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2009 Science publications for the Centre for Reproduction and Genomics

• Conference papers
• Book chapters
• Theses

Journal articles

• Abdelkrim J., Robertson B., Stanton J.A., Gemmell N. (2009) Fast, cost-effective development of species-specific microsatellite markers by genomic sequencing. BioTechniques 46:185-92.
• Bartolo R.C., Harfoot N., Gill M., Demmers K., McLeod B., Butt A.G. (2009) Electrogenic Cl(-) secretion does not occur in the ileum of the Australian common brushtail possum, Trichosurus vulpecula, due to low levels of expression of the NaK2Cl cotransporter, NKCC1. Journal of Comparative Physiology. B, Biochemical, systemic, and environmental physiology 179:997-1010.
• Bartolo R.C., Harfoot N., Gill M., McLeod B.J., Butt A.G. (2009) Secretagogues stimulate electrogenic HCO3- secretion in the ileum of the brushtail possum, Trichosurus vulpecula: evidence for the role of a Na+/HCO3- cotransporter. The Journal of Experimental Biology 212:2645-55.
• Buschiazzo E., Gemmell N.J. (2009) Evolutionary and phylogenetic significance of platypus microsatellites conserved in vertebrate genomes. Australian Journal of Zoology 55:175-184.
• Clarke S.M., Cristescu S.M., Miersch O., Harren F.J., Wasternack C., Mur L.A. (2009) Jasmonates act with salicylic acid to confer basal thermotolerance in Arabidopsis thaliana. The New Phytologist 182:175-87.
• Clow A., Gaynor P., Oback B. (2009) Coplanar film electrodes facilitate bovine nuclear transfer cloning. Biomedical Microdevices 11:851-9.
• Everett-Hincks J.M., Cullen N.G. (2009) Genetic parameters for ewe rearing performance. Journal of Animal Science 87:2753-8.
• Fisher P.J., Malthus B., Walker M.C., Corbett G., Spelman R.J. (2009) The number of single nucleotide polymorphisms and on-farm data required for whole-herd parentage testing in dairy cattle herds. Journal of Dairy Science 92:369-74.
• Fouquet A., Green D.M., Waldman B., Bowsher J.H., McBride K., Gemmell N.J. (2009) Phylogeography of Leiopelma hochstetteriM reveals strong genetic structure and suggests new conservation priorities. Conservation Genetics.
• Goldstien S.J., Schiel D.R., Gemmell N.J. (2009) Colonisation of the Chatham Islands by intertidal organisms Part I: Genetic connections. Marine Ecology Progress Series 388:111-119.
• Johnson P.L., Dodds K.G., Bain W.E., Greer G.J., McLean N.J., McLaren R.J., Galloway S.M., van Stijn T.C., McEwan J.C. (2009) Investigations into the GDF8 g+6723G-A polymorphism in New Zealand Texel sheep. Journal of Animal Science 87:1856-64.
• Juengel J.L., Hudson N.L., Berg M., Hamel K., Smith P., Lawrence S.B., Whiting L., McNatty K.P. (2009) Effects of active immunization against growth differentiation factor 9 and/or bone morphogenetic protein 15 on ovarian function in cattle. Reproduction 138:107-14.
• Keane O.M., Maqbool N., McCulloch A.F., McEwan J.C., Dodds K.G. (2009) Generation of a preliminary bovine gene atlas, using expression clustering to annotate gene function. Genetics and Molecular Research 8:1013-27.
• Kijas J.W., Townley D., Dalrymple B.P., Heaton M.P., Maddox J.F., McGrath A., Wilson P., Ingersoll R.G., McCulloch R., McWilliam S., Tang D., McEwan J., Cockett N., Oddy V.H., Nicholas F.W., Raadsma H. (2009) A genome wide survey of SNP variation reveals the genetic structure of sheep breeds. PloS One 4:e4668.
• Li C., Yang F., Sheppard A. (2009) Adult stem cells and mammalian epimorphic regeneration-insights from studying annual renewal of deer antlers. Current Stem Cell Research & Therapy 4:237-51.
• Lin J.S., McNatty K.P. (2009) Aptamer-based regionally protected PCR for protein detection. Clinical Chemistry 55:1686-93.
• MacEachern S., Hayes B., McEwan J., Goddard M. (2009) An examination of positive selection and changing effective population size in Angus and Holstein cattle populations (Bos taurus) using a high density SNP genotyping platform and the contribution of ancient polymorphism to genomic diversity in Domestic cattle. BMC Genomics 10:181.
• MacEachern S., McEwan J., Goddard M. (2009) Phylogenetic reconstruction and the identification of ancient polymorphism in the Bovini tribe (Bovidae, Bovinae). BMC Genomics 10:177.
• MacEachern S., McEwan J., McCulloch A., Mather A., Savin K., Goddard M. (2009) Molecular evolution of the Bovini tribe (Bovidae, Bovinae): is there evidence of rapid evolution or reduced selective constraint in Domestic cattle? BMC Genomics 10:179.
• McDowell A., McLeod B.J., Rades T., Tucker I.G. (2009) Polymeric nanoparticles as an oral delivery system for biocontrol agents for the brushtail possum (Trichosurus vulpecula). New Zealand Veterinary Journal 57:370-7.
• McNatty K.P., Heath D.A., Hudson N.L., Lun S., Juengel J.L., Moore L.G. (2009) Gonadotrophin-responsiveness of granulosa cells from bone morphogenetic protein 15 heterozygous mutant sheep. Reproduction 138:545-51.
• Morris C., Cullen N. (2009) Facial Eczema genetics research in New Zealand dairy cattle. Jersey New Zealand Newsletter.
• Morris C.A., Pitchford W.S., Cullen N.G., Esmailizadeh A.K., Hickey S.M., Hyndman D., Dodds K.G., Afolayan R.A., Crawford A.M., Bottema C.D. (2009) Quantitative trait loci for live animal and carcass composition traits in Jersey and Limousin back-cross cattle finished on pasture or feedlot. Animal Genetics 40:648-54.
• Oback B. (2009) Cloning from stem cells: different lineages, different species, same story. Reproduction, Fertility, and Development 21:83-94.
• Phua S.H., Dodds K.G., Morris C.A., Henry H.M., Beattie A.E., Garmonsway H.G., Towers N.R., Crawford A.M. (2009) A genome-screen experiment to detect quantitative trait loci affecting resistance to facial eczema disease in sheep. Animal Genetics 40:73-9.
• Ratnakumar A., Barris W., McWilliam S., Brauning R., McEwan J.C., Snelling W.M., Dalrymple B.P. (2009) A multiway analysis for identifying high integrity bovine BACs. BMC Genomics 10:46.
• Rosengrave P., Taylor H., Montgomerie R., Metcalf V., McBride K., Gemmell N.J. (2009) Chemical composition of seminal and ovarian fluids of chinook salmon (Oncorhynchus tshawytscha) and their effects on sperm motility traits. Comparative Biochemistry and Physiology. Part A, Molecular & integrative physiology 152:123-9.
• Rosengrave P.C., Taylor H., Montgomerie R., Metcalf V.J., McBride K.P., Gemmell N.J. (2009) Ovarian fluid enhances sperm traits in chinook salmon Oncorhynchus tshawytscha. Canadian Journal of Zoology 87:920–927.
• Smith P., Steckler T.L., Veiga-Lopez A., Padmanabhan V. (2009) Developmental programming: differential effects of prenatal testosterone and dihydrotestosterone on follicular recruitment, depletion of follicular reserve, and ovarian morphology in sheep. Biology of Reproduction 80:726-36.
• Spencer H.G. (2009) Effects of genomic imprinting on quantitative traits. Genetica 136:285-93.
• Vanpe C., Buschiazzo E., Abdelkrim J., Morrow G., Nicol S.C., Gemmell N.J. (2009) Comparison of three approaches for the development of microsatellite markers for the short-beaked echidna. Australian Journal of Zoology 55:219-224.
• White D.J., Gemmell N.J. (2009) Can indirect tests detect a known recombination event in human mtDNA? Molecular biology and Evolution 26:1435-9.

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Conference papers

• Alsop T-A., McLeod B.J., Butt A.G. (2009) Epithelial HCO3- secretion and mucus hydration in the vaginal cul-de-sac of the brushtail possum. Annual Meeting of the Australian and New Zealand Society of Comparative Physiology and Biochemistry, Geelong, Australia.
• Amer P., Payne G.M. (2009) Combining estimates of SNP effects when they are subpopulation specific. Proceedings of the Association for the Advancement of Animal Breeding and Genetics.
• Auvray B., McEwan J.C., Dodds K.G. (2009) Statistical Genetics of Livestock for the Post-Genomic Era (SGLPGE). Preliminary analyses of New Zealand Ovine SNP50 BeadChip data Symposium.
• Ball R., Auvray B., Dodds K., Wilcox P. (2009) VISG Large datasets project. Mapnet Workshop, Invermay, Mosgiel.
• Bartolo R. (2009) Two-pore potassium channels are involved in cAMP mediated secretion in the possum ileum. ComBio Conference. Christchurch.
• Bartolo R., Gill M., McLeod B., Butt G. (2009) Localisation of ion transporters in the colon of the Australian common brushtail possum. Society of Experimental Biology Conference, Glasgow, Scotland.
• Bixley M.J., Hyndman D.L., Baird H.J. (2009) Lies, damned lies, and SNP Chips. Mapnet Workshop, Invermay, Mosgiel.
• Bixley M.J., Ward J.F., Brauning R., Archer J.A., Fisher P.J. (2009) Building a deer SNP chip. Proceedings of the Association for the Advancement of Animal Breeding and Genetics.
• Brauning R., McEwan J., on behalf on the International Sheep Consortium. (2009) Creation of a SNP chip in sheep. Mapnet Workshop, Invermay, Mosgiel.
• Bridges G.A., Amyes N.C., Berg M.C., D’Occhio M.J., Morris C.A., Day M.L. (2009) Impact of long-term genetic selection for age at puberty on postpartum reproductive physiology in cows. Proceedings of the American Society of Animal Science.
• Clarke S., Fisher P., Dodds K., Walker S., Baird H., Bailey J., French K., Symonds J. (2009) Sequencing of the New Zealand Chinook Salmon genome to implement marker assisted selection for feed conversion efficiency. Mapnet Workshop, Invermay, Mosgiel.
• Cullen N.G., Morris C.A., Dobbie P.M., Hyndman D.L., Thomson B.C. (2009) QTL analyses of beef muscle fibre type. Proceedings of the Association for the Advancement of Animal Breeding and Genetics.
• de Nava G., Rodriguez-Sabarros M., Corti M., Tutt, D., Martinez M.F. (2009) Effect of different sources of progesterone and GnRH analogues on the fertility of heifers in a fixed-time artificial insemination programme. 8th International Symposium of Animal Reproduction, Cordoba, Argentina.
• Decker J.E., Pires J.C., Conant G.C., McKay S.D., Heaton M.P., Chen K., Cooper A., Vilkki J., Seabury C.M., Caetano A.R., Johnson G.S., Brenneman R.A., Hanotte O., Eggert L.S., Wiener P., Kim J.J., Kim K.S., Sonstegard T.S., Van Tassell C.P., Neibergs H.L., McEwan J.C., Brauning R., Coutinho L.L., Babar M.E., Wilson G.A., McClure M.C., Rolf M.M., Kim J., Schnabel R.D., Taylor J.F. (2009) Resolving the evolution of extant and extinct ruminants with high-throughput phylogenomics. Proceedings of the National Academy of Sciences of the United States of America.
• Demmers K.J., Davis G.H., Wishart P.J., Juengel J.L. (2009) Identification of a sheep line with a putative major gene leading to increased embryo survival in sheep. ComBio Conference, Christchurch.
• Demmers K.J., Smaill B., Davis G.H., Dodds K.G., Juengel J.L. (2009) Ewes heterozygous for the Inverdale mutation (Fec XI) show greater ovulation rate response following increased pre-ovulation nutrition compared with non-carriers of the gene. Gemini General Conference ‘Maternal Interactions with Gametes and Embryo’, Alghero, Sardinia, Italy.
• Dodds K., Auvray B., Amer P., Newman S.A., McEwan J. (2009) Phenotypes for training and validation of whole genome selection methods. Proceedings of the International Biometrics Society Australasian Region Conference, Australia.
• Dodds K.G., Auvray B., Pickering N.K., McEwan J.C. (2009) Quality control for the Ovine SNP50 beadchip genotypes. Proceedings of the Association for the Advancement of Animal Breeding and Genetics.
• Edwards S., Martin S., Ross I., Juengel J. (2009) The Booroola Mutation in ALK6 does not affect ligand-induced signalling. Queenstown Molecular Biology Conference.
• Fisher P., Bixley M., Ward J., McEwan J., Archer J. (2009) Genomic tool development in deer: an update. Mapnet Workshop, Invermay, Mosgiel.
• Gill M., Bartolo R.C., Butt A.G. (2009) Electrogenic and electroneutral HCO3 secretion in the possum ileum, a model HCO3 secreting epithelium. ComBio Conference, Christchurch.
• Gill M., Bartolo R.C., Butt A.G. (2009) The small intestine of the brushtail possum ileum, Trichosurus vulpecula, a model of electrogenic and electroneutral HCO3 secretion. Physiology Society.
• Jopson N.B., McEwan J.C., Logan C.M., Muir P.D. (2009) Genetic parameters for primal cut meat yield traits in sheep. Proceedings of the New Zealand Society of Animal Production.
• Jopson N.B., Newman S.-A.N., McEwan J.C. (2009) Developments in the sheep meat industry: Genetic evaluation of meat yield. Proceedings of the New Zealand Society of Animal Production.
• Juengel J.L., Farquhar P.A., Proctor L.E., Davis G.H. (2009) Are there multiple genes affecting fertility in the New Zealand Booroola flock? ComBio Conference, Christchurch.
• Juengel J.L., Haydon L.J., Thomson B.P., Eckery D.C. (2009) Expression of mRNA encoding insulin-like growth factors, their receptor and binding proteins in ovarian follicles in a marsupial, the brushtail possum. Society for Study of Reproduction, Pennsylvania, USA.
• Lett B., Stayner C., Mahon C., Markie D., McEwan J., Eccles M.R. (2009) Characterisation of a large animal model of autosomal recessive polycystic kidney disease. Mapnet Workshop, Invermay, Mosgiel.
• Lin J.S., Kauff A., Lin J.Y., Kumar S., McNatty K.P., Juengel J. (2009) Generation and application of Aptamer. Queenstown Molecular Biology Conference.
• Lin J.Y., Juengel J.L., McNatty K.P. (2009) The communication system between oocytes and granulosa cells. New Zealand Postgraduate Conference.
• Martinez M.F., de Nava G., Demmers K., Tutt D., Smaill B., Rodriguez-Sabarros M., Corti M. (2009) Exogenous progesterone in an Ovsynch protocol in beef heifers. 8th International Symposium of Animal Reproduction, Cordoba, Argentina.
• McDowell A., Kafka A., McLeod B.J., Rades T. (2009) Can polymeric nanoparticles be used to take brushtail possums out of the wilderness in New Zealand. Australasian Pharmaceutical Science Association.
• McDowell A., Rades T., McLeod B.J., Tucker I.G. (2009) Formulating polymeric nanoparticles for oral delivery of D-Lys6-GnRH to the common brushtail possum. Annual Conference of the Australian Wildlife Management Society, Napier.
• McEwan J. (2009) An ANZAC perspective with emphasis on bioinformatics of sheep and deer. US-EC Bioinformatics Workshop, Cambridge, UK.
• McEwan J. (2009) The ovine SNP chip: its creation and subsequent use in New Zealand. Agricultural University of Iceland.
• McEwan J., Pickering N., Dodds K., Auvray B., Johnson P., Tecofsky R., Wilson T. (2009) Putting the sheep SNP50 BeadChip to work: Case studies in gene mapping and genomic selection. ComBio Conference, Christchurch.
• McEwan J.C. (2009) Current and future impact of DNA technologies on the New Zealand sheep industry. Proceedings of the New Zealand Society of Animal Production.
• McEwan J.C., Auvray B., Dodds K.G., Pickering N., Greer G.J., McLean N., Clarke S., Wilson T. (2009) Genome wide selection in sheep for host resistance to parasites. New Zealand Society for Parasitology, Annual Meeting No. 37, Wanaka.
• McEwan J.C., on behaldf of the International Sheep Consortium. (2009) Skim sequencing SNP discovery, using Roche 454 FLX sequencing. Plant and Animal Genome Conference.
• McLean N.J., Johnson P.L., Bain W.E., Greer G.J., Dodds K.G. (2009) Genetic parameters for colour stability of chilled lamb. Proceedings of the New Zealand Society of Animal Production.
• McNatty K.P., Heath D., Hudson N., Reader K., Quirke L., Juengel J. (2009) Superovulation efficiency and the conflict with hierarachical ovarian follicular development. ComBio Conference, Christchruch.
• McRae K.M., Gemmell N.J., McEwan J.C. (2009) Selective sweep signatures in parasite selection flocks. - Poster, CRG Annual Research Colloquium, Mosgiel, New Zealand.
• Morris C.A. (2009) Review of genetic parameters for disease resistance in sheep in New Zealand and Australia. Proceedings of the Association for the Advancement of Animal Breeding and Genetics.
• Morris C.A., Hickey S.M., Phua S.H. (2009) Relationship between blood phylloerythrin concentration and gammaglutamyltransferase activity in facial eczema-affected cattle and sheep. Proceedings of the New Zealand Society of Animal Production.
• Newman S-A., McEwan J.C., Young M.J. (2009) A decade of Sheep Improvement Limited (SIL). Proceedings of the Association for the Advancement of Animal Breeding and Genetics.
• O’Connell A. (2009) The expression of activin and follistatin during conception and embryo implantation in the ewe. Queenstown Molecular Biology Conference.
• Payne G.M., Campbell A.W., Jopson N.B., McEwan J.C., Logan C.M., Muir P.D. (2009) Genetic and phenotypic parameter estimates for growth, yield and meat quality trains in lamb. Proceedings of the New Zealand Society of Animal Production.
• Phua S.H., Johnstone P., Henry H., Findlay A., Morris C.A. (2009) Sheep selected for resistance to facial eczema disease also show higher tolerance to acetaminophen challenge. Proceedings of the Association for the Advancement of Animal Breeding and Genetics.
• Pickering N., McEwan J. (2009) Selection Sweeps in Sheep: preliminary results, Mapnet Workshop, Invermay, Mosgiel.
• Pickering N.K., Johnson P.L., Auvray B., Dodds K.G., McEwan J.C. (2009) Mapping the horns locus in sheep, Proceedings of the Association for the Advancement of Animal Breeding and Genetic.
• Quirke L., Lun S., Heath D., McNatty K., Juengel J. (2009) The effect of BMP15 and its response to FSH on follicular activity. Society for Study of Reproduction, Pennsylvania, USA.
• Ripamonte P., Buratini J., Juengel, J., Price C. (2009) Expression of glycolytic enzymes phosphofructokinase (PFKP) and lactate dehydrogenase A (LDHA) in bovine cumulus cells cultured in vitro. Society for Study of Reproduction, Pennsylvania, USA.
• Smith P.R., Quirke L.D., Juengel J.L., Hurst P.R. (2009) Development of the Rete Ovarii in Sheep Ovary. Society for Study of Reproduction, Pennsylvania, USA.
• Wilcox P., Ball R., Chambers A., Timmerman-Vaughan G., Black M., Dodds K., Jia Y., Auvray B., Chagne D., Merriman T., Fisher P., Barrett B., De Silva N. (2009) Update: Virtual Institute of Statistical Genetics. Mapnet Workshop, Invermay, Mosgiel.

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Book chapters

• Gillman M.W., Davey Smith G., Hanson M.A., Spencer H.G. (2009) Developmental origins of health and disease across generations — Theory, observation, experiment. Early Life Origins of Human Health and Disease, Karger, Basel. pp. 52-64.

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Theses

• O’Connell A. (2009) High Embryonic Survival in Prolific Ewes. Thesis submitted for the degree of Doctor of Philosophy. University of Otago, Dunedin.

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