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  1. Research Article

    Contribution of rare and low-frequency whole-genome sequence variants to complex traits variation in dairy cattle

    Whole-genome sequencing and imputation methodologies have enabled the study of the effects of genomic variants with low to very low minor allele frequency (MAF) on variation in complex traits. Our objective wa...

    Qianqian Zhang, Mario P. L. Calus, Bernt Guldbrandtsen, Mogens Sandø Lund and Goutam Sahana

    Genetics Selection Evolution 2017 49:60

    Published on: 1 August 2017

  2. Research Article

    Incorporation of causative quantitative trait nucleotides in single-step GBLUP

    Much effort is put into identifying causative quantitative trait nucleotides (QTN) in animal breeding, empowered by the availability of dense single nucleotide polymorphism (SNP) information. Genomic selectio...

    Breno O. Fragomeni, Daniela A. L. Lourenco, Yutaka Masuda, Andres Legarra and Ignacy Misztal

    Genetics Selection Evolution 2017 49:59

    Published on: 26 July 2017

    The Erratum to this article has been published in Genetics Selection Evolution 2017 49:65

  3. Research Article

    Interaction of direct and social genetic effects with feeding regime in growing rabbits

    Most rabbit production farms apply feed restriction at fattening because of its protective effect against digestive diseases that affect growing rabbits. However, it leads to competitive behaviour between cage...

    Miriam Piles, Ingrid David, Josep Ramon, Laurianne Canario, Oriol Rafel, Mariam Pascual, Mohamed Ragab and Juan P. Sánchez

    Genetics Selection Evolution 2017 49:58

    Published on: 20 July 2017

  4. Research Article

    Putative enhancer sites in the bovine genome are enriched with variants affecting complex traits

    Enhancers are non-coding DNA sequences, which when they are bound by specific proteins increase the level of gene transcription. Enhancers activate unique gene expression patterns within cells of different typ...

    Min Wang, Timothy P. Hancock, Iona M. MacLeod, Jennie E. Pryce, Benjamin G. Cocks and Benjamin J. Hayes

    Genetics Selection Evolution 2017 49:56

    Published on: 6 July 2017

  5. Research Article

    Genomic selection for crossbred performance accounting for breed-specific effects

    Breed-specific effects are observed when the same allele of a given genetic marker has a different effect depending on its breed origin, which results in different allele substitution effects across breeds. In...

    Marcos S. Lopes, Henk Bovenhuis, André M. Hidalgo, Johan A. M. van Arendonk, Egbert F. Knol and John W. M. Bastiaansen

    Genetics Selection Evolution 2017 49:51

    Published on: 26 June 2017

  6. Short communication

    Analysis of the genetic variation in mitochondrial DNA, Y-chromosome sequences, and MC1R sheds light on the ancestry of Nigerian indigenous pigs

    The history of pig populations in Africa remains controversial due to insufficient evidence from archaeological and genetic data. Previously, a Western ancestry for West African pigs was reported based on loci...

    Adeniyi C. Adeola, Olufunke O. Oluwole, Bukola M. Oladele, Temilola O. Olorungbounmi, Bamidele Boladuro, Sunday C. Olaogun, Lotanna M. Nneji, Oscar J. Sanke, Philip M. Dawuda, Ofelia G. Omitogun, Laurent Frantz, Robert W. Murphy, Hai-Bing Xie, Min-Sheng Peng and Ya-Ping Zhang

    Genetics Selection Evolution 2017 49:52

    Published on: 26 June 2017

  7. Research Article

    Tag SNP selection for prediction of tick resistance in Brazilian Braford and Hereford cattle breeds using Bayesian methods

    Cattle resistance to ticks is known to be under genetic control with a complex biological mechanism within and among breeds. Our aim was to identify genomic segments and tag single nucleotide polymorphisms (SN...

    Bruna P. Sollero, Vinícius S. Junqueira, Cláudia C. G. Gomes, Alexandre R. Caetano and Fernando F. Cardoso

    Genetics Selection Evolution 2017 49:49

    Published on: 15 June 2017

  8. Research Article

    On marker-based parentage verification via non-linear optimization

    Parentage verification by molecular markers is mainly based on short tandem repeat markers. Single nucleotide polymorphisms (SNPs) as bi-allelic markers have become the markers of choice for genotyping project...

    Vinzent Boerner

    Genetics Selection Evolution 2017 49:50

    Published on: 15 June 2017

  9. Research Article

    Selection for environmental variance of litter size in rabbits

    In recent years, there has been an increasing interest in the genetic determination of environmental variance. In the case of litter size, environmental variance can be related to the capacity of animals to ad...

    Agustín Blasco, Marina Martínez-Álvaro, Maria-Luz García, Noelia Ibáñez-Escriche and María-José Argente

    Genetics Selection Evolution 2017 49:48

    Published on: 22 May 2017

  10. Research Article

    Exploring the genetic architecture and improving genomic prediction accuracy for mastitis and milk production traits in dairy cattle by mapping variants to hepatic transcriptomic regions responsive to intra-mammary infection

    A better understanding of the genetic architecture of complex traits can contribute to improve genomic prediction. We hypothesized that genomic variants associated with mastitis and milk production traits in d...

    Lingzhao Fang, Goutam Sahana, Peipei Ma, Guosheng Su, Ying Yu, Shengli Zhang, Mogens Sandø Lund and Peter Sørensen

    Genetics Selection Evolution 2017 49:44

    Published on: 12 May 2017

  11. Research Article

    Novel optimum contribution selection methods accounting for conflicting objectives in breeding programs for livestock breeds with historical migration

    Optimum contribution selection (OCS) is effective for increasing genetic gain, controlling the rate of inbreeding and enables maintenance of genetic diversity. However, this diversity may be caused by high mig...

    Yu Wang, Jörn Bennewitz and Robin Wellmann

    Genetics Selection Evolution 2017 49:45

    Published on: 12 May 2017

  12. Research Article

    Combined GWAS and ‘guilt by association’-based prioritization analysis identifies functional candidate genes for body size in sheep

    Body size in sheep is an important indicator of productivity, growth and health as well as of environmental adaptation. It is a composite quantitative trait that has been studied with high-throughput genomic m...

    Antonios Kominakis, Ariadne L. Hager-Theodorides, Evangelos Zoidis, Aggeliki Saridaki, George Antonakos and George Tsiamis

    Genetics Selection Evolution 2017 49:41

    Published on: 28 April 2017

  13. Research Article

    Detection of QTL for traits related to adaptation to sub-optimal climatic conditions in chickens

    Growth traits can be used as indicators of adaptation to sub-optimal conditions. The current study aimed at identifying quantitative trait loci (QTL) that control performance under variable temperature conditi...

    Ching-Yi Lien, Michèle Tixier-Boichard, Shih-Wen Wu, Woei-Fuh Wang, Chen Siang Ng and Chih-Feng Chen

    Genetics Selection Evolution 2017 49:39

    Published on: 20 April 2017

  14. Short communication

    Genomic prediction from observed and imputed high-density ovine genotypes

    Genomic prediction using high-density (HD) marker genotypes is expected to lead to higher prediction accuracy, particularly for more heterogeneous multi-breed and crossbred populations such as those in sheep ...

    Nasir Moghaddar, Andrew A. Swan and Julius H. J. van der Werf

    Genetics Selection Evolution 2017 49:40

    Published on: 20 April 2017

  15. Research Article

    Use of multi-trait and random regression models to identify genetic variation in tolerance to porcine reproductive and respiratory syndrome virus

    A host can adopt two response strategies to infection: resistance (reduce pathogen load) and tolerance (minimize impact of infection on performance). Both strategies may be under genetic control and could thus...

    Graham Lough, Hamed Rashidi, Ilias Kyriazakis, Jack C. M. Dekkers, Andrew Hess, Melanie Hess, Nader Deeb, Antti Kause, Joan K. Lunney, Raymond R. R. Rowland, Han A. Mulder and Andrea Doeschl-Wilson

    Genetics Selection Evolution 2017 49:37

    Published on: 19 April 2017

  16. Research Article

    Deciphering mechanisms underlying the genetic variation of general production and liver quality traits in the overfed mule duck by pQTL analyses

    The aim of this study was to analyse the mechanisms that underlie phenotypic quantitative trait loci (QTL) in overfed mule ducks by identifying co-localized proteomic QTL (pQTL). The QTL design consisted of th...

    Yoannah François, Alain Vignal, Caroline Molette, Nathalie Marty-Gasset, Stéphane Davail, Laurence Liaubet and Christel Marie-Etancelin

    Genetics Selection Evolution 2017 49:38

    Published on: 19 April 2017

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