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  1. Content type: Research Article

    Breeding companies may want to maximize the rate of genetic gain from their breeding program within a limited budget. In salmon breeding programs, full-sibs of selection candidates are subjected to performance...

    Authors: Kasper Janssen, Helmut W. Saatkamp, Mario P. L. Calus and Hans Komen

    Citation: Genetics Selection Evolution 2019 51:49

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  2. Content type: Research Article

    Feed efficiency (FE) has a major impact on the economic sustainability of pig production. We used a systems-based approach that integrates single nucleotide polymorphism (SNP) co-association and gene-expressio...

    Authors: Yuliaxis Ramayo-Caldas, Emilio Mármol-Sánchez, Maria Ballester, Juan Pablo Sánchez, Rayner González-Prendes, Marcel Amills and Raquel Quintanilla

    Citation: Genetics Selection Evolution 2019 51:48

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  3. Content type: Research Article

    Infectious hematopoietic necrosis (IHN) is a disease of salmonid fish that is caused by the IHN virus (IHNV). Under intensive aquaculture conditions, IHNV can cause significant mortality and economic losses. C...

    Authors: Roger L. Vallejo, Hao Cheng, Breno O. Fragomeni, Kristy L. Shewbridge, Guangtu Gao, John R. MacMillan, Richard Towner and Yniv Palti

    Citation: Genetics Selection Evolution 2019 51:47

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  4. Content type: Research Article

    Meat production from the commercial crossbred Duroc × (Landrace × Yorkshire) (DLY) pig is predominant in the pork industry, but its meat quality is often impaired by low ultimate pH (pHu). Muscle glycogen leve...

    Authors: Xianxian Liu, Lisheng Zhou, Xianhua Xie, Zhongzi Wu, Xinwei Xiong, Zhiyan Zhang, Jie Yang, Shijun Xiao, Mengqing Zhou, Junwu Ma and Lusheng Huang

    Citation: Genetics Selection Evolution 2019 51:46

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  5. Content type: Research Article

    Crossbreeding is widely used in pig production because of the benefits of heterosis effects and breed complementarity. Commonly, sire lines are bred for traits such as feed efficiency, growth and meat content,...

    Authors: Ole F. Christensen, Bjarne Nielsen, Guosheng Su, Tao Xiang, Per Madsen, Tage Ostersen, Ingela Velander and Anders B. Strathe

    Citation: Genetics Selection Evolution 2019 51:45

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  6. Content type: Research Article

    Experimental intercrosses between outbred founder populations are powerful resources for mapping loci that contribute to complex traits i.e. quantitative trait loci (QTL). Here, we present an approach and its ...

    Authors: Yanjun Zan, Thibaut Payen, Mette Lillie, Christa F. Honaker, Paul B. Siegel and Örjan Carlborg

    Citation: Genetics Selection Evolution 2019 51:44

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  7. Content type: Research Article

    Random regression models (RRM) are widely used to analyze longitudinal data in genetic evaluation systems because they can better account for time-course changes in environmental effects and additive genetic v...

    Authors: Mathieu Arnal, Hélène Larroque, Hélène Leclerc, Vincent Ducrocq and Christèle Robert-Granié

    Citation: Genetics Selection Evolution 2019 51:43

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  8. Content type: Research Article

    Columnaris disease (CD) is an emerging problem for the rainbow trout aquaculture industry in the US. The objectives of this study were to: (1) identify common genomic regions that explain a large proportion of...

    Authors: Rafael M. O. Silva, Jason P. Evenhuis, Roger L. Vallejo, Guangtu Gao, Kyle E. Martin, Tim D. Leeds, Yniv Palti and Daniela A. L. Lourenco

    Citation: Genetics Selection Evolution 2019 51:42

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  9. Content type: Research Article

    Recessive loss-of-function (LOF) alleles at genes which are essential for life, can result in early embryonic mortality. Cattle producers can use the LOF carrier status of individual animals to make selection ...

    Authors: Lindsay R. Upperman, Brian P. Kinghorn, Michael D. MacNeil and Alison L. Van Eenennaam

    Citation: Genetics Selection Evolution 2019 51:36

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  10. Content type: Research Article

    This study aimed at estimating genetic parameters of sex-influenced production traits, evaluating the impact of genotype-by-sex interaction, and identifying the selection criteria that could be included in mul...

    Authors: Fernanda S. S. Raidan, Laercio R. Porto-Neto and Antonio Reverter

    Citation: Genetics Selection Evolution 2019 51:41

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  11. Content type: Research Article

    In modern dairy breeding programmes, high contributions from foreign sires are nearly always present. Genotyping, and therefore genomic selection (GS), concern only a subpopulation of the breeding programme’s ...

    Authors: Daragh Matthews, John F. Kearney, Andrew R. Cromie, Fiona S. Hely and Peter R. Amer

    Citation: Genetics Selection Evolution 2019 51:40

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  12. Content type: Research Article

    We tested the premise that optimum-contribution selection with pedigree relationships to control inbreeding (POCS) realises at least as much true genetic gain as optimum-contribution selection with genomic rel...

    Authors: Mark Henryon, Huiming Liu, Peer Berg, Guosheng Su, Hanne Marie Nielsen, Gebreyohans T. Gebregiwergis and A. Christian Sørensen

    Citation: Genetics Selection Evolution 2019 51:39

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  13. Content type: Research Article

    Pig and poultry breeding programs aim at improving crossbred (CB) performance. Selection response may be suboptimal if only purebred (PB) performance is used to compute genomic estimated breeding values (GEBV)...

    Authors: Pascal Duenk, Mario P. L. Calus, Yvonne C. J. Wientjes, Vivian P. Breen, John M. Henshall, Rachel Hawken and Piter Bijma

    Citation: Genetics Selection Evolution 2019 51:38

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  14. Content type: Research Article

    This study aimed at identifying genomic regions that underlie genetic variation of worm egg count, as an indicator trait for parasite resistance in a large population of Australian sheep, which was genotyped w...

    Authors: Mohammad Al Kalaldeh, John Gibson, Sang Hong Lee, Cedric Gondro and Julius H. J. van der Werf

    Citation: Genetics Selection Evolution 2019 51:37

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  15. Content type: Research Article

    The Finnhorse was established as a breed more than 110 years ago by combining local Finnish landraces. Since its foundation, the breed has experienced both strong directional selection, especially for size and...

    Authors: Laura Kvist, Markku Niskanen, Kristiina Mannermaa, Saskia Wutke and Jouni Aspi

    Citation: Genetics Selection Evolution 2019 51:35

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  16. Content type: Research Article

    Milk quality in dairy cattle is routinely assessed via analysis of mid-infrared (MIR) spectra; this approach can also be used to predict the milk’s cheese-making properties (CMP) and composition. When this met...

    Authors: Marie-Pierre Sanchez, Yuliaxis Ramayo-Caldas, Valérie Wolf, Cécile Laithier, Mohammed El Jabri, Alexis Michenet, Mekki Boussaha, Sébastien Taussat, Sébastien Fritz, Agnès Delacroix-Buchet, Mickaël Brochard and Didier Boichard

    Citation: Genetics Selection Evolution 2019 51:34

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  17. Content type: Research Article

    In this paper, we evaluate the performance of using family-specific low-density genotype arrays to increase the accuracy of pedigree-based imputation. Genotype imputation is a widely used tool that decreases t...

    Authors: Andrew Whalen, Gregor Gorjanc and John M. Hickey

    Citation: Genetics Selection Evolution 2019 51:33

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  18. Content type: Research Article

    This study aimed at (1) comparing the accuracies of genomic prediction for parasite resistance in sheep based on whole-genome sequence (WGS) data to those based on 50k and high-density (HD) single nucleotide p...

    Authors: Mohammad Al Kalaldeh, John Gibson, Naomi Duijvesteijn, Hans D. Daetwyler, Iona MacLeod, Nasir Moghaddar, Sang Hong Lee and Julius H. J. van der Werf

    Citation: Genetics Selection Evolution 2019 51:32

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  19. Content type: Research Article

    Heat stress negatively affects the welfare and production of chickens. High ambient temperature is considered one of the most ubiquitous abiotic environmental challenges to laying hens around the world. In thi...

    Authors: Kaylee Rowland, Chris M. Ashwell, Michael E. Persia, Max F. Rothschild, Carl Schmidt and Susan J. Lamont

    Citation: Genetics Selection Evolution 2019 51:31

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  20. Content type: Research Article

    The preconditioned conjugate gradient (PCG) method is an iterative solver of linear equations systems commonly used in animal breeding. However, the PCG method has been shown to encounter convergence issues wh...

    Authors: Jeremie Vandenplas, Mario P. L. Calus, Herwin Eding and Cornelis Vuik

    Citation: Genetics Selection Evolution 2019 51:30

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  21. Content type: Research Article

    Selection of cattle that are less sensitive to environmental variation in unfavorable environments and more adapted to harsh conditions is of primary importance for tropical beef cattle production systems. Und...

    Authors: Roberto Carvalheiro, Roy Costilla, Haroldo H. R. Neves, Lucia G. Albuquerque, Stephen Moore and Ben J. Hayes

    Citation: Genetics Selection Evolution 2019 51:29

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  22. Content type: Short communication

    Single-step genomic best linear unbiased prediction (SSGBLUP) is a comprehensive method for genomic prediction. Point estimates of marker effects from SSGBLUP are often used for genome-wide association studies...

    Authors: Ignacio Aguilar, Andres Legarra, Fernando Cardoso, Yutaka Masuda, Daniela Lourenco and Ignacy Misztal

    Citation: Genetics Selection Evolution 2019 51:28

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  23. Content type: Research Article

    Selection of mice for decreased environmental variability of birth weight has achieved higher survivability and larger litter size as a correlated response to canalized selection, which suggests higher welfare...

    Authors: Nora Formoso-Rafferty, Isabel Cervantes, Juan Pablo Sánchez, Juan Pablo Gutiérrez and Loys Bodin

    Citation: Genetics Selection Evolution 2019 51:27

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  24. Content type: Research Article

    Selective breeding is a relatively recent practice in aquaculture species compared to terrestrial livestock. Nevertheless, the genetic variability of farmed salmonid lines, which have been selected for several...

    Authors: Jonathan D’Ambrosio, Florence Phocas, Pierrick Haffray, Anastasia Bestin, Sophie Brard-Fudulea, Charles Poncet, Edwige Quillet, Nicolas Dechamp, Clémence Fraslin, Mathieu Charles and Mathilde Dupont-Nivet

    Citation: Genetics Selection Evolution 2019 51:26

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  25. Content type: Research Article

    The cuticle is an invisible glycosylated protein layer that covers the outside of the eggshell and forms a barrier to the transmission of microorganisms. Cuticle-specific staining and in situ absorbance measur...

    Authors: Ian C. Dunn, John A. Woolliams, Peter W. Wilson, Wiebke Icken, David Cavero, Anita C. Jones, Fiona Quinlan-Pluck, Gareth O. S. Williams, Victor Olori and Maureen M. Bain

    Citation: Genetics Selection Evolution 2019 51:25

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  26. Content type: Research Article

    In settings with social interactions, the phenotype of an individual is affected by the direct genetic effect (DGE) of the individual itself and by indirect genetic effects (IGE) of its group mates. In the pre...

    Authors: Marzieh Heidaritabar, Piter Bijma, Luc Janss, Chiara Bortoluzzi, Hanne M. Nielsen, Per Madsen, Birgitte Ask and Ole F. Christensen

    Citation: Genetics Selection Evolution 2019 51:24

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  27. Content type: Research Article

    Fatty acids (FA) in bovine milk derive through body mobilization, de novo synthesis or from the feed via the blood stream. To be able to digest feedstuff, the cow depends on its rumen microbiome. The relative ...

    Authors: Bart Buitenhuis, Jan Lassen, Samantha Joan Noel, Damian R. Plichta, Peter Sørensen, Gareth F. Difford and Nina A. Poulsen

    Citation: Genetics Selection Evolution 2019 51:23

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  28. Content type: Research Article

    Since the 1950s, the Norwegian–Swedish Coldblooded trotter (NSCT) has been intensively selected for harness racing performance. As a result, the racing performance of the NSCT has improved remarkably; however,...

    Authors: Brandon D. Velie, Marina Solé, Kim Jäderkvist Fegraeus, Maria K. Rosengren, Knut H. Røed, Carl-Fredrik Ihler, Eric Strand and Gabriella Lindgren

    Citation: Genetics Selection Evolution 2019 51:22

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  29. Content type: Research article

    Genome-wide association studies (GWAS) are widely used to identify regions of the genome that harbor genetic determinants of quantitative traits. However, the multiple-testing burden from scanning tens of mill...

    Authors: Zexi Cai, Bernt Guldbrandtsen, Mogens Sandø Lund and Goutam Sahana

    Citation: Genetics Selection Evolution 2019 51:20

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  30. Content type: Research article

    Growth curves have been widely used in genetic analyses to gain insights into the growth characteristics of both animals and plants. However, several questions remain unanswered, including how the initial phen...

    Authors: Akio Onogi, Atsushi Ogino, Ayako Sato, Kazuhito Kurogi, Takanori Yasumori and Kenji Togashi

    Citation: Genetics Selection Evolution 2019 51:19

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  31. Content type: Research article

    Societal pressures exist to reduce greenhouse gas (GHG) emissions from farm animals, especially in beef cattle. Both total GHG and GHG emissions per unit of product decrease as productivity increases. Limitati...

    Authors: Stephen A. Barwick, Anthony L. Henzell, Robert M. Herd, Bradley J. Walmsley and Paul F. Arthur

    Citation: Genetics Selection Evolution 2019 51:18

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  32. Content type: Short communication

    Catla catla (Hamilton) fertilised spawn was collected from the Halda, Jamuna and Padma rivers in Bangladesh from which approximately 900 individuals were retained as ‘candidate founders’ of a breeding population....

    Authors: Matthew G. Hamilton, Wagdy Mekkawy and John A. H. Benzie

    Citation: Genetics Selection Evolution 2019 51:17

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  33. Content type: Research article

    Large-scale phenotyping for detailed milk fatty acid (FA) composition is difficult due to expensive and time-consuming analytical techniques. Reliability of genomic prediction is often low for traits that are ...

    Authors: Grum Gebreyesus, Henk Bovenhuis, Mogens S. Lund, Nina A. Poulsen, Dongxiao Sun and Bart Buitenhuis

    Citation: Genetics Selection Evolution 2019 51:16

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  34. Content type: Research article

    Quantitative genetic studies suggest the existence of variation at the genome level that affects the ability of cattle to resist to parasitic diseases. The objective of the current study was to identify region...

    Authors: Alan J. Twomey, Donagh P. Berry, Ross D. Evans, Michael L. Doherty, David A. Graham and Deirdre C. Purfield

    Citation: Genetics Selection Evolution 2019 51:15

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  35. Content type: Research article

    In this paper, we simulate deleterious load in an animal breeding program, and compare the efficiency of genome editing and selection for decreasing it. Deleterious variants can be identified by bioinformatics...

    Authors: Martin Johnsson, R. Chris Gaynor, Janez Jenko, Gregor Gorjanc, Dirk-Jan de Koning and John M. Hickey

    Citation: Genetics Selection Evolution 2019 51:14

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  36. Content type: Research article

    We used stable isotope profiling (15N and 13C) to obtain indicator phenotypes for feed efficiency in aquaculture. Our objectives were to (1) examine whether atom percent of stable isotopes of nitrogen and carbon ...

    Authors: Hanne Dvergedal, Jørgen Ødegård, Margareth Øverland, Liv Torunn Mydland and Gunnar Klemetsdal

    Citation: Genetics Selection Evolution 2019 51:13

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  37. Content type: Research article

    In quail, two feather colour phenotypes i.e. fawn-2/beige and yellow are associated with the ASIP locus. The aim of our study was to characterize the structural modifications within this locus that explain the ye...

    Authors: Annie Robic, Mireille Morisson, Sophie Leroux, David Gourichon, Alain Vignal, Noémie Thebault, Valérie Fillon, Francis Minvielle, Bertrand Bed’Hom, Tatiana Zerjal and Frédérique Pitel

    Citation: Genetics Selection Evolution 2019 51:12

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  38. Content type: Correction

    After publication of this work [1], we noted that there was an error in Table 3 Line 4.

    Authors: Clémence Fraslin, Nicolas Dechamp, Maria Bernard, Francine Krieg, Caroline Hervet, René Guyomard, Diane Esquerré, Johanna Barbieri, Claire Kuchly, Eric Duchaud, Pierre Boudinot, Tatiana Rochat, Jean-François Bernardet and Edwige Quillet

    Citation: Genetics Selection Evolution 2019 51:11

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    The original article was published in Genetics Selection Evolution 2018 50:60

  39. Content type: Research Article

    To date, the molecular mechanisms that underlie residual feed intake (RFI) in pigs are unknown. Results from different genome-wide association studies and gene expression analyses are not always consistent. Th...

    Authors: Miriam Piles, Carlos Fernandez-Lozano, María Velasco-Galilea, Olga González-Rodríguez, Juan Pablo Sánchez, David Torrallardona, Maria Ballester and Raquel Quintanilla

    Citation: Genetics Selection Evolution 2019 51:10

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  40. Content type: Research Article

    In livestock, deleterious recessive alleles can result in reduced economic performance of homozygous individuals in multiple ways, e.g. early embryonic death, death soon after birth, or semi-lethality with inc...

    Authors: Janez Jenko, Matthew C. McClure, Daragh Matthews, Jennifer McClure, Martin Johnsson, Gregor Gorjanc and John M. Hickey

    Citation: Genetics Selection Evolution 2019 51:9

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  41. Content type: Research Article

    In pigs, crossbreeding aims at exploiting heterosis, but heterosis is difficult to quantify. Heterozygosity at genetic markers is easier to measure and could potentially be used as an indicator of heterosis. T...

    Authors: Maja Winther Iversen, Øyvind Nordbø, Eli Gjerlaug-Enger, Eli Grindflek, Marcos Soares Lopes and Theo Meuwissen

    Citation: Genetics Selection Evolution 2019 51:8

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  42. Content type: Research Article

    The animal model is a key tool in quantitative genetics and has been used extensively to estimate fundamental parameters, such as additive genetic variance or heritability. An implicit assumption of animal models...

    Authors: Stefanie Muff, Alina K. Niskanen, Dilan Saatoglu, Lukas F. Keller and Henrik Jensen

    Citation: Genetics Selection Evolution 2019 51:7

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  43. Content type: Research Article

    In pig and poultry breeding programs, the breeding goal is to improve crossbred (CB) performance, whereas selection in the purebred (PB) lines is often based on PB performance. Thus, response to selection may ...

    Authors: Pascal Duenk, Mario P. L. Calus, Yvonne C. J. Wientjes, Vivian P. Breen, John M. Henshall, Rachel Hawken and Piter Bijma

    Citation: Genetics Selection Evolution 2019 51:6

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  44. Content type: Short communication

    The identification of loci associated with resistance to mastitis or of the causative mutations may be helpful in breeding programs for dairy sheep as it is for cattle worldwide. Seven genomic regions that con...

    Authors: Claire Oget, Charlotte Allain, David Portes, Gilles Foucras, Alessandra Stella, Jean-Michel Astruc, Julien Sarry, Gwenola Tosser-Klopp and Rachel Rupp

    Citation: Genetics Selection Evolution 2019 51:5

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  45. Content type: Research Article

    Body weight (BW) at different ages are of increasing importance in dairy cattle breeding schemes, because of their strong correlation with energy efficiency traits, and their impact on cow health, longevity an...

    Authors: Tong Yin and Sven König

    Citation: Genetics Selection Evolution 2019 51:4

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  46. Content type: Research article

    Over many years, artificial selection has substantially improved milk production by cows. However, the genes that underlie milk production quantitative trait loci (QTL) remain relatively poorly characterised. ...

    Authors: Thomas J. Lopdell, Kathryn Tiplady, Christine Couldrey, Thomas J. J. Johnson, Michael Keehan, Stephen R. Davis, Bevin L. Harris, Richard J. Spelman, Russell G. Snell and Mathew D. Littlejohn

    Citation: Genetics Selection Evolution 2019 51:3

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  47. Content type: Research article

    Use of whole-genome sequence data (WGS) is expected to improve identification of quantitative trait loci (QTL). However, this requires imputation to WGS, often with a limited number of sequenced animals for th...

    Authors: Sanne van den Berg, Jérémie Vandenplas, Fred A. van Eeuwijk, Aniek C. Bouwman, Marcos S. Lopes and Roel F. Veerkamp

    Citation: Genetics Selection Evolution 2019 51:2

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  48. Content type: Research Article

    The use of whole-genome sequence (WGS) data for genomic prediction and association studies is highly desirable because the causal mutations should be present in the data. The sequencing of 935 sheep from a ran...

    Authors: Sunduimijid Bolormaa, Amanda J. Chamberlain, Majid Khansefid, Paul Stothard, Andrew A. Swan, Brett Mason, Claire P. Prowse-Wilkins, Naomi Duijvesteijn, Nasir Moghaddar, Julius H. van der Werf, Hans D. Daetwyler and Iona M. MacLeod

    Citation: Genetics Selection Evolution 2019 51:1

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  49. Content type: Research Article

    The size and type of ears are important conformation characteristics that distinguish pig breeds. A significant quantitative trait locus (QTL) for ear size has been identified on SSC5 (SSC for Sus scrofa chromoso...

    Authors: Congying Chen, Chenlong Liu, Xinwei Xiong, Shaoming Fang, Hui Yang, Zhiyan Zhang, Jun Ren, Yuanmei Guo and Lusheng Huang

    Citation: Genetics Selection Evolution 2018 50:72

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