,Machugh, D. E.,Loftus, R. T.,Achukwi, M. D.,Bado, A.,Sauveroche, B.,Bradley, D. G. (2004) 'Admixture and diversity in West African cattle populations'. Molecular Ecology, 13 (11):3477-87. [Details]
Freeman, AR; MacHugh, DE; McKeown, S; Walzer, C; McConnell, DJ; Bradley, DG; (2001) 'Sequence variation in the mitochondrial DNA control region of wild African cheetahs (Acinonyx jubatus)'. Heredity, 86 (NA):355-362. [Details]
MacHugh, D. E.,Bradley, D. G. (2001) 'Livestock genetic origins: goats buck the trend'. Proceedings of the National Academy of Sciences of the United States of America, 98 (10):5382-4. [Details]
Edwards, CJ; Gaillard, C; Bradley, DG; MacHugh, DE; (2000) 'Y-specific microsatellite polymorphisms in a range of bovid species'. Animal Genetics, 31 (2):127-130. [Details]
MacHugh, D.E.,Edwards, C.J.,Bailey, J.F.,Bancroft, D.R.,Bradley, D.G. (2000) 'The extraction and analysis of ancient DNA from bone and teeth: a survey of current methodologies'. Ancient Biomolecules, 3 :81-102. [Details]
Ritz, L. R.,Glowatzki-Mullis, M. L.,MacHugh, D. E.,Gaillard, C. (2000) 'Phylogenetic analysis of the tribe Bovini using microsatellites'. Animal Genetics, 31 (3):178-85. [Details]
Loftus, R.T., Ertugrul, O., Harba, A. H., El-Barody, M.A., MacHugh, D.E., Park, S.D., Bradley, D.G. (1999) 'A microsatellite survey of cattle from a centre of origin: the Near East'. Molecular Ecology, 8 (12):2015-22. [Details]
MacHugh, D. E.,Troy, C. S.,McCormick, F.,Olsaker, I.,Eythorsdottir, E.,Bradley, D. G. (1999) 'Early medieval cattle remains from a Scandinavian settlement in Dublin: genetic analysis and comparison with extant breeds'. Philosophical Transactions of the Royal Society, London, 354 (1379):99-108; disc. [Details]
Loftus, R. T.,MacHugh, D. E.,Cunningham, P.,Bradley, D. G. (1999) 'Animal domestication'. Science, 283 (5400):329-330. [Details]
MacHugh, D.E., Loftus, R.T., Cunningham, P., Bradley, D.G. (1998) 'Genetic structure of seven European cattle breeds assessed using 20 microsatellite markers'. Animal Genetics, 29 (5):333-40. [Details]
Meghen, C.N., Scott, C.S., Bradley, D.G., MacHugh, D.E., Loftus, R.T., Cunningham, E.P. (1998) 'DNA based traceability techniques for the meat industry'. Animal Genetics, 29, (Suppl. 1) :48-49. [Details]
Bradley, D. G.,Loftus, R. T.,Cunningham, P.,MacHugh, D. E. (1998) 'Genetics and domestic cattle origins'. Evolutionary Anthropology, 6 (3):79-86. [Details]
MacHugh, D. E.,Shriver, M. D.,Loftus, R. T.,Cunningham, P.,Bradley, D. G. (1997) 'Microsatellite DNA variation and the evolution, domestication and phylogeography of taurine and zebu cattle (Bos taurus and Bos indicus)'. Genetics, 146 (3):1071-86. [Details]
Bradley, D. G.,MacHugh, D. E.,Cunningham, P.,Loftus, R. T. (1996) 'Mitochondrial diversity and the origins of African and European cattle'. Proceedings of the National Academy of Sciences of the United States of America, 93 (10):5131-5. [Details]
Loftus, R.T., MacHugh, D.E., Bradley, D.G., Sharp, P.M., Cunningham, P. (1994) 'Evidence for two independent domestications of cattle'. Proceedings of the National Academy of Sciences of the United States of America, 91 (7):2757-61. [Details]
MacHugh, D.E., Loftus, R.T., Bradley, D.G., Sharp, P.M., Cunningham, P. (1994) 'Microsatellite DNA variation within and among European cattle breeds'. Proceedings of the Royal Society, Series B, 256 (1345):25-31. [Details]
Meghen, C., MacHugh, D.E., Bradley, D.G. (1994) 'Genetic characterisation and West African cattle'. World Animal Review, 78 :59-66. [Details]
Loftus, R.T., MacHugh, D.E., Ngere, L.O., Balain, D.S., Badi, A.M., Bradley, D.G., Cunningham, E.P. (1994) 'Mitochondrial genetic variation in European, African and Indian cattle populations'. Animal Genetics, 25 (4):265-71. [Details]
Bradley, D.G., MacHugh, D.E., Loftus, R.T., Sow, R.S., Hoste, C.H., Cunningham, E.P. (1994) 'Zebu-taurine variation in Y chromosomal DNA: a sensitive assay for genetic introgression in west African trypanotolerant cattle populations'. Animal Genetics, 25 (1):7-12. [Details]
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Conference Publications:

Quinn, K.M., Hennessy, K.D., MacHugh, D.E., Feely, D., & Brophy, P.O. (2007) Genetic parameters for showjumping ability in young horse competitions in Ireland European Association of Animal Production [Details]

Quinn. K.M, Hennessy, K.D., MacHugh, D.E., Feely, D., & Brophy, P.O., (2007) Sport horse and pony breeding in Ireland European Association of Animal Production [Details]

Bahar, B., Monahan, F.J., Moloney, A.P., Schmidt, O., MacHugh, D.E. & Sweeney, T. (2006) Stability of gene transcripts in post-mortem bovine skeletal muscle 2nd International Symposium on Animal Functional Genomics Michigan State University, East Lansing, U.S, , 16-MAY-06 - 19-MAY-06 , pp.13-* [Details]

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