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  1. Content type: Research Article

    In horned sheep breeds, breeding for polledness has been of interest for decades. The objective of this study was to improve prediction of the horned and polled phenotypes using horn scores classified as polle...

    Authors: Naomi Duijvesteijn, Sunduimijid Bolormaa, Hans D. Daetwyler and Julius H. J. van der Werf

    Citation: Genetics Selection Evolution 2018 50:28

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  2. Content type: Research Article

    Genomic prediction (GP) across breeds has so far resulted in low accuracies of the predicted genomic breeding values. Our objective was to evaluate whether using whole-genome sequence (WGS) instead of low-dens...

    Authors: Biaty Raymond, Aniek C. Bouwman, Chris Schrooten, Jeanine Houwing-Duistermaat and Roel F. Veerkamp

    Citation: Genetics Selection Evolution 2018 50:27

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  3. Content type: Research Article

    Parentage assignment is usually based on a limited number of unlinked, independent genomic markers (microsatellites, low-density single nucleotide polymorphisms (SNPs), etc.). Classical methods for parentage a...

    Authors: Kim E. Grashei, Jørgen Ødegård and Theo H. E. Meuwissen

    Citation: Genetics Selection Evolution 2018 50:26

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  4. Content type: Research Article

    Indirect genetic effects (IGE) are important components of various traits in several species. Although the intensity of social interactions between partners likely vary over time, very few genetic studies have...

    Authors: Ingrid David, Juan-Pablo Sánchez and Miriam Piles

    Citation: Genetics Selection Evolution 2018 50:25

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  5. Content type: Research Article

    Optimal contributions selection (OCS) provides animal breeders with a framework for maximising genetic gain for a predefined rate of inbreeding. Simulation studies have indicated that the source of the selecti...

    Authors: David M. Howard, Ricardo Pong-Wong, Pieter W. Knap, Valentin D. Kremer and John A. Woolliams

    Citation: Genetics Selection Evolution 2018 50:24

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  6. Content type: Research Article

    The replacement of fish oil (FO) and fishmeal with plant ingredients in the diet of farmed Atlantic salmon has resulted in reduced levels of the health-promoting long-chain polyunsaturated omega-3 fatty acids ...

    Authors: Siri S. Horn, Bente Ruyter, Theo H. E. Meuwissen, Borghild Hillestad and Anna K. Sonesson

    Citation: Genetics Selection Evolution 2018 50:23

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  7. Content type: Research article

    This study aimed at (1) assessing the genomic stratification of experimental lines of Nelore cattle that have experienced different selection regimes for growth traits, and (2) identifying genomic regions that...

    Authors: Diercles F. Cardoso, Lucia Galvão de Albuquerque, Christian Reimer, Saber Qanbari, Malena Erbe, André V. do Nascimento, Guilherme C. Venturini, Daiane C. Becker Scalez, Fernando Baldi, Gregório M. Ferreira de Camargo, Maria E. Zerlotti Mercadante, Joslaine N. do Santos Gonçalves Cyrillo, Henner Simianer and Humberto Tonhati

    Citation: Genetics Selection Evolution 2018 50:22

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  8. Content type: Short communication

    Avian influenza (AI) is a devastating poultry disease that currently can be controlled only by liquidation of affected flocks. In spite of typically very high mortality rates, a group of survivors was identifi...

    Authors: Anna Wolc, Wioleta Drobik-Czwarno, Janet E. Fulton, Jesus Arango, Tomasz Jankowski and Jack C. M. Dekkers

    Citation: Genetics Selection Evolution 2018 50:21

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  9. Content type: Research Article

    mRNA-like long non-coding RNAs (lncRNAs) are a significant component of mammalian transcriptomes, although most are expressed only at low levels, with high tissue-specificity and/or at specific developmental s...

    Authors: Stephen J. Bush, Charity Muriuki, Mary E. B. McCulloch, Iseabail L. Farquhar, Emily L. Clark and David A. Hume

    Citation: Genetics Selection Evolution 2018 50:20

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  10. Content type: Research Article

    The distribution of the wild turkey (Meleagris gallopavo) extends from Mexico to southeastern Canada and to the eastern and southern regions of the USA. Six subspecies have been described based on morphological c...

    Authors: Gabriela Padilla-Jacobo, Horacio Cano-Camacho, Rigoberto López-Zavala, María E. Cornejo-Pérez and María G. Zavala-Páramo

    Citation: Genetics Selection Evolution 2018 50:19

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  11. Content type: Research Article

    Genome editing technologies provide new tools for genetic improvement and have the potential to become the next game changer in animal and plant breeding. The aim of this study was to investigate how genome ed...

    Authors: John W. M. Bastiaansen, Henk Bovenhuis, Martien A. M. Groenen, Hendrik-Jan Megens and Han A. Mulder

    Citation: Genetics Selection Evolution 2018 50:18

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  12. Content type: Research Article

    Deleterious genetic variation can increase in frequency as a result of mutations, genetic drift, and genetic hitchhiking. Although individual effects are often small, the cumulative effect of deleterious genet...

    Authors: Martijn F. L. Derks, Hendrik-Jan Megens, Mirte Bosse, Jeroen Visscher, Katrijn Peeters, Marco C. A. M. Bink, Addie Vereijken, Christian Gross, Dick de Ridder, Marcel J. T. Reinders and Martien A. M. Groenen

    Citation: Genetics Selection Evolution 2018 50:17

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  13. Content type: Research Article

    In recent decades, Holstein–Friesian (HF) selection schemes have undergone profound changes, including the introduction of optimal contribution selection (OCS; around 2000), a major shift in breeding goal comp...

    Authors: Harmen P. Doekes, Roel F. Veerkamp, Piter Bijma, Sipke J. Hiemstra and Jack J. Windig

    Citation: Genetics Selection Evolution 2018 50:15

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  14. Content type: Research Article

    Increasing marker density was proposed to have potential to improve the accuracy of genomic prediction for quantitative traits; whole-sequence data is expected to give the best accuracy of prediction, since al...

    Authors: Chunyan Zhang, Robert Alan Kemp, Paul Stothard, Zhiquan Wang, Nicholas Boddicker, Kirill Krivushin, Jack Dekkers and Graham Plastow

    Citation: Genetics Selection Evolution 2018 50:14

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  15. Content type: Research Article

    Domestication of animals leads to large phenotypic alterations within a short evolutionary time-period. Such alterations are caused by genomic variations, yet the prevalence of modified traits is higher than e...

    Authors: Johan Bélteky, Beatrix Agnvall, Lejla Bektic, Andrey Höglund, Per Jensen and Carlos Guerrero-Bosagna

    Citation: Genetics Selection Evolution 2018 50:13

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  16. Content type: Research Article

    Pseudo-phenotypes, such as 305-day yields, estimated breeding values or deregressed proofs, are usually used as response variables for genome-wide association studies (GWAS) of milk production traits in dairy ...

    Authors: Chao Ning, Dan Wang, Xianrui Zheng, Qin Zhang, Shengli Zhang, Raphael Mrode and Jian-Feng Liu

    Citation: Genetics Selection Evolution 2018 50:12

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  17. Content type: Research Article

    Heat stress has a negative impact on pork production, particularly during the grow-finish phase. As temperature increases, feeding behaviour changes in order for pigs to decrease heat production. The objective...

    Authors: Amanda J. Cross, Brittney N. Keel, Tami M. Brown-Brandl, Joseph P. Cassady and Gary A. Rohrer

    Citation: Genetics Selection Evolution 2018 50:11

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  18. Content type: Research Article

    Genomic prediction and quantitative trait loci (QTL) mapping typically analyze one trait at a time but this may ignore the possibility that one polymorphism affects multiple traits. The aim of this study was t...

    Authors: Kathryn E. Kemper, Philip J. Bowman, Benjamin J. Hayes, Peter M. Visscher and Michael E. Goddard

    Citation: Genetics Selection Evolution 2018 50:10

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  19. Content type: Research Article

    The current large spectrum of sheep phenotypic diversity results from the combined product of sheep selection for different production traits such as wool, milk and meat, and its natural adaptation to new envi...

    Authors: Otsanda Ruiz-Larrañaga, Jorge Langa, Fernando Rendo, Carmen Manzano, Mikel Iriondo and Andone Estonba

    Citation: Genetics Selection Evolution 2018 50:9

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  20. Content type: Research Article

    Sex-linked slow (SF) and fast (FF) feathering rates at hatch have been widely used in poultry breeding for autosexing at hatch. In chicken, the sex-linked K (SF) and k+ (FF) alleles are responsible for the feathe...

    Authors: Martijn F. L. Derks, Juan M. Herrero-Medrano, Richard P. M. A. Crooijmans, Addie Vereijken, Julie A. Long, Hendrik-Jan Megens and Martien A. M. Groenen

    Citation: Genetics Selection Evolution 2018 50:7

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  21. Content type: Research Article

    For marker effect models and genomic animal models, computational requirements increase with the number of loci and the number of genotyped individuals, respectively. In the latter case, the inverse genomic re...

    Authors: Jørgen Ødegård, Ulf Indahl, Ismo Strandén and Theo H. E. Meuwissen

    Citation: Genetics Selection Evolution 2018 50:6

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  22. Content type: Research Article

    Throughout the world, harvesting of mussels Mytilus spp. is based on the exploitation of natural populations and aquaculture. Aquaculture activities include transfers of spat and live adult mussels between variou...

    Authors: Małgorzata Zbawicka, María I. Trucco and Roman Wenne

    Citation: Genetics Selection Evolution 2018 50:5

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  23. Content type: Research Article

    Genomic prediction of the pig’s response to the porcine reproductive and respiratory syndrome (PRRS) virus (PRRSV) would be a useful tool in the swine industry. This study investigated the accuracy of genomic ...

    Authors: Emily H. Waide, Christopher K. Tuggle, Nick V. L. Serão, Martine Schroyen, Andrew Hess, Raymond R. R. Rowland, Joan K. Lunney, Graham Plastow and Jack C. M. Dekkers

    Citation: Genetics Selection Evolution 2018 50:3

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  24. Content type: Research Article

    Profitability of breeding programs is a key determinant in the adoption of selective breeding, and can be evaluated using cost-benefit analysis. There are many options to design breeding programs, with or with...

    Authors: Kasper Janssen, Helmut Saatkamp and Hans Komen

    Citation: Genetics Selection Evolution 2018 50:2

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  25. Content type: Research Article

    The quantitative genetics theory argues that inbreeding depression and heterosis are founded on the existence of directional dominance. However, most procedures for genomic selection that have included dominan...

    Authors: Luis Varona, Andrés Legarra, William Herring and Zulma G. Vitezica

    Citation: Genetics Selection Evolution 2018 50:1

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  26. Content type: Research Article

    Non-linear Bayesian genomic prediction models such as BayesA/B/C/R involve iteration and mostly Markov chain Monte Carlo (MCMC) algorithms, which are computationally expensive, especially when whole-genome seq...

    Authors: Theo H. E. Meuwissen, Ulf G. Indahl and Jørgen Ødegård

    Citation: Genetics Selection Evolution 2017 49:94

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  27. Content type: Correction

    After publication of our article [1], we found a typo in the formula to build the genomic relationship matrix using allele frequencies across all genotyped pigs (matrix) and the genomic relationship matrix usi...

    Authors: Claudia A. Sevillano, Jeremie Vandenplas, John W. M. Bastiaansen, Rob Bergsma and Mario P. L. Calus

    Citation: Genetics Selection Evolution 2017 49:93

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    The original article was published in Genetics Selection Evolution 2017 49:75

  28. Content type: Research Article

    Inbreeding coefficients can be estimated either from pedigree data or from genomic data, and with genomic data, they are either global or local (when the linkage map is used). Recently, we developed a new hid...

    Authors: Marina Solé, Ann-Stephan Gori, Pierre Faux, Amandine Bertrand, Frédéric Farnir, Mathieu Gautier and Tom Druet

    Citation: Genetics Selection Evolution 2017 49:92

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  29. Content type: Research Article

    Molecular data is now commonly used to predict breeding values (BV). Various methods to calculate genomic relationship matrices (GRM) have been developed, with some studies proposing regression of coefficients...

    Authors: Joanna J. Ilska, Theo H. E. Meuwissen, Andreas Kranis and John A. Woolliams

    Citation: Genetics Selection Evolution 2017 49:90

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  30. Content type: Research Article

    Accurate genomic prediction requires a large reference population, which is problematic for traits that are expensive to measure. Traits related to milk protein composition are not routinely recorded due to co...

    Authors: Grum Gebreyesus, Mogens S. Lund, Bart Buitenhuis, Henk Bovenhuis, Nina A. Poulsen and Luc G. Janss

    Citation: Genetics Selection Evolution 2017 49:89

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  31. Content type: Research Article

    Genomic selection (GS) promises to accelerate genetic gain in plant breeding programs especially for crop species such as cassava that have long breeding cycles. Practically, to implement GS in cassava breedin...

    Authors: Uche Godfrey Okeke, Deniz Akdemir, Ismail Rabbi, Peter Kulakow and Jean-Luc Jannink

    Citation: Genetics Selection Evolution 2017 49:88

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  32. Content type: Research article

    Pedigree-based management of genetic diversity in populations, e.g., using optimal contributions, involves computation of the http://static-content.springer.com/image/art%3A10.1186%2Fs12711-017-0363-9/12711_2017_363_Article_IEq1.gif

    Authors: Jean-Jacques Colleau, Isabelle Palhière, Silvia T. Rodríguez-Ramilo and Andres Legarra

    Citation: Genetics Selection Evolution 2017 49:87

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  33. Content type: Research Article

    Curly horses present a variety of curl phenotypes that are associated with various degrees of curliness of coat, mane, tail and ear hairs. Their origin is still a matter of debate and several genetic hypothese...

    Authors: Caroline Morgenthaler, Mathieu Diribarne, Aurélien Capitan, Rachel Legendre, Romain Saintilan, Maïlys Gilles, Diane Esquerré, Rytis Juras, Anas Khanshour, Laurent Schibler and Gus Cothran

    Citation: Genetics Selection Evolution 2017 49:85

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  34. Content type: Research article

    Because very large numbers of single nucleotide polymorphisms (SNPs) are now available throughout the genome, they are particularly suitable for the detection of genomic regions where a reduction in heterozygo...

    Authors: Salvatore Mastrangelo, Marco Tolone, Maria T. Sardina, Gianluca Sottile, Anna M. Sutera, Rosalia Di Gerlando and Baldassare Portolano

    Citation: Genetics Selection Evolution 2017 49:84

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  35. Content type: Research Article

    Domestication, breed formation and intensive selection have resulted in divergent cattle breeds that likely exhibit their own genomic signatures. In this study, we used genotypes from 27,612 autosomal single n...

    Authors: Heidi Signer-Hasler, Alexander Burren, Markus Neuditschko, Mirjam Frischknecht, Dorian Garrick, Christian Stricker, Birgit Gredler, Beat Bapst and Christine Flury

    Citation: Genetics Selection Evolution 2017 49:83

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  36. Content type: Research Article

    Our aim was to identify genomic regions via genome-wide association studies (GWAS) to improve the predictability of genetic merit in Holsteins for 10 calving and 28 body conformation traits. Animals were genot...

    Authors: Mohammed K. Abo-Ismail, Luiz F. Brito, Stephen P. Miller, Mehdi Sargolzaei, Daniela A. Grossi, Steve S. Moore, Graham Plastow, Paul Stothard, Shadi Nayeri and Flavio S. Schenkel

    Citation: Genetics Selection Evolution 2017 49:82

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  37. Content type: Research Article

    With the aim of identifying selection signals in three Merino sheep lines that are highly specialized for fine wool production (Australian Industry Merino, Australian Merino and Australian Poll Merino) and con...

    Authors: Beatriz Gutiérrez-Gil, Cristina Esteban-Blanco, Pamela Wiener, Praveen Krishna Chitneedi, Aroa Suarez-Vega and Juan-Jose Arranz

    Citation: Genetics Selection Evolution 2017 49:81

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  38. Content type: Research Article

    Because of their high economic importance, growth traits in fish are under continuous improvement. For growth traits that are recorded at multiple time-points in life, the use of univariate and multivariate an...

    Authors: Jie He, Yunfeng Zhao, Jingli Zhao, Jin Gao, Dandan Han, Pao Xu and Runqing Yang

    Citation: Genetics Selection Evolution 2017 49:80

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  39. Content type: Research Article

    Genomic evaluation is used to predict direct genomic values (DGV) for selection candidates in breeding programs, but also to estimate allele substitution effects (ASE) of single nucleotide polymorphisms (SNPs)...

    Authors: Aniek C. Bouwman, Ben J. Hayes and Mario P. L. Calus

    Citation: Genetics Selection Evolution 2017 49:79

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  40. Content type: Research Article

    This paper describes a heuristic method for allocating low-coverage sequencing resources by targeting haplotypes rather than individuals. Low-coverage sequencing assembles high-coverage sequence information fo...

    Authors: Roger Ros-Freixedes, Serap Gonen, Gregor Gorjanc and John M. Hickey

    Citation: Genetics Selection Evolution 2017 49:78

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  41. Content type: Research Article

    Copy number variations (CNV) are known to play a major role in genetic variability and disease pathogenesis in several species including cattle. In this study, we report the identification and characterization...

    Authors: Rabia Letaief, Emmanuelle Rebours, Cécile Grohs, Cédric Meersseman, Sébastien Fritz, Lidwine Trouilh, Diane Esquerré, Johanna Barbieri, Christophe Klopp, Romain Philippe, Véronique Blanquet, Didier Boichard, Dominique Rocha and Mekki Boussaha

    Citation: Genetics Selection Evolution 2017 49:77

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  42. Content type: Research Article

    Genomic prediction of purebred animals for crossbred performance can be based on a model that estimates effects of single nucleotide polymorphisms (SNPs) in purebreds on crossbred performance. For crossbred pe...

    Authors: Claudia A. Sevillano, Jeremie Vandenplas, John W. M. Bastiaansen, Rob Bergsma and Mario P. L. Calus

    Citation: Genetics Selection Evolution 2017 49:75

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    The Correction to this article has been published in Genetics Selection Evolution 2017 49:93

  43. Content type: Research article

    In statistical genetics, an important task involves building predictive models of the genotype–phenotype relationship to attribute a proportion of the total phenotypic variance to the variation in genotypes. M...

    Authors: Deniz Akdemir, Jean-Luc Jannink and Julio Isidro-Sánchez

    Citation: Genetics Selection Evolution 2017 49:74

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