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Advances in statistical methods for genetic improvement of livestock. Edited by D. Gianola and K. Hammond. Advances Series in Agricultural Sciences
Table of contents

Genome Med. Martinez-Montes, A. Deciphering the regulation of porcine genes influencing growth, fatness and yield-related traits through genetical genomics. Genome 28 , — Gonzalez-Prendes, R. Joint QTL mapping and gene expression analysis identify positional candidate genes influencing pork quality traits. Maroilley, T. Deciphering the genetic regulation of peripheral blood transcriptome in pigs through expression genome-wide association study and allele-specific expression analysis.

Blum, Y. Complex trait subtypes identification using transcriptome profiling reveals an interaction between two QTL affecting adiposity in chicken. Johnsson, M.

Advances in Statistical Methods for Genetic Improvement of Livestock

Quantitative trait locus and genetical genomics analysis identifies putatively causal genes for fecundity and brooding in the chicken. G3 6 , — Genetical genomics of behavior: a novel chicken genomic model for anxiety behavior. Fallahsharoudi, A. QTL mapping of stress related gene expression in cross between domesticated chickens and ancestral red junglefowl. GTEx Consortium. Genetic effects on gene expression across human tissues. Dunne, J. First dairying in green Saharan Africa in the fifth millennium BC.

Mutations in DMRT3 affect locomotion in horses and spinal circuit function in mice. Molecular consequences of animal breeding. Durkin, K. Serial translocations by means of circular intermediates underlies color sidedness in cattle. Nature , 81—84 This study identified a novel CNV-generating mechanism that may underlie exon shuffling by studying coat-colour variation in cattle. Clop, A. A mutation creating a potential illegitimate microRNA target site in the myostatin gene affects muscularity in sheep. This paper describes one of the most convincing examples in mammals of a phenotype resulting from perturbed microRNA-mediated gene regulation.

Georges, M. This paper reviews the current molecular understanding of the unique phenomenon of polar overdominance at the ovine callipyge locus. MacArthur, D. A systematic survey of loss-of-function variants in human protein-coding genes. Bittles, A. The costs of human inbreeding and their implications for variations at the DNA level.

Simmons, M. Mutations affecting fitness in Drosophila populations. Lek, M. Analysis of protein-coding genetic variation in 60, humans. Baker, R.

Embryo transfer tests for bovine syndactyly. Theriogenology 13 , 87 Highly effective SNP-based association mapping and management of recessive defects in livestock. This study is one of the first illustrations of how genome-wide SNP arrays accelerated the identification of mutations causing genetic defects in domestic animals. Functionally reciprocal mutations of the prolactin signalling pathway define hairy and slick cattle. Agerholm, J. BMC Genetics 18 , 74—83 Harland, C.

Frequency of mosaicism points towards mutation-prone early cleavage cell divisions. VanRaden, P. Harmful recessive effects on fertility detected by absence of homozygous haplotypes. Dairy Sci. This study is one of the first demonstrations of how the availability of genome-wide SNP genotypes for large populations can be used to effectively identify haplotypes harbouring EL mutations affecting fertility.

Adams, H. Identification of a nonsense mutation in APAF1 that is likely causal for a decrease in reproductive efficiency in Holstein dairy cattle. A Kb deletion with antagonistic effects on fertility and milk production segregates at high frequency in Nordic Red cattle: additional evidence for the common occurrence of balancing selection in livestock.

Advances in Statistical Methods for Genetic Improvement of Livestock eBook

Sahana, G. Novel harmful recessive haplotypes identified for fertility traits in Nordic Holstein cattle. Fritz, S. Pausch, H. Homozygous haplotype deficiency reveals deleterious mutations compromising reproductive and rearing success in cattle. BMC Genomics 16 , Novel harmful recessive haplotypes for reproductive traits in pigs. Derks, M. A systematic survey to identify lethal recessive variation in highly managed pig populations. BMC Genomics 18 , — McClure, M.

Sonstegard, T. Identification of a nonsense mutation in CWC15 associated with decreased reproductive efficiency in Jersey cattle. An initiator codon mutation in SDE2 causes recessive embryonic lethality in Holstein cattle. Martinez, V. Analysis of response to 20 generations of selection for body composition in mice: fit to infinitesimal model assumptions. Henderson, C. Sire evaluation and genetic trends. Wright, S. Coefficients of inbreeding and relationship. Malecot, G. Ritland, K.

Genomics: A Paradigm Shift in Animal Breeding

Estimators of pairwise relatedness and individual inbreeding coefficients. Toro, M.

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Estimation of coancestry in Iberian pigs using molecular markers. Garant, D. How to use molecular marker data to measure evolutionary parameters in wild populations. Aguilar, I. A unified approach to utilize phenotypic, full pedigree, and genomic information for genetic evaluation of Holstein final score.

This study is one of the first demonstrations that pedigree, genomic and phenotypic information from millions of animals could be combined in a single-step approach to predict GEBVs.

Advances in statistical methods for genetic improvement of livestock.

Christensen, O. Genomic prediction when some animals are not genotyped. Liu, Z. A single-step genomic model with direct estimation of marker effects. Fernando, R.

An equivalent gametic model for animal dominance genetic linear model

A class of Bayesian methods to combine large numbers of genotyped and non-genotyped animals for whole-genome analyses. Computational strategies for alternative single-step Bayesian regression models with large numbers of genotyped and non-genotyped animals.

Misztal, I.

Invited review: efficient computation strategies in genomic selection. Animal 11 , — Changes in genetic selection differentials and generation intervals in US Holstein dairy cattle as a result of genomic selection. Natl Acad. USA , — This study demonstrates the impact of GS on genetic gain in the US dairy industry.

The value of using DNA markers for beef bull selection in the seedstock sector. Lourenco, D. Genetic evaluation using single-step genomic best linear unbiased predictor in American Angus. Abell, C. Total cost estimation for implementing genome-enabled selection in a multi-level swine production system.