Rare Variants in Transcript and Potential Regulatory Regions Explain a Small Percentage of the Missing Heritability of Complex Traits in Cattle.

Autor: Oscar Gonzalez-Recio, Hans D Daetwyler, Iona M MacLeod, Jennie E Pryce, Phil J Bowman, Ben J Hayes, Michael E Goddard

Publikováno v: PLoS ONE, Vol 10, Iss 12, p e0143945 (2015)

The proportion of genetic variation in complex traits explained by rare variants is a key question for genomic prediction, and for identifying the basis of "missing heritability"--the proportion of additive genetic variation not captured by common va

Externí odkaz: https://doaj.org/article/a8483c3228154c3abfa24894305e03ba

A validated genome wide association study to breed cattle adapted to an environment altered by climate change.

Autor: Ben J Hayes, Phil J Bowman, Amanda J Chamberlain, Keith Savin, Curt P van Tassell, Tad S Sonstegard, Mike E Goddard

Publikováno v: PLoS ONE, Vol 4, Iss 8, p e6676 (2009)

Continued production of food in areas predicted to be most affected by climate change, such as dairy farming regions of Australia, will be a major challenge in coming decades. Along with rising temperatures and water shortages, scarcity of inputs suc

Externí odkaz: https://doaj.org/article/b2276dfcc0fc420ba4e3281e10b6aaa1

Genome variants associated with RNA splicing variations in bovine are extensively shared between tissues

Autor: Michael E. Goddard, Yizhou Chen, Phil J. Bowman, Josie B. Garner, Sunduimijid Bolormaa, Iona M. MacLeod, Hans D. Daetwyler, Ben J. Hayes, Brett A. Mason, Ruidong Xiang, Christy J. Vander Jagt, Zehu Yuan, Amanda J. Chamberlain, Leah C. Marett, Claire P. Prowse-Wilkins, Majid Khansefid, Coralie M. Reich

Publikováno v: BMC Genomics
BMC Genomics, Vol 19, Iss 1, Pp 1-18 (2018)

BackgroundMammalian phenotypes are shaped by numerous genome variants, many of which may regulate gene transcription or RNA splicing. To identify variants with regulatory functions in cattle, an important economic and model species, we used sequence

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b8603cd304d415f338795bd47e7fba8e
http://europepmc.org/articles/PMC6032541

Meta-analysis of genome-wide association studies for cattle stature identifies common genes that regulate body size in mammals

Autor: Phil J. Bowman, Johanna Vilkki, Mehdi Sargolzaei, Robert D. Schnabel, Didier Boichard, Frank Panitz, Chris Hozé, Kay Uwe Götz, D. C. Purfield, Christian Bendixen, Lars-Erik Holm, Carla Hurtado Ponce, Ben J. Hayes, Alessandro Bagnato, J. J. Crowley, Cord Drögemüller, Jeremy F. Taylor, Aniek C. Bouwman, Aurélien Capitan, Jesse L. Hoff, Marie Pierre Sanchez, Thierry Tribout, Hubert Pausch, Dorian J. Garrick, Michael E. Goddard, Mekki Boussaha, Min Wang, Anna A. E. Vinkhuyzen, Ruedi Fries, Hans D. Daetwyler, Roel F. Veerkamp, Curtis P. Van Tassell, Ingolf Russ, Amanda J. Chamberlain, Reiner Emmerling, R.F. Brøndum, Mirjam Frischknecht, Vidhya Jagannathan, Marlies Dolezal, Paul Stothard, Bo Thomsen, Bertrand Servin, Simon Boitard, Donagh P. Berry, James M. Reecy, Dominique Rocha, Anna Bieber, Birgit Gredler, Johann Sölkner, Mogens Sandø Lund, Christy J. Vander Jagt, Pascal Croiseau, Goutam Sahana, Anne Barbat, Armelle Govignon-Gion, Flavio S Schenkel, Bernt Guldbrandtsen

Publikováno v: Nature Genetics 50 (2018)
Nature Genetics
Nature Genetics, Nature Publishing Group, 2018, 50 (3), pp.362-367. ⟨10.1038/s41588-018-0056-5⟩
Bouwman, A C, Daetwyler, H D, Chamberlain, A J, Ponce, C H, Sargolzaei, M, Schenkel, F S, Sahana, G, Govignon-Gion, A, Boitard, S, Dolezal, M, Pausch, H, Brøndum, R F, Bowman, P J, Thomsen, B, Guldbrandtsen, B, Lund, M S, Servin, B, Garrick, D J, Reecy, J, Vilkki, J, Bagnato, A, Wang, M, Hoff, J L, Schnabel, R D, Taylor, J F, Vinkhuyzen, A A E, Panitz, F, Bendixen, C, Holm, L E, Gredler, B, Hozé, C, Boussaha, M, Sanchez, M P, Rocha, D, Capitan, A, Tribout, T, Barbat, A, Croiseau, P, Drögemüller, C, Jagannathan, V, Vander Jagt, C, Crowley, J J, Bieber, A, Purfield, D C, Berry, D P, Emmerling, R, Götz, K U, Frischknecht, M, Russ, I, Sölkner, J, van Tassell, C P, Fries, R, Stothard, P, Veerkamp, R F, Boichard, D, Goddard, M E & Hayes, B J 2018, ' Meta-analysis of genome-wide association studies for cattle stature identifies common genes that regulate body size in mammals ', Nature Genetics, vol. 50, pp. 362-372 . https://doi.org/10.1038/s41588-018-0056-5
Nature Genetics, 50, 362-367

peer-reviewed H.D.D., A.J.C., P.J.B. and B.J.H. would like to acknowledge the Dairy Futures Cooperative Research Centre for funding. H.P. and R.F. acknowledge funding from the German Federal Ministry of Education and Research (BMBF) within the AgroCl

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ceea2c23b14bcc3f6ef51fff0f20f9e7
https://orgprints.org/id/eprint/35102/

Multi-breed genomic prediction using Bayes R with sequence data and dropping variants with a small effect

Autor: Ben J. Hayes, Phil J. Bowman, Sunduimijid Bolormaa, Iona M. MacLeod, Irene van den Berg, Tingting Wang, Michael E. Goddard

Publikováno v: Genetics Selection Evolution
Genetics Selection Evolution, BioMed Central, 2017, 49 (1), pp.70. ⟨10.1186/s12711-017-0347-9⟩
Genetics Selection Evolution, Vol 49, Iss 1, Pp 1-15 (2017)
Genetics, Selection, Evolution : GSE

Background The increasing availability of whole-genome sequence data is expected to increase the accuracy of genomic prediction. However, results from simulation studies and analysis of real data do not always show an increase in accuracy from sequen

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1cfcc3172f52c1abb267dc4d26099d8c
https://hal.archives-ouvertes.fr/hal-01591723/file/12711_2017_Article_347.pdf